R3X039 last accessed: 2022-11-04

Other names: Protein, NCBI Protein database, NCBI Protein

The Entrez Protein search and retrieval system contains protein entries that have been compiled from a variety of sources, including SwissProt, PIR, PRF, PDB, and translations from annotated coding regions in GenBank and RefSeq.

Webpage:

http://www.ncbi.nlm.nih.gov/protein

Licence:

Name: Open Data Commons (ODC) Public Domain Dedication and Licence (PDDL) 1.0
URL: http://opendatacommons.org/licenses/pddl/1.0/

Publications:

Publications
More detailed information about this field from each metasource.

Database resources of the National Center for Biotechnology Information
PMID: 26615191
metasource: Fairsharing.org
version: FAIRsharing.org: Protein; The Protein Database; DOI: https://doi.org/10.25504/FAIRsharing.rtndct; Last edited: July 7, 2021, 9:23 a.m.; Last accessed: Jan 03 2022 7:08 p.m.

Database resources of the National Center for Biotechnology Information
PMID: 23193264
metasource: Fairsharing.org
version: FAIRsharing.org: Protein; The Protein Database; DOI: https://doi.org/10.25504/FAIRsharing.rtndct; Last edited: July 7, 2021, 9:23 a.m.; Last accessed: Jan 03 2022 7:08 p.m.

Database resources of the National Center for Biotechnology Information PubMed citations: 558.

558 articles citing: Database resources of the National Center for Biotechnology Information

Purification and Characterization of a Novel Extracellular Haloprotease Vpr from Bacillus licheniformis Strain KB111. PMID:35910276
A systematic review of skin ageing genes: gene pleiotropy and genes on the chromosomal band 16q24.3 may drive skin ageing. PMID:35907981
Mutations in SORL1 and MTHFDL1 possibly contribute to the development of Alzheimer's disease in a multigenerational Colombian Family. PMID:35905044
Peroxisome Proliferator-Activated Receptor Activation in Precision-Cut Bovine Liver Slices Reveals Novel Putative PPAR Targets in Periparturient Dairy Cows. PMID:35903133
Confidence bands and hypothesis tests for hit enrichment curves. PMID:35902962
Meta-Prism 2.0: Enabling algorithm and web server for ultra-fast, memory-efficient, and accurate analysis among millions of microbial community samples. PMID:35902093
Transcriptional and Translational Dynamics of Zika and Dengue Virus Infection. PMID:35891396
Mining Amphibian and Insect Transcriptomes for Antimicrobial Peptide Sequences with rAMPage. PMID:35884206
SANA: cross-species prediction of Gene Ontology GO annotations via topological network alignment. PMID:35859153
Mode of action of fluopyram in plant-parasitic nematodes. PMID:35831379
Characterization of a novel thermophilic metagenomic GH5 endoglucanase heterologously expressed in Escherichia coli and Saccharomyces cerevisiae. PMID:35799200
A Bioinformatics Approach to Investigate Structural and Non-Structural Proteins in Human Coronaviruses. PMID:35774504
Lycophyte transcriptomes reveal two whole-genome duplications in Lycopodiaceae: Insights into the polyploidization of Phlegmariurus. PMID:35769590
Manufacturing Mesenchymal Stromal Cells for the Treatment of Osteoarthritis in Canine Patients: Challenges and Recommendations. PMID:35754551
PhyloFunDB: A Pipeline to Create and Update Functional Gene Taxonomic Databases. PMID:35744611
The Origin and Evolution of RNase T2 Family and Gametophytic Self-incompatibility System in Plants. PMID:35714207
Large-Scale Analysis of X Inactivation Variations between Primed and Naïve Human Embryonic Stem Cells. PMID:35681423
Comparative transcriptome analysis reveals a rapid response to phosphorus deficiency in a phosphorus-efficient rice genotype. PMID:35676419
Single cell transcriptomics reveals dysregulated cellular and molecular networks in a fragile X syndrome model. PMID:35675353
Genetic Variants Associated With Resilience in Human and Animal Studies. PMID:35669264
In search of ecological determinants of fungal infections: A semi-field experiment with folivorous moths. PMID:35646316
Lack of Association between Fluconazole Susceptibility and ERG11 Nucleotide Polymorphisms in Cryptococcus neoformans Clinical Isolates from Uganda. PMID:35628763
Bioprospecting for Thermozymes and Characterization of a Novel Lipolytic Thermozyme Belonging to the SGNH/GDSL Family of Hydrolases. PMID:35628544
High intratumoral dihydrotestosterone is associated with antiandrogen resistance in VCaP prostate cancer xenografts in castrated mice. PMID:35573198
A high-density genome-wide association with absolute blood monocyte count in domestic sheep identifies novel loci. PMID:35522671
Exploring synergies between plant metabolic modelling and machine learning. PMID:35521559
Streptococcus oriscaviae sp. nov. Infection Associated with Guinea Pigs. PMID:35510851
GEMmaker: process massive RNA-seq datasets on heterogeneous computational infrastructure. PMID:35501696
High-Resolution Screening for Marine Prokaryotes and Eukaryotes With Selective Preference for Polyethylene and Polyethylene Terephthalate Surfaces. PMID:35495680
Decoding the PITX2-controlled genetic network in atrial fibrillation. PMID:35471998
Molecular Detection and Genetic Diversity of Tick-Borne Pathogens in Goats from the Southern Part of Thailand. PMID:35456152
Prognostic Value of LINC-ROR (rs1942347) Variant in Patients with Colon Cancer Harboring BRAF Mutation: A Propensity Score-Matched Analysis. PMID:35454158
Prevalence, antimicrobial susceptibility, and genotyping of Streptococcus agalactiae in Tilapia fish (Oreochromis niloticus) in Egypt. PMID:35445125
In silico exploration of lignin peroxidase for unraveling the degradation mechanism employing lignin model compounds. PMID:35423962
Detection and identification of authorized and unauthorized GMOs using high-throughput sequencing with the support of a sequence-based GMO database. PMID:35415691
Transcriptional Regulation of the Synaptic Vesicle Protein Synaptogyrin-3 (SYNGR3) Gene: The Effects of NURR1 on Its Expression. PMID:35409005
Sas20 is a highly flexible starch-binding protein in the Ruminococcus bromii cell-surface amylosome. PMID:35378131
Variants Within Genes EDIL3 and ADGRB3 are Associated With Divergent Fecal Egg Counts in Katahdin Sheep at Weaning. PMID:35360858
Whole Genome Sequence Analysis of a Prototype Strain of the Novel Putative Rotavirus Species L. PMID:35336869
Methyl Jasmonate Activates the 2C Methyl-D-erithrytol 2,4-cyclodiphosphate Synthase Gene and Stimulates Tanshinone Accumulation in Salvia miltiorrhiza Solid Callus Cultures. PMID:35335134
MEN4, the MEN1 Mimicker: A Case Series of three Phenotypically Heterogenous Patients With Unique CDKN1B Mutations. PMID:35323929
Rescuing low frequency variants within intra-host viral populations directly from Oxford Nanopore sequencing data. PMID:35288552
Chemotaxonomic Classification of Peucedanum japonicum and Its Chemical Correlation with Peucedanum praeruptorum, Angelica decursiva, and Saposhnikovia divaricata by Liquid Chromatography Combined with Chemometrics. PMID:35268776
In-Silico Detection of Oral Prokaryotic Species With Highly Similar 16S rRNA Sequence Segments Using Different Primer Pairs. PMID:35223533
Regulation of GTPase function by autophosphorylation. PMID:35202574
Novel RAB3GAP1 Mutation in the First Tunisian Family With Warburg Micro Syndrome. PMID:35196747
Identification of Distinct Characteristics of Antibiofilm Peptides and Prospection of Diverse Sources for Efficacious Sequences. PMID:35185814
An efficient and specific CRISPR-Cas9 genome editing system targeting soybean phytoene desaturase genes. PMID:35168613
Molecular evolution of hatching enzymes and their paralogous genes in vertebrates. PMID:35109790
Inferring Protein Function in an Emerging Virus: Detection of the Nucleoprotein in Tilapia Lake Virus. PMID:35107373
Crystal structure and initial characterization of a novel archaeal-like Holliday junction-resolving enzyme from Thermus thermophilus phage Tth15-6. PMID:35102887
Complexome Profiling-Exploring Mitochondrial Protein Complexes in Health and Disease. PMID:35096826
Multi-tumor analysis of cancer-stroma interactomes of patient-derived xenografts unveils the unique homeostatic process in renal cell carcinomas. PMID:35079698
MinION™ Nanopore Sequencing of Skin Microbiome 16S and 16S-23S rRNA Gene Amplicons. PMID:35071053
The Bacteroidetes Aequorivita sp. and Kaistella jeonii Produce Promiscuous Esterases With PET-Hydrolyzing Activity. PMID:35069509
Bringing bioinformatics to schools with the 4273pi project. PMID:35051174
Core promoter mutation contributes to abnormal gene expression in bladder cancer. PMID:35033028
Identification, functional characterization, assembly and structure of ToxIN type III toxin-antitoxin complex from E. coli. PMID:35018473
Completing the Genome Sequence of Chlamydia pecorum Strains MC/MarsBar and DBDeUG: New Insights into This Enigmatic Koala (Phascolarctos cinereus) Pathogen. PMID:34959498
Insights from a comprehensive study of Trypanosoma cruzi: A new mitochondrial clade restricted to North and Central America and genetic structure of TcI in the region. PMID:34919556
Novel high-resolution targeted sequencing of the cervicovaginal microbiome. PMID:34915863
Development and comparison of loop-mediated isothermal amplification with quantitative PCR for the specific detection of Saprolegnia spp. PMID:34898622
Collapse of the mammoth-steppe in central Yukon as revealed by ancient environmental DNA. PMID:34880234
Looking through the FOG: microbiome characterization and lipolytic bacteria isolation from a fatberg site. PMID:34870579
Metallothionein 3-Zinc Axis Suppresses Caspase-11 Inflammasome Activation and Impairs Antibacterial Immunity. PMID:34867993
Indigenous microbial communities in heavy oil show a threshold response to salinity. PMID:34864985
A statistical analysis of antigenic similarity among influenza A (H3N2) viruses. PMID:34825090
Multistate Outbreak of SARS-CoV-2 Infections, Including Vaccine Breakthrough Infections, Associated with Large Public Gatherings, United States. PMID:34793690
Pneumococcal Extracellular Serine Proteases: Molecular Analysis and Impact on Colonization and Disease. PMID:34790590
Assemblies of the genomes of parasitic wasps using meta-assembly and scaffolding with genetic linkage. PMID:34751385
Ancestral sequences of a large promiscuous enzyme family correspond to bridges in sequence space in a network representation. PMID:34727710
Mouse Genome Informatics (MGI): latest news from MGD and GXD. PMID:34698891
Novel Candidate Genes Differentially Expressed in Glyphosate-Treated Horseweed (Conyza canadensis). PMID:34681011
Global Transcriptome Characterization and Assembly of the Thermophilic Ascomycete Chaetomium thermophilum. PMID:34680944
Text Mining for Building Biomedical Networks Using Cancer as a Case Study. PMID:34680062
Observed Antibody Space: A diverse database of cleaned, annotated, and translated unpaired and paired antibody sequences. PMID:34655133
Mitochondrial Genomes, Phylogenetic Associations, and SNP Recovery for the Key Invasive Ponto-Caspian Amphipods in Europe. PMID:34638649
Manual Annotation Studio (MAS): a collaborative platform for manual functional annotation of viral and microbial genomes. PMID:34627149
Protein expression reveals a molecular sexual identity of avian primordial germ cells at pre-gonadal stages. PMID:34584135
A systematic bioinformatics approach for large-scale identification and characterization of host-pathogen shared sequences. PMID:34583643
Metatranscriptomic Analysis of Human Lung Metagenomes from Patients with Lung Cancer. PMID:34573440
A Robust Seven-Gene Signature Associated With Tumor Microenvironment to Predict Survival Outcomes of Patients With Stage III-IV Lung Adenocarcinoma. PMID:34552612
The biogeographic differentiation of algal microbiomes in the upper ocean from pole to pole. PMID:34531387
DIMPL: a bioinformatics pipeline for the discovery of structured noncoding RNA motifs in bacteria. PMID:34524415
Rescuing Low Frequency Variants within Intra-Host Viral Populations directly from Oxford Nanopore sequencing data. PMID:34518837
Genome Mining and Molecular Networking-Based Metabolomics of the Marine Facultative Aspergillus sp. MEXU 27854. PMID:34500798
Longitudinal Secretion of Paramyxovirus RNA in the Urine of Straw-Coloured Fruit Bats (Eidolon helvum). PMID:34452518
Native structure of the RhopH complex, a key determinant of malaria parasite nutrient acquisition. PMID:34446549
Distribution of Denitrification among Haloarchaea: A Comprehensive Study. PMID:34442748
Using Functional Annotations to Study Pairwise Interactions in Urinary Tract Infection Communities. PMID:34440394
Molecular Pathways Involved in the Development of Congenital Erythrocytosis. PMID:34440324
Next-Generation Sequencing Analysis of the Tineola bisselliella Larval Gut Transcriptome Reveals Candidate Enzymes for Keratin Digestion. PMID:34440287
The first complete mitochondrial genome of Macalpinomyces bursus (Ustilaginales: Ustilaginaceae) and insights into its phylogeny. PMID:34377791
Arf GTPase-activating proteins SMAP1 and AGFG2 regulate the size of Weibel-Palade bodies and exocytosis of von Willebrand factor. PMID:34369554
Planarian Anatomy Ontology: a resource to connect data within and across experimental platforms. PMID:34318308
The enigmatic RNase MRP of kinetoplastids. PMID:34308760
Complete Genome Sequence of a Bacteroides fragilis Bacteriophage, vB_BfrS_NCTC. PMID:34292066
Organism-Specific training improves performance of linear B-Cell epitope prediction. PMID:34289025
Co-occurrence and patterns of phosphate solubilizing, salt and metal tolerant and antibiotic-resistant bacteria in diverse soils. PMID:34249597
Mutational Landscape of the Proglucagon-Derived Peptides. PMID:34220721
Analysis of High Molecular Mass Compounds from the Spider Pamphobeteus verdolaga Venom Gland. A Transcriptomic and MS ID Approach. PMID:34209760
Molecular Insights into the Oxygen-Sensing Pathway and Erythropoietin Expression Regulation in Erythropoiesis. PMID:34209205
Direct Molecular Evidence for an Ancient, Conserved Developmental Toolkit Controlling Posttranscriptional Gene Regulation in Land Plants. PMID:34196710
Complex Interaction Networks Among Cyanolichens of a Tropical Biodiversity Hotspot. PMID:34177853
Prokaryotic, Fungal, and Unicellular Eukaryotic Core Communities Across Three Sympatric Marine Sponges From the Southwestern Atlantic Coast Are Dominated Largely by Deterministic Assemblage Processes. PMID:34168631
Characterization of Bacterial Community Dynamics of the Human Mouth Throughout Decomposition via Metagenomic, Metatranscriptomic, and Culturing Techniques. PMID:34163458
Online database for brain cancer-implicated genes: exploring the subtype-specific mechanisms of brain cancer. PMID:34144671
Metatranscriptome Library Preparation Influences Analyses of Viral Community Activity During a Brown Tide Bloom. PMID:34135876
AMRFinderPlus and the Reference Gene Catalog facilitate examination of the genomic links among antimicrobial resistance, stress response, and virulence. PMID:34135355
Target identification among known drugs by deep learning from heterogeneous networks. PMID:34123272
Characterization of the Complete Mitochondrial Genome of Basidiomycete Yeast Hannaella oryzae: Intron Evolution, Gene Rearrangement, and Its Phylogeny. PMID:34122362
Identical sequences found in distant genomes reveal frequent horizontal transfer across the bacterial domain. PMID:34121661
Cross-Hemisphere Study Reveals Geographically Ubiquitous, Plastic-Specific Bacteria Emerging from the Rare and Unexplored Biosphere. PMID:34106771
Two RmlC homologs catalyze dTDP-4-keto-6-deoxy-D-glucose epimerization in Pseudomonas putida KT2440. PMID:34099824
Contribution of genetic ancestry and polygenic risk score in meeting vitamin B12 needs in healthy Brazilian children and adolescents. PMID:34099811
The nonreceptor tyrosine kinase SRMS inhibits autophagy and promotes tumor growth by phosphorylating the scaffolding protein FKBP51. PMID:34077419
Transcriptional Profiling of Porcine Blastocysts Produced In Vitro in a Chemically Defined Culture Medium. PMID:34069238
Main protease inhibitors and drug surface hotspots for the treatment of COVID-19: A drug repurposing and molecular docking approach. PMID:34052565
Decreased GLUT2 and glucose uptake contribute to insulin secretion defects in MODY3/HNF1A hiPSC-derived mutant β cells. PMID:34035238
PhenCards: a data resource linking human phenotype information to biomedical knowledge. PMID:34034817
Kaustia mangrovi gen. nov., sp. nov. isolated from Red Sea mangrove sediments belongs to the recently proposed Parvibaculaceae family within the order Rhizobiales. PMID:33999795
MINTyper: an outbreak-detection method for accurate and rapid SNP typing of clonal clusters with noisy long reads. PMID:33981853
Inhibition of hyaluronan secretion by novel coumarin compounds and chitin synthesis inhibitors. PMID:33978736
Identification of linear epitopes on the flagellar proteins of Clostridioides difficile. PMID:33976336
Updates to HCOP: the HGNC comparison of orthology predictions tool. PMID:33959747
Community composition and functional prediction of prokaryotes associated with sympatric sponge species of southwestern Atlantic coast. PMID:33953214
Environmental DNA provides higher resolution assessment of riverine biodiversity and ecosystem function via spatio-temporal nestedness and turnover partitioning. PMID:33941836
Methods for Identifying Microbial Natural Product Compounds that Target Kinetoplastid RNA Structural Motifs by Homology and De Novo Modeled 18S rRNA. PMID:33925823
Molecular Characterisation of Cryptosporidium spp. in Mozambican Children Younger than 5 Years Enrolled in a Matched Case-Control Study on the Aetiology of Diarrhoeal Disease. PMID:33918893
Whole genome-based characterisation of antimicrobial resistance and genetic diversity in Campylobacter jejuni and Campylobacter coli from ruminants. PMID:33903652
Roles of three putative salmon louse (Lepeophtheirus salmonis) prostaglandin E2 synthases in physiology and host-parasite interactions. PMID:33874988
Genomic characterization of a polyvalent hydrocarbonoclastic bacterium Pseudomonas sp. strain BUN14. PMID:33854112
A bird-like genome from a frog: Mechanisms of genome size reduction in the ornate burrowing frog, Platyplectrum ornatum. PMID:33836564
Diosmin Mitigates Cyclophosphamide Induced Premature Ovarian Insufficiency in Rat Model. PMID:33802633
An ancient, conserved gene regulatory network led to the rise of oral venom systems. PMID:33782124
Identification of a Prognostic Signature Model with Tumor Microenvironment for predicting Disease-free Survival after Radical Prostatectomy. PMID:33758613
Introducing the ArsR-Regulated Arsenic Stimulon. PMID:33746923
The Distribution of Several Genomic Virulence Determinants Does Not Corroborate the Established Serotyping Classification of Bacillus thuringiensis. PMID:33668147
A Combined Metagenomics and Metatranscriptomics Approach to Unravel Costa Rican Cocoa Box Fermentation Processes Reveals Yet Unreported Microbial Species and Functionalities. PMID:33664725
Screening of drug databank against WT and mutant main protease of SARS-CoV-2: Towards finding potential compound for repurposing against COVID-19. PMID:33649700
Transcriptome analysis reveals major transcriptional changes during regrowth after mowing of red clover (Trifolium pratense). PMID:33588756
Proposal of the Annotation of Phosphorylated Amino Acids and Peptides Using Biological and Chemical Codes. PMID:33573096
The Role of Low Complexity Regions in Protein Interaction Modes: An Illustration in Huntingtin. PMID:33572172
Comprehensive characterization of protein-protein interactions perturbed by disease mutations. PMID:33558758
Sequence characterisation and novel insights into bovine mastitis-associated Streptococcus uberis in dairy herds. PMID:33542314
Identification of SNPs Associated with Somatic Cell Score in Candidate Genes in Italian Holstein Friesian Bulls. PMID:33535694
The complete mitochondrial genome of yellow crazy ant, Anoplolepis gracilipes (Hymenoptera: Formicidae). PMID:33490524
Phylogenomics of the Maverick Virus-Like Mobile Genetic Elements of Vertebrates. PMID:33481003
Fungi Recorded on Folivorous Lepidoptera: High Diversity Despite Moderate Prevalence. PMID:33466243
Using COVID-19 as a teaching tool in a time of remote learning: A workflow for bioinformatic approaches to identifying candidates for therapeutic and vaccine development. PMID:33463080
Monitoring Microbial Populations and Antibiotic Resistance Gene Enrichment Associated with Arctic Waste Stabilization Ponds. PMID:33452030
The case for open science: rare diseases. PMID:33426479
In silico comparative analysis of Aeromonas Type VI Secretion System. PMID:33410103
Rapid Evolution of HERC6 and Duplication of a Chimeric HERC5/6 Gene in Rodents and Bats Suggest an Overlooked Role of HERCs in Mammalian Immunity. PMID:33391270
The Proteomic Landscape of Resting and Activated CD4+ T Cells Reveal Insights into Cell Differentiation and Function. PMID:33383959
Combination of Serum Amyloid A and C-Reactive Protein Exhibit Synergistic Effect in Angiogenesis by Inducing Inflammation and Vascular Network. PMID:33364190
The 287,403 bp Mitochondrial Genome of Ectomycorrhizal Fungus Tuber calosporum Reveals Intron Expansion, tRNA Loss, and Gene Rearrangement. PMID:33362740
Classification and phylogeny for the annotation of novel eukaryotic GNAT acetyltransferases. PMID:33362253
Taxonomic classification of strain PO100/5 shows a broader geographic distribution and genetic markers of the recently described Corynebacterium silvaticum. PMID:33347470
FireProtASR: A Web Server for Fully Automated Ancestral Sequence Reconstruction. PMID:33346815
Large expert-curated database for benchmarking document similarity detection in biomedical literature search. PMID:33326193
VIPERdb v3.0: a structure-based data analytics platform for viral capsids. PMID:33313778
MitImpact 3: modeling the residue interaction network of the Respiratory Chain subunits. PMID:33300029
Wolbachia infection in wild mosquitoes (Diptera: Culicidae): implications for transmission modes and host-endosymbiont associations in Singapore. PMID:33298138
Intronic tRNAs of mitochondrial origin regulate constitutive and alternative splicing. PMID:33292386
EphA7 isoforms differentially regulate cortical dendrite development. PMID:33275600
Personalized B cell response to the Lactobacillus rhamnosus GG probiotic in healthy human subjects: a randomized trial. PMID:33274667
Bacterial Immunogenicity Prediction by Machine Learning Methods. PMID:33265930
Prediction of Burkholderia pseudomallei DsbA substrates identifies potential virulence factors and vaccine targets. PMID:33216758
Repurposed drugs and nutraceuticals targeting envelope protein: A possible therapeutic strategy against COVID-19. PMID:33189776
COVID19 Drug Repository: text-mining the literature in search of putative COVID19 therapeutics. PMID:33166390
A network medicine approach to investigation and population-based validation of disease manifestations and drug repurposing for COVID-19. PMID:33156843
Chromatin accessibility dynamics of Chlamydia-infected epithelial cells. PMID:33109274
The on-premise data sharing infrastructure e!DAL: Foster FAIR data for faster data acquisition. PMID:33090199
Computational pipeline to probe NaV1.7 gain-of-function variants in neuropathic painful syndromes. PMID:33087732
Immunological Aspects of Chytridiomycosis. PMID:33086692
DualSeqDB: the host-pathogen dual RNA sequencing database for infection processes. PMID:33084904
Forest stratification shapes allometry and flight morphology of tropical butterflies. PMID:33081613
SP_0916 Is an Arginine Decarboxylase That Catalyzes the Synthesis of Agmatine, Which Is Critical for Capsule Biosynthesis in Streptococcus pneumoniae. PMID:33072045
Legacy Effects Overshadow Tree Diversity Effects on Soil Fungal Communities in Oil Palm-Enrichment Plantations. PMID:33066264
Disseminated Saksenaea infection in an immunocompromised host associated with a good clinical outcome: a case report and review of the literature. PMID:33054720
Rich Repertoire of Quorum Sensing Protein Coding Sequences in CPR and DPANN Associated with Interspecies and Interkingdom Communication. PMID:33051376
Vaginal microbiota and human papillomavirus infection among young Swedish women. PMID:33046723
A role for the MEGF6 gene in predisposition to osteoporosis. PMID:33026655
Mixotrophic Iron-Oxidizing Thiomonas Isolates from an Acid Mine Drainage-Affected Creek. PMID:33008825
Multiple Isolated Transcription Factors Act as Switches and Contribute to Species Uniqueness. PMID:33003522
Prediction of potential inhibitors for RNA-dependent RNA polymerase of SARS-CoV-2 using comprehensive drug repurposing and molecular docking approach. PMID:32950529
Short k-mer abundance profiles yield robust machine learning features and accurate classifiers for RNA viruses. PMID:32946529
Exploring changes in the human gut microbiota and microbial-derived metabolites in response to diets enriched in simple, refined, or unrefined carbohydrate-containing foods: a post hoc analysis of a randomized clinical trial. PMID:32936872
Rapid Detection of Azole-Resistant Aspergillus fumigatus in Clinical and Environmental Isolates by Use of a Lab-on-a-Chip Diagnostic System. PMID:32907990
CeRNA Network Analysis Representing Characteristics of Different Tumor Environments Based on 1p/19q Codeletion in Oligodendrogliomas. PMID:32906679
A molecular sensor to quantify the localization of proteins, DNA and nanoparticles in cells. PMID:32901011
Metagenomic and Metatranscriptomic Study of Microbial Metal Resistance in an Acidic Pit Lake. PMID:32899650
Myxosporea (Myxozoa, Cnidaria) Lack DNA Cytosine Methylation. PMID:32898240
UCSF ChimeraX: Structure visualization for researchers, educators, and developers. PMID:32881101
The First Mitochondrial Genome for Geastrales (Sphaerobolus stellatus) Reveals Intron Dynamics and Large-Scale Gene Rearrangements of Basidiomycota. PMID:32849488
Broad host range of SARS-CoV-2 predicted by comparative and structural analysis of ACE2 in vertebrates. PMID:32826334
Identification of critical genes in gastric cancer to predict prognosis using bioinformatics analysis methods. PMID:32793728
Identification of SARS-CoV-2 Cell Entry Inhibitors by Drug Repurposing Using in silico Structure-Based Virtual Screening Approach. PMID:32754161
A conserved coccidian gene is involved in Toxoplasma sensitivity to the anti-apicomplexan compound, tartrolon E. PMID:32738587
Production of Paralytic Shellfish Toxins (PSTs) in Toxic Alexandrium catenella is Intertwined with Photosynthesis and Energy Production. PMID:32727048
Dysbiosis, gut barrier dysfunction and inflammation in dementia: a pilot study. PMID:32690030
Calcium regulates the mycophagous ability of Burkholderia gladioli strain NGJ1 in a type III secretion system-dependent manner. PMID:32689944
A Network Medicine Approach to Investigation and Population-based Validation of Disease Manifestations and Drug Repurposing for COVID-19. PMID:32676577
In Silico Genotyping of Escherichia coli Isolates for Extraintestinal Virulence Genes by Use of Whole-Genome Sequencing Data. PMID:32669379
Quality Matters: Biocuration Experts on the Impact of Duplication and Other Data Quality Issues in Biological Databases. PMID:32652120
The proofreading activity of Pfprex from Plasmodium falciparum can prevent mutagenesis of the apicoplast genome by oxidized nucleotides. PMID:32636411
Impact of Different Trace Elements on the Growth and Proteome of Two Strains of Granulicella, Class "Acidobacteriia". PMID:32625179
Fulvic acid increases forage legume growth inducing preferential up-regulation of nodulation and signalling-related genes. PMID:32599619
Determining the Genetic Characteristics of Resistance and Virulence of the "Epidermidis Cluster Group" Through Pan-Genome Analysis. PMID:32596166
Mapping CRISPR spaceromes reveals vast host-specific viromes of prokaryotes. PMID:32572116
Epilepsy subtype-specific copy number burden observed in a genome-wide study of 17 458 subjects. PMID:32568404
Increasing incidence of group B streptococcus neonatal infections in the Netherlands is associated with clonal expansion of CC17 and CC23. PMID:32533007
Coexistence of genetically different Rhizophagus irregularis isolates induces genes involved in a putative fungal mating response. PMID:32514118
Broad Host Range of SARS-CoV-2 Predicted by Comparative and Structural Analysis of ACE2 in Vertebrates. PMID:32511356
Landscape of drug-resistance mutations in kinase regulatory hotspots. PMID:32510566
A single-cell view on alga-virus interactions reveals sequential transcriptional programs and infection states. PMID:32490206
Vertical lossless genomic data compression tools for assembled genomes: A systematic literature review. PMID:32453750
MAGA: A Supervised Method to Detect Motifs From Annotated Groups in Alignments. PMID:32425492
Early Metazoan Origin and Multiple Losses of a Novel Clade of RIM Presynaptic Calcium Channel Scaffolding Protein Homologs. PMID:32413100
Dynamics of the Stool Virome in Very Early-Onset Inflammatory Bowel Disease. PMID:32406906
The Bioinformatic and In Vitro Studies of Clostridioides Difficile Aminopeptidase M24 Revealed the Immunoreactive KKGIK Peptide. PMID:32392707
Footprints of a Singular 22-Nucleotide RNA Ring at the Origin of Life. PMID:32344921
Comparative Genome Analysis of Hungarian and Global Strains of Salmonella Infantis. PMID:32318036
Comprehensive insights on pivotal prognostic signature involved in clear cell renal cell carcinoma microenvironment using the ESTIMATE algorithm. PMID:32311223
Cathepsin B in neurodegeneration of Alzheimer's disease, traumatic brain injury, and related brain disorders. PMID:32305689
Improving Quantitative Power in Digital PCR through Digital High-Resolution Melting. PMID:32295887
Phylogenetic and sequence analyses of insect transferrins suggest that only transferrin 1 has a role in iron homeostasis. PMID:32237057
Bringing to light the molecular evolution of GUX genes in plants. PMID:32232316
A Critical Role for Estrogen-Related Receptor Signaling in Cardiac Maturation. PMID:32212902
Developing and applying computational resources for biochemistry education. PMID:32203640
Network-based drug repurposing for novel coronavirus 2019-nCoV/SARS-CoV-2. PMID:32194980
Integrative omics analysis of Pseudomonas aeruginosa virus PA5oct highlights the molecular complexity of jumbo phages. PMID:32154616
Chronic Sublethal Aluminum Exposure and Avena fatua Caryopsis Colonization Influence Gene Expression of Fusarium avenaceum F.a.1. PMID:32117103
Development of epitope-based peptide vaccine against novel coronavirus 2019 (SARS-COV-2): Immunoinformatics approach. PMID:32108359
OmixLitMiner: A Bioinformatics Tool for Prioritizing Biological Leads from 'Omics Data Using Literature Retrieval and Data Mining. PMID:32092871
An In Vitro Pipeline for Screening and Selection of Citrus-Associated Microbiota with Potential Anti-"Candidatus Liberibacter asiaticus" Properties. PMID:32086307
Dynamic Evolution of De Novo DNA Methyltransferases in Rodent and Primate Genomes. PMID:32077945
The African Swine Fever Virus Transcriptome. PMID:32075923
The effects of a multispecies synbiotic on microbiome-related side effects of long-term proton pump inhibitor use: A pilot study. PMID:32066847
Similar genomic patterns of clinical infective endocarditis and oral isolates of Streptococcus sanguinis and Streptococcus gordonii. PMID:32066773
Quantifying Gene Essentiality Based on the Context of Cellular Components. PMID:32038710
Deep Analysis of Residue Constraints (DARC): identifying determinants of protein functional specificity. PMID:32015389
Dysregulated FXR-FGF19 signaling and choline metabolism are associated with gut dysbiosis and hyperplasia in a novel pig model of pediatric NASH. PMID:32003601
Global transcriptome analysis of alfalfa reveals six key biological processes of senescent leaves. PMID:32002335
Osteogenesis imperfecta in a male holstein calf associated with a possible oligogenic origin. PMID:31980012
Identifying SNAREs by Incorporating Deep Learning Architecture and Amino Acid Embedding Representation. PMID:31920706
Diagnostic Profiling of the Human Public IgM Repertoire With Scalable Mimotope Libraries. PMID:31849974
Experiment design driven FAIRification of omics data matrices, an exemplar. PMID:31831744
Assessment of Polygala paniculata (Polygalaceae) characteristics for evolutionary studies of legume-rhizobia symbiosis. PMID:31828682
In-Silico Evaluation of a New Gene From Wheat Reveals the Divergent Evolution of the CAP160 Homologous Genes Into Monocots. PMID:31820048
Genome-wide screening of abberant methylated drivers combined with relative risk loci in bladder cancer. PMID:31794632
A guide to machine learning for bacterial host attribution using genome sequence data. PMID:31778355
ClinVar: improvements to accessing data. PMID:31777943
Genome size and endopolyploidy evolution across the moss phylogeny. PMID:31777923
Bottom-up structural proteomics: cryoEM of protein complexes enriched from the cellular milieu. PMID:31768063
A network-based approach to uncover microRNA-mediated disease comorbidities and potential pathobiological implications. PMID:31754458
Gene Regulation Shifts Shed Light on Fungal Adaption in Plant Biomass Decomposers. PMID:31744914
A Cautionary Report for Pathogen Identification Using Shotgun Metagenomics; A Comparison to Aerobic Culture and Polymerase Chain Reaction for Salmonella enterica Identification. PMID:31736924
The origin and evolution of cell-intrinsic antibacterial defenses in eukaryotes. PMID:31731216
Complete hybrid genome assembly of clinical multidrug-resistant Bacteroides fragilis isolates enables comprehensive identification of antimicrobial-resistance genes and plasmids. PMID:31697231
Microbiome responses during virulence adaptation by a phloem-feeding insect to resistant near-isogenic rice lines. PMID:31695897
'One DB to rule them all'-the RING: a Regulatory INteraction Graph combining TFs, genes/proteins, SNPs, diseases and drugs. PMID:31682269
Presence of CC Genotype for rs17773430 Could Affect the Percentage of Excess Weight Loss 1 Year After Bariatric Surgery: Tehran Obesity Treatment Study (TOTS). PMID:31637671
Zinc uptake in the Basidiomycota: Characterization of zinc transporters in Ustilago maydis. PMID:31617434
Differential interaction of the dark septate endophyte Cadophora sp. and fungal pathogens in vitro and in planta. PMID:31609451
Application of Augmented Intelligence for Pharmacovigilance Case Seriousness Determination. PMID:31605285
Orthologous nuclear markers and new transcriptomes that broadly cover the phylogenetic diversity of Acanthaceae. PMID:31572631
Genome Improvement and Genetic Map Construction for Aethionema arabicum, the First Divergent Branch in the Brassicaceae Family. PMID:31554715
PARAGEN 1.0: A Standardized Synthetic Gene Library for Fast Cell-Free Bacteriocin Synthesis. PMID:31552239
Reference gene and small RNA data from multiple tissues of Davidia involucrata Baill. PMID:31551451
BPSL1626: Reverse and Structural Vaccinology Reveal a Novel Candidate for Vaccine Design against Burkholderia pseudomallei. PMID:31544878
Enabling Web-scale data integration in biomedicine through Linked Open Data. PMID:31531395
Homologous recombination shapes the genetic diversity of African swine fever viruses. PMID:31500735
High-Quality Draft Genome Sequence of the Causal Agent of the Current Panama Disease Epidemic. PMID:31488538
Prospects of genomic resources available at the global databases for the flora of United Arab Emirates. PMID:31475085
Insights into pathological mutations in insulin-like growth factor I through in silico screening and molecular dynamics simulation. PMID:31456057
Extensive Thioautotrophic Gill Endosymbiont Diversity within a Single Ctena orbiculata (Bivalvia: Lucinidae) Population and Implications for Defining Host-Symbiont Specificity and Species Recognition. PMID:31455638
A Novel Computational Model for Predicting microRNA-Disease Associations Based on Heterogeneous Graph Convolutional Networks. PMID:31455028
In-silico Design of DNA Oligonucleotides: Challenges and Approaches. PMID:31452858
Whole-genome sequence analysis of multidrug-resistant uropathogenic strains of Escherichia coli from Mexico. PMID:31447566
Biomarkers for oralization during long-term proton pump inhibitor therapy predict survival in cirrhosis. PMID:31427714
Haemoproteosis lethality in a woodpecker, with molecular and morphological characterization of Haemoproteus velans (Haemosporida, Haemoproteidae). PMID:31417845
Phellem Cell-Wall Components Are Discriminants of Cork Quality in Quercus suber. PMID:31417580
Antibiotic treatment of Chlamydia-induced cystitis in the koala is linked to expression of key inflammatory genes in reactive oxygen pathways. PMID:31415633
Gene Fusions Derived by Transcriptional Readthrough are Driven by Segmental Duplication in Human. PMID:31400206
A genome-wide positioning systems network algorithm for in silico drug repurposing. PMID:31375661
Sinopyrophorinae, a new subfamily of Elateridae (Coleoptera, Elateroidea) with the first record of a luminous click beetle in Asia and evidence for multiple origins of bioluminescence in Elateridae. PMID:31363346
Novel Methicillin-Resistant Staphylococcus aureus CC8 Clone Identified in a Hospital Setting in Armenia. PMID:31354680
GAA variants and phenotypes among 1,079 patients with Pompe disease: Data from the Pompe Registry. PMID:31342611
PHANOTATE: a novel approach to gene identification in phage genomes. PMID:31329826
geneHummus: an R package to define gene families and their expression in legumes and beyond. PMID:31319791
Global phylogeography and ancient evolution of the widespread human gut virus crAssphage. PMID:31285584
piRDisease v1.0: a manually curated database for piRNA associated diseases. PMID:31267133
Proteomic analysis of the effect of the polyphenol pentagalloyl glucose on proteins involved in neurodegenerative diseases in activated BV‑2 microglial cells. PMID:31257500
The genetic basis of 3-hydroxypropanoate metabolism in Cupriavidus necator H16. PMID:31236137
Coding palindromes in mitochondrial genes of Nematomorpha. PMID:31194871
Identification of Breast Cancer Stem Cell Related Genes Using Functional Cellular Assays Combined With Single-Cell RNA Sequencing in MDA-MB-231 Cells. PMID:31191614
ResMarkerDB: a database of biomarkers of response to antibody therapy in breast and colorectal cancer. PMID:31169290
Anaerobic methanotrophic archaea of the ANME-2d clade feature lipid composition that differs from other ANME archaea. PMID:31150548
Nutrient-sensitive transcription factors TFEB and TFE3 couple autophagy and metabolism to the peripheral clock. PMID:31126958
Comparing the accuracy of PCR-capillary electrophoresis and cuticle microhistological analysis for assessing diet composition in ungulates: A case study with Pyrenean chamois. PMID:31116750
sRNAbench and sRNAtoolbox 2019: intuitive fast small RNA profiling and differential expression. PMID:31114926
Simple ClinVar: an interactive web server to explore and retrieve gene and disease variants aggregated in ClinVar database. PMID:31114901
Transmission of a New Polerovirus Infecting Pepper by the Whitefly Bemisia tabaci. PMID:31092571
multiPhATE: bioinformatics pipeline for functional annotation of phage isolates. PMID:31086982
System-level analysis of metabolic trade-offs during anaerobic photoheterotrophic growth in Rhodopseudomonas palustris. PMID:31072303
Using the Plasmodium mitochondrial genome for classifying mixed-species infections and inferring the geographical origin of P. falciparum parasites imported to the U.S. PMID:31039178
Dynamics of Dual Specificity Phosphatases and Their Interplay with Protein Kinases in Immune Signaling. PMID:31035605
SEanalysis: a web tool for super-enhancer associated regulatory analysis. PMID:31028388
The necessity of ZSCAN4 for preimplantation development and gene expression of bovine embryos. PMID:31019155
Diversity and Distribution of Bacteria Producing Known Secondary Metabolites. PMID:31016338
Impact framework: A python package for writing data analysis workflows to interpret microbial physiology. PMID:31011536
Conformational Dynamics and Allosteric Regulation Landscapes of Germline PTEN Mutations Associated with Autism Compared to Those Associated with Cancer. PMID:31006514
Variation in pigmentation gene expression is associated with distinct aposematic color morphs in the poison frog Dendrobates auratus. PMID:30995908
Genome-wide association study of an unusual dolphin mortality event reveals candidate genes for susceptibility and resistance to cetacean morbillivirus. PMID:30976305
Pathway centrality in protein interaction networks identifies putative functional mediating pathways in pulmonary disease. PMID:30971743
Gcorn Plant: A Database for Retrieving Functional and Evolutionary Traits of Plant Genes. PMID:30971448
Proteomic analysis reveals novel insights into tanshinones biosynthesis in Salvia miltiorrhiza hairy roots. PMID:30962498
Advancing Computational Toxicology in the Big Data Era by Artificial Intelligence: Data-Driven and Mechanism-Driven Modeling for Chemical Toxicity. PMID:30907586
Associations Between Catecholaminergic and Serotonergic Genes and Persistent Arm Pain Severity Following Breast Cancer Surgery. PMID:30904518
Trends in the Use of Common Words and Patient-Centric Language in the Titles of Medical Journals, 1976-2015. PMID:30901051
Network-based prediction of drug combinations. PMID:30867426
Design, implementation, and operation of a rapid, robust named entity recognition web service. PMID:30850898
Machine learning approaches outperform distance- and tree-based methods for DNA barcoding of Pterocarpus wood. PMID:30825008
The anti-cancer drug 5-fluorouracil affects cell cycle regulators and potential regulatory long non-coding RNAs in yeast. PMID:30760080
Mitochondrial acetyl-CoA reversibly regulates locus-specific histone acetylation and gene expression. PMID:30737248
The genome of the soybean cyst nematode (Heterodera glycines) reveals complex patterns of duplications involved in the evolution of parasitism genes. PMID:30732586
Use of shotgun metagenomics for the identification of protozoa in the gut microbiota of healthy individuals from worldwide populations with various industrialization levels. PMID:30726303
Capturing sequence diversity in metagenomes with comprehensive and scalable probe design. PMID:30718881
A member of the CONSTANS-Like protein family is a putative regulator of reactive oxygen species homeostasis and spaceflight physiological adaptation. PMID:30705745
MACPET: model-based analysis for ChIA-PET. PMID:30698663
Comparative genomics of Bacteria commonly identified in the built environment. PMID:30691394
LCSS-Based Algorithm for Computing Multivariate Data Set Similarity: A Case Study of Real-Time WSN Data. PMID:30621241
Polychromophilus melanipherus and haemoplasma infections not associated with clinical signs in southern bent-winged bats (Miniopterus orianae bassanii) and eastern bent-winged bats (Miniopterus orianae oceanensis). PMID:30619705
CRlncRNA: a manually curated database of cancer-related long non-coding RNAs with experimental proof of functions on clinicopathological and molecular features. PMID:30598113
Rapid birth-death evolution and positive selection in detoxification-type glutathione S-transferases in mammals. PMID:30586459
Classifying mild traumatic brain injuries with functional network analysis. PMID:30577783
Identifying mouse developmental essential genes using machine learning. PMID:30563825
GLUE: a flexible software system for virus sequence data. PMID:30563445
Evolution of Hepatitis B Virus Receptor NTCP Reveals Differential Pathogenicities and Species Specificities of Hepadnaviruses in Primates, Rodents, and Bats. PMID:30541833
Taxonomic and functional heterogeneity of the gill microbiome in a symbiotic coastal mangrove lucinid species. PMID:30518817
Genomic Analysis of Rhodococcus sp. Br-6, a Bromate Reducing Bacterium Isolated From Soil in Chiba, Japan. PMID:30510597
Lignin-Degrading Abilities of Novel Autochthonous Fungal Isolates Trametes hirsuta F13 and Stereum gausapatum F28. PMID:30510479
The BioGRID interaction database: 2019 update. PMID:30476227
Long non-coding RNAs influence the transcriptome in pulmonary arterial hypertension: the role of PAXIP1-AS1. PMID:30450722
Mollusc genomes reveal variability in patterns of LTR-retrotransposons dynamics. PMID:30442098
The crowns have eyes: multiple opsins found in the eyes of the crown-of-thorns starfish Acanthaster planci. PMID:30419810
Long-term investigation of microbial community composition and transcription patterns in a biogas plant undergoing ammonia crisis. PMID:30381904
dbAMP: an integrated resource for exploring antimicrobial peptides with functional activities and physicochemical properties on transcriptome and proteome data. PMID:30380085
Cytogenetic and Transcriptomic Analysis of Human Endometrial MSC Retaining Proliferative Activity after Sublethal Heat Shock. PMID:30366433
Defining Essentiality Score of Protein-Coding Genes and Long Noncoding RNAs. PMID:30356729
Comparative Time-Scale Gene Expression Analysis Highlights the Infection Processes of Two Amoebophrya Strains. PMID:30333799
Mechanistic basis for the evolution of chalcone synthase catalytic cysteine reactivity in land plants. PMID:30291143
Alterations of the Gut Microbiome Associated With the Treatment of Hyperuricaemia in Male Rats. PMID:30283432
Fish Gut Microbiome: Current Approaches and Future Perspectives. PMID:30262950
Chromosome Y-encoded antigens associate with acute graft-versus-host disease in sex-mismatched stem cell transplant. PMID:30262602
Genome-wide association studies and CRISPR/Cas9-mediated gene editing identify regulatory variants influencing eyebrow thickness in humans. PMID:30248107
Understanding the role of glucose regulated protein 170 (GRP170) as a nucleotide exchange factor through molecular simulations. PMID:30205291
Expression of novel nitrate reductase genes in the harmful alga, Chattonella subsalsa. PMID:30194416
Five Years of the KNIME Vernalis Cheminformatics Community Contribution. PMID:30182834
SIG-DB: Leveraging homomorphic encryption to securely interrogate privately held genomic databases. PMID:30180163
CRISPR/Cas9 gene editing for the creation of an MGAT1-deficient CHO cell line to control HIV-1 vaccine glycosylation. PMID:30157178
An analysis of aging-related genes derived from the Genotype-Tissue Expression project (GTEx). PMID:30155276
A New Machine Learning-Based Framework for Mapping Uncertainty Analysis in RNA-Seq Read Alignment and Gene Expression Estimation. PMID:30154828
Malaria parasite translocon structure and mechanism of effector export. PMID:30150771
Diversity and Dynamics of "Candidatus Endobugula" and Other Symbiotic Bacteria in Chinese Populations of the Bryozoan, Bugula neritina. PMID:30141128
Predictability and persistence of prebiotic dietary supplementation in a healthy human cohort. PMID:30139999
Odontoameloblastoma with extensive chondroid matrix deposition in a guinea pig. PMID:30132419
Building atomic models based on near atomic resolution cryoEM maps with existing tools. PMID:30114513
Therapeutic Effect of Repurposed Temsirolimus in Lung Adenocarcinoma Model. PMID:30087612
Novel Divergent Polar Bear-Associated Mastadenovirus Recovered from a Deceased Juvenile Polar Bear. PMID:30045965
Network-based approach to prediction and population-based validation of in silico drug repurposing. PMID:30002366
Loose ends: almost one in five human genes still have unresolved coding status. PMID:29982784
Restricted Localization of Photosynthetic Intracytoplasmic Membranes (ICMs) in Multiple Genera of Purple Nonsulfur Bacteria. PMID:29970460
Pm61: a recessive gene for resistance to powdery mildew in wheat landrace Xuxusanyuehuang identified by comparative genomics analysis. PMID:29967989
Chromatin Remodeling Proteins in Epilepsy: Lessons From CHD2-Associated Epilepsy. PMID:29962935
Closed Genome Sequence of Clostridium botulinum Strain CFSAN064329 (62A). PMID:29954889
Characterization of Bathyarchaeota genomes assembled from metagenomes of biofilms residing in mesophilic and thermophilic biogas reactors. PMID:29951113
Transcriptional and Translational Landscape of Equine Torovirus. PMID:29950409
Acetylenotrophy: a hidden but ubiquitous microbial metabolism? PMID:29933435
Computational Methods for Predicting Protein-Protein Interactions Using Various Protein Features. PMID:29927082
Draft genome sequence of Trametes villosa (Sw.) Kreisel CCMB561, a tropical white-rot Basidiomycota from the semiarid region of Brazil. PMID:29904660
Dataset of the first transcriptome assembly of the tree crop "yerba mate" (Ilex paraguariensis) and systematic characterization of protein coding genes. PMID:29876460
BLAST-based validation of metagenomic sequence assignments. PMID:29868286
The Cellosaurus, a Cell-Line Knowledge Resource. PMID:29805321
Virus survey in populations of two subspecies of bent-winged bats (Miniopterus orianae bassanii and oceanensis) in south-eastern Australia reveals a high prevalence of diverse herpesviruses. PMID:29795610
Contributions of the RhoA guanine nucleotide exchange factor Net1 to polyoma middle T antigen-mediated mammary gland tumorigenesis and metastasis. PMID:29769144
Viromes of one year old infants reveal the impact of birth mode on microbiome diversity. PMID:29761040
Small RNA profiling of low biomass samples: identification and removal of contaminants. PMID:29759067
Generation and comparative genomics of synthetic dengue viruses. PMID:29745863
Burly1 is a mouse QTL for lean body mass that maps to a 0.8-Mb region of chromosome 2. PMID:29737391
Sensing the cilium, digital capture of ciliary data for comparative genomics investigations. PMID:29713460
IMPACT web portal: oncology database integrating molecular profiles with actionable therapeutics. PMID:29697364
Clustering of Pan- and Core-genome of Lactobacillus provides Novel Evolutionary Insights for Differentiation. PMID:29690879
Evolutionary novelty in gravity sensing through horizontal gene transfer and high-order protein assembly. PMID:29689046
GEOMetaCuration: a web-based application for accurate manual curation of Gene Expression Omnibus metadata. PMID:29688376
A computational reconstruction of Papio phylogeny using Alu insertion polymorphisms. PMID:29632618
De novo draft assembly of the Botrylloides leachii genome provides further insight into tunicate evolution. PMID:29615780
Selection of Potential Therapeutic Bacteriophages that Lyse a CTX-M-15 Extended Spectrum β-Lactamase Producing Salmonella enterica Serovar Typhi Strain from the Democratic Republic of the Congo. PMID:29614013
FIGL1 and its novel partner FLIP form a conserved complex that regulates homologous recombination. PMID:29608566
taxMaps: comprehensive and highly accurate taxonomic classification of short-read data in reasonable time. PMID:29588360
Transcriptomic characterization of MRI contrast with focus on the T1-w/T2-w ratio in the cerebral cortex. PMID:29567503
Endophytic biocatalysts with enoate reductase activity isolated from Mentha pulegium. PMID:29550961
Bacterial Preferences for Specific Soil Particle Size Fractions Revealed by Community Analyses. PMID:29527192
Genome-wide transcriptome analysis identifies alternative splicing regulatory network and key splicing factors in mouse and human psoriasis. PMID:29515135
Large Blooms of Bacillales (Firmicutes) Underlie the Response to Wetting of Cyanobacterial Biocrusts at Various Stages of Maturity. PMID:29511079
Cysteine peptidases of Eudiplozoon nipponicum: a broad repertoire of structurally assorted cathepsins L in contrast to the scarcity of cathepsins B in an invasive species of haematophagous monogenean of common carp. PMID:29510760
The Complete Plastome Sequence of an Antarctic Bryophyte Sanionia uncinata (Hedw.) Loeske. PMID:29494552
A Near-Complete Haplotype-Phased Genome of the Dikaryotic Wheat Stripe Rust Fungus Puccinia striiformis f. sp. tritici Reveals High Interhaplotype Diversity. PMID:29463659
Effects of cytochrome P450 single nucleotide polymorphisms on methadone metabolism and pharmacodynamics. PMID:29458047
Comparative Analysis of Immune Cells Reveals a Conserved Regulatory Lexicon. PMID:29454939
Anaerobic 4-hydroxyproline utilization: Discovery of a new glycyl radical enzyme in the human gut microbiome uncovers a widespread microbial metabolic activity. PMID:29405826
GO FEAT: a rapid web-based functional annotation tool for genomic and transcriptomic data. PMID:29379090
Molecular Genetic Analysis of Human Endometrial Mesenchymal Stem Cells That Survived Sublethal Heat Shock. PMID:29375621
Genomic Region Containing Toll-Like Receptor Genes Has a Major Impact on Total IgM Antibodies Including KLH-Binding IgM Natural Antibodies in Chickens. PMID:29375555
Fungal Screening on Olive Oil for Extracellular Triacylglycerol Lipases: Selection of a Trichoderma harzianum Strain and Genome Wide Search for the Genes. PMID:29370083
PhenoRank: reducing study bias in gene prioritization through simulation. PMID:29360927
Regeneration in distantly related species: common strategies and pathways. PMID:29354283
Reduced miR-105-1 levels are associated with poor survival of patients with non-small cell lung cancer. PMID:29344230
Clostridium sordellii Pathogenicity Locus Plasmid pCS1-1 Encodes a Novel Clostridial Conjugation Locus. PMID:29339424
Uncovering the evolutionary history of neo-XY sex chromosomes in the grasshopper Ronderosia bergii (Orthoptera, Melanoplinae) through satellite DNA analysis. PMID:29329524
Individual- and Species-Specific Skin Microbiomes in Three Different Estrildid Finch Species Revealed by 16S Amplicon Sequencing. PMID:29282519
In Silico Analysis of the Small Molecule Content of Outer Membrane Vesicles Produced by Bacteroides thetaiotaomicron Indicates an Extensive Metabolic Link between Microbe and Host. PMID:29276507
Transcriptomic characterization of Caecomyces churrovis: a novel, non-rhizoid-forming lignocellulolytic anaerobic fungus. PMID:29270219
Efficient Translation of Epstein-Barr Virus (EBV) DNA Polymerase Contributes to the Enhanced Lytic Replication Phenotype of M81 EBV. PMID:29263273
A next-generation newborn screening pilot study: NGS on dried blood spots detects causal mutations in patients with inherited metabolic diseases. PMID:29247206
Structure and energetic basis of overrepresented λ light chain in systemic light chain amyloidosis patients. PMID:29241665
Genome Assembly and Annotation of the Medicinal Plant Calotropis gigantea, a Producer of Anticancer and Antimalarial Cardenolides. PMID:29237703
Identification and characterization of a novel zebrafish (Danio rerio) pentraxin-carbonic anhydrase. PMID:29230365
The asymmetric cell division machinery in the spiral-cleaving egg and embryo of the marine annelid Platynereis dumerilii. PMID:29228898
eGenPub, a text mining system for extending computationally mapped bibliography for UniProt Knowledgebase by capturing centrality. PMID:29220476
FishTrace: a genetic catalogue of European fishes. PMID:29220471
AllerBase: a comprehensive allergen knowledgebase. PMID:29220458
Multi-field query expansion is effective for biomedical dataset retrieval. PMID:29220457
LeishDB: a database of coding gene annotation and non-coding RNAs in Leishmania braziliensis. PMID:29220437
Phylogenetic Distribution of CMP-Neu5Ac Hydroxylase (CMAH), the Enzyme Synthetizing the Proinflammatory Human Xenoantigen Neu5Gc. PMID:29206915
Conserved RNA structures in the intergenic regions of ambisense viruses. PMID:29192224
Closed Genome Sequence of Chryseobacterium piperi Strain CTMT/ATCC BAA-1782, a Gram-Negative Bacterium with Clostridial Neurotoxin-Like Coding Sequences. PMID:29192076
Meta-analysis of Liver and Heart Transcriptomic Data for Functional Annotation Transfer in Mammalian Orthologs. PMID:29187960
Bactofilin-mediated organization of the ParABS chromosome segregation system in Myxococcus xanthus. PMID:29180656
ClinVar: improving access to variant interpretations and supporting evidence. PMID:29165669
Comparative Pan-Genome Analysis of Piscirickettsia salmonis Reveals Genomic Divergences within Genogroups. PMID:29164068
Azole sensitivity in Leptosphaeria pathogens of oilseed rape: the role of lanosterol 14α-demethylase. PMID:29158527
Structural and functional differences in gut microbiome composition in patients undergoing haemodialysis or peritoneal dialysis. PMID:29142271
Genome-wide identification of miRNAs and lncRNAs in Cajanus cajan. PMID:29141604
MSDD: a manually curated database of experimentally supported associations among miRNAs, SNPs and human diseases. PMID:29106642
Increased Affinity for RNA Targets Evolved Early in Animal and Plant Dicer Lineages through Different Structural Mechanisms. PMID:29106606
TRRUST v2: an expanded reference database of human and mouse transcriptional regulatory interactions. PMID:29087512
PLATO software provides analytic framework for investigating complexity beyond genome-wide association studies. PMID:29079728
RCSB Protein Data Bank: Sustaining a living digital data resource that enables breakthroughs in scientific research and biomedical education. PMID:29067736
Integrating evolutionary and regulatory information with a multispecies approach implicates genes and pathways in obsessive-compulsive disorder. PMID:29042551
A High-Resolution Genome-Wide CRISPR/Cas9 Viability Screen Reveals Structural Features and Contextual Diversity of the Human Cell-Essential Proteome. PMID:29038160
Subterranean mammals show convergent regression in ocular genes and enhancers, along with adaptation to tunneling. PMID:29035697
Gene Expression as a Dosimeter in Irradiated Drosophila melanogaster. PMID:29035581
Northern Spotted Owl (Strix occidentalis caurina) Genome: Divergence with the Barred Owl (Strix varia) and Characterization of Light-Associated Genes. PMID:28992302
Epigenetic regulation of gene expression in cancer: techniques, resources and analysis. PMID:28968850
RUCS: rapid identification of PCR primers for unique core sequences. PMID:28968748
tmVar 2.0: integrating genomic variant information from literature with dbSNP and ClinVar for precision medicine. PMID:28968638
Evolution in fecal bacterial/viral composition in infants of two central African countries (Gabon and Republic of the Congo) during their first month of life. PMID:28968427
Mechanisms of recognition of amyloid-β (Aβ) monomer, oligomer, and fibril by homologous antibodies. PMID:28924036
Coprophagous features in carnivorous Nepenthes plants: a task for ureases. PMID:28912541
The third restriction-modification system from Thermus aquaticus YT-1: solving the riddle of two TaqII specificities. PMID:28911108
Structural signatures of thermal adaptation of bacterial ribosomal RNA, transfer RNA, and messenger RNA. PMID:28910383
Comparison of whole genome sequencing to restriction endonuclease analysis and gel diffusion precipitin-based serotyping of Pasteurella multocida. PMID:28906178
Critical Roles of Dual-Specificity Phosphatases in Neuronal Proteostasis and Neurological Diseases. PMID:28902166
Molecular Resources from Transcriptomes in the Brassicaceae Family. PMID:28900436
Horizontally Acquired Genes Are Often Shared between Closely Related Bacterial Species. PMID:28890711
Transcriptomic profiling in muscle and adipose tissue identifies genes related to growth and lipid deposition. PMID:28877211
Revitalization of a Forward Genetic Screen Identifies Three New Regulators of Fungal Secondary Metabolism in the Genus Aspergillus. PMID:28874473
Spread of Canine Influenza A(H3N2) Virus, United States. PMID:28858604
MSDB: A Comprehensive Database of Simple Sequence Repeats. PMID:28854643
Rat Genome and Model Resources. PMID:28838068
Mouse Genome Informatics (MGI) Resource: Genetic, Genomic, and Biological Knowledgebase for the Laboratory Mouse. PMID:28838066
Host-derived viral transporter protein for nitrogen uptake in infected marine phytoplankton. PMID:28827361
Predicting the murine enterocyte metabolic response to diets that differ in lipid and carbohydrate composition. PMID:28821741
A novel small RNA is important for biofilm formation and pathogenicity in Pseudomonas aeruginosa. PMID:28771593
Transcriptome and Metabolite Changes during Hydrogen Cyanamide-Induced Floral Bud Break in Sweet Cherry. PMID:28769948
Pan-genome and phylogeny of Bacillus cereus sensu lato. PMID:28768476
Family History of Early Infant Death Correlates with Earlier Age at Diagnosis But Not Shorter Time to Diagnosis for Severe Combined Immunodeficiency. PMID:28747913
Evolution of the cAMP-dependent protein kinase (PKA) catalytic subunit isoforms. PMID:28742821
Beta-lactamase database (BLDB) - structure and function. PMID:28719998
UCSF ChimeraX: Meeting modern challenges in visualization and analysis. PMID:28710774
Draft Genome Sequence of Bacillus altitudinis YNP4-TSU, Isolated from Yellowstone National Park. PMID:28705979
Microbial Composition and Diversity Patterns in Deep Hyperthermal Aquifers from the Western Plain of Romania. PMID:28702708
Three distinct pneumotypes characterize the microbiome of the lung in BALB/cJ mice. PMID:28683098
SubVis: an interactive R package for exploring the effects of multiple substitution matrices on pairwise sequence alignment. PMID:28674656
Mutations in ARMC9, which Encodes a Basal Body Protein, Cause Joubert Syndrome in Humans and Ciliopathy Phenotypes in Zebrafish. PMID:28625504
Workflow and web application for annotating NCBI BioProject transcriptome data. PMID:28605765
Co-expressed Pathways DataBase for Tomato: a database to predict pathways relevant to a query gene. PMID:28583129
FastGT: an alignment-free method for calling common SNVs directly from raw sequencing reads. PMID:28566690
Ensemble variant interpretation methods to predict enzyme activity and assign pathogenicity in the CAGI4 NAGLU (Human N-acetyl-glucosaminidase) and UBE2I (Human SUMO-ligase) challenges. PMID:28544272
Dataset of the transcribed 45S ribosomal RNA sequence of the tree crop "yerba mate". PMID:28540358
Zika virus evolution and spread in the Americas. PMID:28538734
MARRVEL: Integration of Human and Model Organism Genetic Resources to Facilitate Functional Annotation of the Human Genome. PMID:28502612
Discovering and linking public omics data sets using the Omics Discovery Index. PMID:28486464
ImmunoNodes - graphical development of complex immunoinformatics workflows. PMID:28482806
Bioinformatic and expression analysis of the Brassica napus L. cyclophilins. PMID:28473712
Conservation and innovation in the DUX4-family gene network. PMID:28459454
Noumeavirus replication relies on a transient remote control of the host nucleus. PMID:28429720
Laboratory Diagnosis of Lassa Fever. PMID:28404674
A machine learning approach for viral genome classification. PMID:28399797
Association between CACNA1C gene polymorphisms and ritodrine-induced adverse events in preterm labor patients. PMID:28391406
IMGMD: A platform for the integration and standardisation of In silico Microbial Genome-scale Metabolic Models. PMID:28389638
GSA: Genome Sequence Archive<sup/> PMID:28387199
Avian and Mammalian Facilitative Glucose Transporters. PMID:28379195
Genomics and Metagenomics in Microbial Ecology: Recent Advances and Challenges. PMID:28367917
DIGNiFI: Discovering causative genes for orphan diseases using protein-protein interaction networks. PMID:28361678
Convergence of Domain Architecture, Structure, and Ligand Affinity in Animal and Plant RNA-Binding Proteins. PMID:28333205
Principles and Recommendations for Standardizing the Use of the Next-Generation Sequencing Variant File in Clinical Settings. PMID:28315672
Quantitative Contribution of rs75017182 to Dihydropyrimidine Dehydrogenase mRNA Splicing and Enzyme Activity. PMID:28295243
Systems Pharmacology-Based Discovery of Natural Products for Precision Oncology Through Targeting Cancer Mutated Genes. PMID:28294568
An In Silico Identification of Common Putative Vaccine Candidates against Treponema pallidum: A Reverse Vaccinology and Subtractive Genomics Based Approach. PMID:28216574
Identification of a Degradation Signal Sequence within Substrates of the Mitochondrial i-AAA Protease. PMID:28214511
KrillDB: A de novo transcriptome database for the Antarctic krill (Euphausia superba). PMID:28187156
Comparative genomics of canine hemoglobin genes reveals primacy of beta subunit delta in adult carnivores. PMID:28178945
The Carboxy Terminus of YCF1 Contains a Motif Conserved throughout >500 Myr of Streptophyte Evolution. PMID:28164224
"Big Data" for Breast Cancer: Where to look and what you will find. PMID:28164152
Bridging Chromosomal Architecture and Pathophysiology of Streptococcus pneumoniae. PMID:28158485
Analysis of Protein Phosphorylation and Its Functional Impact on Protein-Protein Interactions via Text Mining of the Scientific Literature. PMID:28150240
Genome-Wide Association Study of Polymorphisms Predisposing to Bronchiolitis. PMID:28139761
Sibling sRNA RyfA1 Influences Shigella dysenteriae Pathogenesis. PMID:28134784
World data centre for microorganisms: an information infrastructure to explore and utilize preserved microbial strains worldwide. PMID:28053166
POSTAR: a platform for exploring post-transcriptional regulation coordinated by RNA-binding proteins. PMID:28053162
GeneBase 1.1: a tool to summarize data from NCBI gene datasets and its application to an update of human gene statistics. PMID:28025344
VaProS: a database-integration approach for protein/genome information retrieval. PMID:28012137
The BioGRID interaction database: 2017 update. PMID:27980099
Alternate-locus aware variant calling in whole genome sequencing. PMID:27964746
Insecticidal Activity of Melaleuca alternifolia Essential Oil and RNA-Seq Analysis of Sitophilus zeamais Transcriptome in Response to Oil Fumigation. PMID:27936192
A Bibliometric History of the Journal GENETICS. PMID:27927899
MethSMRT: an integrative database for DNA N6-methyladenine and N4-methylcytosine generated by single-molecular real-time sequencing. PMID:27924023
Evaluating the evaluation of cancer driver genes. PMID:27911828
dbSAP: single amino-acid polymorphism database for protein variation detection. PMID:27903894
The mouse Gene Expression Database (GXD): 2017 update. PMID:27899677
The UCSC Genome Browser database: 2017 update. PMID:27899642
Ensembl 2017. PMID:27899575
Expansion of the Gene Ontology knowledgebase and resources. PMID:27899567
GenBank. PMID:27899564
Database Resources of the National Center for Biotechnology Information. PMID:27899561
ToxReporter: viewing the genome through the eyes of a toxicologist. PMID:27888230
Ten Simple Rules for Developing Public Biological Databases. PMID:27832061
CASTIN: a system for comprehensive analysis of cancer-stromal interactome. PMID:27829362
mirDNMR: a gene-centered database of background de novo mutation rates in human. PMID:27799474
Genomes OnLine Database (GOLD) v.6: data updates and feature enhancements. PMID:27794040
Exploring human disease using the Rat Genome Database. PMID:27736745
Insulin resistance and diabetes caused by genetic or diet-induced KBTBD2 deficiency in mice. PMID:27708159
South-east Asian Zika virus strain linked to cluster of cases in Singapore, August 2016. PMID:27684526
eSNPO: An eQTL-based SNP Ontology and SNP functional enrichment analysis platform. PMID:27470167
Research Resource: A Reference Transcriptome for Constitutive Androstane Receptor and Pregnane X Receptor Xenobiotic Signaling. PMID:27409825
Glycoside Hydrolase (GH) 45 and 5 Candidate Cellulases in Aphelenchoides besseyi Isolated from Bird's-Nest Fern. PMID:27391812
Functional and Evolutionary Characterization of a Gene Transfer Agent's Multilocus "Genome". PMID:27343288
SUSHI: an exquisite recipe for fully documented, reproducible and reusable NGS data analysis. PMID:27255077
Coevolution of RAC Small GTPases and their Regulators GEF Proteins. PMID:27226705
Research Resources for Nuclear Receptor Signaling Pathways. PMID:27216565
The Chinchilla Research Resource Database: resource for an otolaryngology disease model. PMID:27173523
PepPSy: a web server to prioritize gene products in experimental and biocuration workflows. PMID:27173522
SpinachDB: A Well-Characterized Genomic Database for Gene Family Classification and SNP Information of Spinach. PMID:27148975
GenBank. PMID:26590407
Database resources of the National Center for Biotechnology Information PubMed citations: 239.

239 articles citing: Database resources of the National Center for Biotechnology Information

Natural Aedes-Borne Virus Infection Detected in Male Adult Aedes aegypti (Diptera: Culicidae) Collected From Urban Settings in Mérida, Yucatán, México. PMID:35535688
A Web Server for GPCR-GPCR Interaction Pair Prediction. PMID:35399947
Acetate Degradation at Low pH by the Moderately Acidophilic Sulfate Reducer Acididesulfobacillus acetoxydans gen. nov. sp. nov. PMID:35391737
ETV2 regulates PARP-1 binding protein to induce ER stress-mediated death in tuberin-deficient cells. PMID:35181635
Hyperbaric Oxygen Therapy after Mid-Cervical Spinal Contusion Injury. PMID:35152735
Cov19VaxKB: A Web-based Integrative COVID-19 Vaccine Knowledge Base. PMID:34981039
CXCL1: A new diagnostic biomarker for human tuberculosis discovered using Diversity Outbred mice. PMID:34403447
Insertion of an endogenous Jaagsiekte sheep retrovirus element into the BCO2 - gene abolishes its function and leads to yellow discoloration of adipose tissue in Norwegian Spælsau (Ovis aries). PMID:34193038
Targeted Genome Mining Reveals the Biosynthetic Gene Clusters of Natural Product CYP51 Inhibitors. PMID:33857369
FoxP1 is a transcriptional repressor associated with cancer cachexia that induces skeletal muscle wasting and weakness. PMID:33527776
A comprehensive analysis of the phylogenetic signal in ramp sequences in 211 vertebrates. PMID:33436653
CHD2-Related CNS Pathologies. PMID:33435571
Pan-genome analysis and ancestral state reconstruction of class halobacteria: probability of a new super-order. PMID:33273480
DNAmoreDB, a database of DNAzymes. PMID:33053178
The reductive glycine pathway allows autotrophic growth of Desulfovibrio desulfuricans. PMID:33037220
Exploring metal availability in the natural niche of Streptococcus pneumoniae to discover potential vaccine antigens. PMID:33017224
High-quality nuclear genome for Sarcoptes scabiei-A critical resource for a neglected parasite. PMID:33001992
Text mining for modeling of protein complexes enhanced by machine learning. PMID:32960948
Draft genome sequence of multi-resistant Salmonella enterica subsp. enterica serovar Rissen strain 19CS0416 isolated from Vietnam reveals mcr-1 plasmid mediated resistance to colistin already in 2013. PMID:32817764
Exploiting phage receptor binding proteins to enable endolysins to kill Gram-negative bacteria. PMID:32694655
Bioinformatics Resources for Plant Abiotic Stress Responses: State of the Art and Opportunities in the Fast Evolving -Omics Era. PMID:32384671
COMPSRA: a COMprehensive Platform for Small RNA-Seq data Analysis. PMID:32165660
Data mining of metagenomes to find novel enzymes: a non-computationally intensive method. PMID:32099729
Manganese (II) removal from aqueous solutions by Cladosporium halotolerans and Hypocrea jecorina. PMID:32071895
Plasmid-mediated metronidazole resistance in Clostridioides difficile. PMID:32001686
Transcriptional analysis of THP-1 cells infected with Leishmania infantum indicates no activation of the inflammasome platform. PMID:31961876
Genome sequence of Pseudomonas aeruginosa PAO1161, a PAO1 derivative with the ICEPae1161 integrative and conjugative element. PMID:31906858
A network-based approach to uncover microRNA-mediated disease comorbidities and potential pathobiological implications. PMID:31754458
CRISPR-Cas influences the acquisition of antibiotic resistance in Klebsiella pneumoniae. PMID:31747398
An in silico survey of Clostridioides difficile extrachromosomal elements . PMID:31526450
A Kinetic Map of the Homomeric Voltage-Gated Potassium Channel (Kv) Family. PMID:31481875
A Novel Computational Model for Predicting microRNA-Disease Associations Based on Heterogeneous Graph Convolutional Networks. PMID:31455028
Complete genome and plasmid sequence of a novel Bacillus sp. BD59S, a parasporal protein synthesizing bacterium. PMID:31406640
Structural and Functional Characterization of YdjI, an Aldolase of Unknown Specificity in Escherichia coli K12. PMID:31322866
Molecular Diagnostics of Banana Fusarium Wilt Targeting Secreted-in-Xylem Genes. PMID:31214206
Gene expression patterns in synchronized islet populations. PMID:31050588
Genetic Variations and Precision Medicine. PMID:31019429
A robust data-driven genomic signature for idiopathic pulmonary fibrosis with applications for translational model selection. PMID:30998768
Advancing Computational Toxicology in the Big Data Era by Artificial Intelligence: Data-Driven and Mechanism-Driven Modeling for Chemical Toxicity. PMID:30907586
When one phenotype is not enough: divergent evolutionary trajectories govern venom variation in a widespread rattlesnake species. PMID:30862287
Botanophila flies, vectors of Epichloë fungal spores, are infected by Wolbachia. PMID:30834147
Transcriptomics Identifies Modules of Differentially Expressed Genes and Novel Cyclotides in Viola pubescens. PMID:30828342
Protein analysis reveals differential accumulation of late embryogenesis abundant and storage proteins in seeds of wild and cultivated amaranth species. PMID:30727945
Construction of a cDNA library and preliminary analysis of the expressed sequence tags of the earthworm Eisenia fetida (Savigny, 1826). PMID:30720084
Extensive Unexplored Human Microbiome Diversity Revealed by Over 150,000 Genomes from Metagenomes Spanning Age, Geography, and Lifestyle. PMID:30661755
High throughput screening against pantothenate synthetase identifies amide inhibitors against Mycobacterium tuberculosis and Staphylococcus aureus. PMID:30607322
Comparative morphology and evolution of the cnidosac in Cladobranchia (Gastropoda: Heterobranchia: Nudibranchia). PMID:30473719
Mild Traumatic Brain Injury in Mice Beneficially Alters Lung NK1R and Structural Protein Expression to Enhance Survival after Pseudomonas aeruginosa Infection. PMID:30472211
Network Pharmacology to Unveil the Biological Basis of Health-Strengthening Herbal Medicine in Cancer Treatment. PMID:30469422
Exploring NS3/4A, NS5A and NS5B proteins to design conserved subunit multi-epitope vaccine against HCV utilizing immunoinformatics approaches. PMID:30382118
The Promise and Challenge of Digital Biology. PMID:30338132
Alcohol use and burden for 195 countries and territories, 1990-2016: a systematic analysis for the Global Burden of Disease Study 2016. PMID:30146330
Murine host response to Neisseria gonorrhoeae upper genital tract infection reveals a common transcriptional signature, plus distinct inflammatory responses that vary between reproductive cycle phases. PMID:30134832
Functional annotation and distribution overview of RNA families in 27 Streptococcus agalactiae genomes. PMID:30055586
Two birds, one stone: hesperetin alleviates chemotherapy-induced diarrhea and potentiates tumor inhibition. PMID:29963254
Biological classification with RNA-seq data: Can alternatively spliced transcript expression enhance machine learning classifiers? PMID:29941426
Repurposing sertraline sensitizes non-small cell lung cancer cells to erlotinib by inducing autophagy. PMID:29875309
The aquatic animals' transcriptome resource for comparative functional analysis. PMID:29764375
Complete Genome Sequences of Two Bacillus pumilus Strains from Cuatrociénegas, Coahuila, Mexico. PMID:29700165
Redefinition and Unification of the SXT/R391 Family of Integrative and Conjugative Elements. PMID:29654185
Two novel deep-sea sediment metagenome-derived esterases: residue 199 is the determinant of substrate specificity and preference. PMID:29382330
InfAcrOnt: calculating cross-ontology term similarities using information flow by a random walk. PMID:29363423
Pharmacogenetic Variation in Over 100 Genes in Patients Receiving Acenocumarol. PMID:29218011
Morphology, Carbohydrate Distribution, Gene Expression, and Enzymatic Activities Related to Cell Wall Hydrolysis in Four Barley Varieties during Simulated Malting. PMID:29163597
Complementation of a metK-deficient E. coli strain with heterologous AdoMet synthetase genes. PMID:29111970
TCMID 2.0: a comprehensive resource for TCM. PMID:29106634
FnCpf1: a novel and efficient genome editing tool for Saccharomyces cerevisiae. PMID:29106617
Genome-wide discovery of long intergenic noncoding RNAs and their epigenetic signatures in the rat. PMID:29093522
Genome-Based Analyses of Six Hexacorallian Species Reject the "Naked Coral" Hypothesis. PMID:29048525
Benzene and Naphthalene Degrading Bacterial Communities in an Oil Sands Tailings Pond. PMID:29033909
Novel features and enhancements in BioBin, a tool for the biologically inspired binning and association analysis of rare variants. PMID:28968757
Orthologue chemical space and its influence on target prediction. PMID:28961699
BioFuelDB: a database and prediction server of enzymes involved in biofuels production. PMID:28875065
Molecular and functional characterization of two isoforms of chalcone synthase and their expression analysis in relation to flavonoid constituents in Grewia asiatica L. PMID:28662128
Improving data workflow systems with cloud services and use of open data for bioinformatics research. PMID:28419324
Assembly and comparison of two closely related Brassica napus genomes. PMID:28403535
Estimating the selective effects of heterozygous protein-truncating variants from human exome data. PMID:28369035
Supra-operonic clusters of functionally related genes (SOCs) are a source of horizontal gene co-transfers. PMID:28067311
Construction of antimicrobial peptide-drug combination networks from scientific literature based on a semi-automated curation workflow. PMID:28025336
VaProS: a database-integration approach for protein/genome information retrieval. PMID:28012137
MEGARes: an antimicrobial resistance database for high throughput sequencing. PMID:27899569
HPV16 integration probably contributes to cervical oncogenesis through interrupting tumor suppressor genes and inducing chromosome instability. PMID:27884161
Genome scale identification, structural analysis, and classification of periplasmic binding proteins from Mycobacterium tuberculosis. PMID:27858159
Microdiversification of a Pelagic Polynucleobacter Species Is Mainly Driven by Acquisition of Genomic Islands from a Partially Interspecific Gene Pool. PMID:27836842
TRIg: a robust alignment pipeline for non-regular T-cell receptor and immunoglobulin sequences. PMID:27782801
Complete Sequence and Analysis of Coconut Palm (Cocos nucifera) Mitochondrial Genome. PMID:27736909
Changes in the Plasticity of HIV-1 Nef RNA during the Evolution of the North American Epidemic. PMID:27685447
MetaPhinder-Identifying Bacteriophage Sequences in Metagenomic Data Sets. PMID:27684958
Transcriptome assessment of the Pompe (Gaa-/-) mouse spinal cord indicates widespread neuropathology. PMID:27614205
Investigating cellular network heterogeneity and modularity in cancer: a network entropy and unbalanced motif approach. PMID:27585651
A biologically informed method for detecting rare variant associations. PMID:27582876
The complete genome sequence of the rumen methanogen Methanobrevibacter millerae SM9. PMID:27536339
Susceptibility to Childhood Pneumonia: A Genome-Wide Analysis. PMID:27508494
Revealing disease-associated pathways by network integration of untargeted metabolomics. PMID:27479327
Bioinformatics resources for pollen. PMID:27271281
CSF1R mosaicism in a family with hereditary diffuse leukoencephalopathy with spheroids. PMID:27190017
Spatio-Temporal Interdependence of Bacteria and Phytoplankton during a Baltic Sea Spring Bloom. PMID:27148206
Trisubstituted-Imidazoles Induce Apoptosis in Human Breast Cancer Cells by Targeting the Oncogenic PI3K/Akt/mTOR Signaling Pathway. PMID:27097161
MicrO: an ontology of phenotypic and metabolic characters, assays, and culture media found in prokaryotic taxonomic descriptions. PMID:27076900
A network-based drug repositioning infrastructure for precision cancer medicine through targeting significantly mutated genes in the human cancer genomes. PMID:27026610
Izumo1 and Juno: the evolutionary origins and coevolution of essential sperm-egg binding partners. PMID:27019721
MTDH genetic variants in colorectal cancer patients. PMID:26983693
Microbiome and Biocatalytic Bacteria in Monkey Cup (Nepenthes Pitcher) Digestive Fluid. PMID:26817720
pATsi: Paralogs and Singleton Genes from Arabidopsis thaliana. PMID:26792975
KNOWLEDGE DRIVEN BINNING AND PHEWAS ANALYSIS IN MARSHFIELD PERSONALIZED MEDICINE RESEARCH PROJECT USING BIOBIN. PMID:26776191
Systematic Prioritization of Druggable Mutations in ∼5000 Genomes Across 16 Cancer Types Using a Structural Genomics-based Approach. PMID:26657081
Deep sequencing of Danish Holstein dairy cattle for variant detection and insight into potential loss-of-function variants in protein coding genes. PMID:26645365
AIP1 is a novel Agenet/Tudor domain protein from Arabidopsis that interacts with regulators of DNA replication, transcription and chromatin remodeling. PMID:26538092
Functionally conserved enhancers with divergent sequences in distant vertebrates. PMID:26519295
Target prediction utilising negative bioactivity data covering large chemical space. PMID:26500705
Relationships within Cladobranchia (Gastropoda: Nudibranchia) based on RNA-Seq data: an initial investigation. PMID:26473045
Connectivity Homology Enables Inter-Species Network Models of Synthetic Lethality. PMID:26451775
Searching molecular structure databases with tandem mass spectra using CSI:FingerID. PMID:26392543
MetaRNA-Seq: An Interactive Tool to Browse and Annotate Metadata from RNA-Seq Studies. PMID:26380270
Exploring the cellular basis of human disease through a large-scale mapping of deleterious genes to cell types. PMID:26330083
Carbohydrate structure database merged from bacterial, archaeal, plant and fungal parts. PMID:26286194
Optimal Threshold Determination for Interpreting Semantic Similarity and Particularity: Application to the Comparison of Gene Sets and Metabolic Pathways Using GO and ChEBI. PMID:26230274
RNA editing differently affects protein-coding genes in D. melanogaster and H. sapiens. PMID:26169954
Regulation rewiring analysis reveals mutual regulation between STAT1 and miR-155-5p in tumor immunosurveillance in seven major cancers. PMID:26156524
Specific Inflammatory Stimuli Lead to Distinct Platelet Responses in Mice and Humans. PMID:26148065
Comparison of Gene Coexpression Profiles and Construction of Conserved Gene Networks to Find Functional Modules. PMID:26147120
Computational approaches for the classification of seed storage proteins. PMID:26139889
Characterization of the Maize Chitinase Genes and Their Effect on Aspergillus flavus and Aflatoxin Accumulation Resistance. PMID:26090679
Structural Analysis of Der p 1-Antibody Complexes and Comparison with Complexes of Proteins or Peptides with Monoclonal Antibodies. PMID:26026055
Spatial genomic heterogeneity within localized, multifocal prostate cancer. PMID:26005866
ProteINSIDE to Easily Investigate Proteomics Data from Ruminants: Application to Mine Proteome of Adipose and Muscle Tissues in Bovine Foetuses. PMID:26000831
Community challenges in biomedical text mining over 10 years: success, failure and the future. PMID:25935162
CodingQuarry: highly accurate hidden Markov model gene prediction in fungal genomes using RNA-seq transcripts. PMID:25887563
ALDB: a domestic-animal long noncoding RNA database. PMID:25853886
Factors that affect transfer of the IncI1 β-lactam resistance plasmid pESBL-283 between E. coli strains. PMID:25830294
Antithrombin III deficiency in Indian patients with deep vein thrombosis: identification of first India based AT variants including a novel point mutation (T280A) that leads to aggregation. PMID:25811371
Expression of multiple horizontally acquired genes is a hallmark of both vertebrate and invertebrate genomes. PMID:25785303
The complete genome sequence of the rumen methanogen Methanobacterium formicicum BRM9. PMID:25780506
Innate immune response to Streptococcus pyogenes depends on the combined activation of TLR13 and TLR2. PMID:25756897
Whole-Genome Analysis of Quorum-Sensing Burkholderia sp. Strain A9. PMID:25745000
Gateways to the FANTOM5 promoter level mammalian expression atlas. PMID:25723102
Extending reference assembly models. PMID:25651527
Effects of the diet on the microbiota of the red palm weevil (Coleoptera: Dryophthoridae). PMID:25635833
FXR antagonism of NSAIDs contributes to drug-induced liver injury identified by systems pharmacology approach. PMID:25631039
Genome sequence of Coxiella burnetii strain Namibia. PMID:25593636
A Novel Mutation in the ROGDI Gene in a Patient with Kohlschütter-Tönz Syndrome. PMID:25565929
A tetrahelical DNA fold adopted by tandem repeats of alternating GGG and GCG tracts. PMID:25500730
Comparison of multiple displacement amplification (MDA) and multiple annealing and looping-based amplification cycles (MALBAC) in single-cell sequencing. PMID:25485707
Global genome comparative analysis reveals insights of resistome and life-style adaptation of Pseudomonas putida strain T2-2 in oral cavity. PMID:25436236
HIV-1, human interaction database: current status and new features. PMID:25378338
A phylogeny-based benchmarking test for orthology inference reveals the limitations of function-based validation. PMID:25369365
Evaluation of variant identification methods for whole genome sequencing data in dairy cattle. PMID:25361890
Census-based rapid and accurate metagenome taxonomic profiling. PMID:25336203
Inhalation of rod-like carbon nanotubes causes unconventional allergic airway inflammation. PMID:25318534
Genome re-sequencing of semi-wild soybean reveals a complex Soja population structure and deep introgression. PMID:25265539
Big data in chemical toxicity research: the use of high-throughput screening assays to identify potential toxicants. PMID:25195622
OptiType: precision HLA typing from next-generation sequencing data. PMID:25143287
Walking the interactome for candidate prioritization in exome sequencing studies of Mendelian diseases. PMID:25078397
Whole-genome sequencing of 234 bulls facilitates mapping of monogenic and complex traits in cattle. PMID:25017103
Quantitative network mapping of the human kinome interactome reveals new clues for rational kinase inhibitor discovery and individualized cancer therapy. PMID:25003367
The UCSC Genome Browser: What Every Molecular Biologist Should Know. PMID:24984850
CANDO and the infinite drug discovery frontier. PMID:24980786
Molecular diagnosis of long QT syndrome at 10 days of life by rapid whole genome sequencing. PMID:24973560
Metagenomic analysis reveals presence of Treponema denticola in a tissue biopsy of the Iceman. PMID:24941044
Protein conservation and variation suggest mechanisms of cell type-specific modulation of signaling pathways. PMID:24922536
Studying tumorigenesis through network evolution and somatic mutational perturbations in the cancer interactome. PMID:24881052
SuperPred: update on drug classification and target prediction. PMID:24878925
Carbohydrate catabolism in Phaeobacter inhibens DSM 17395, a member of the marine roseobacter clade. PMID:24858085
Handling temperature bursts reaching 464°C: different microbial strategies in the sisters peak hydrothermal chimney. PMID:24837379
Classification of intrinsically disordered regions and proteins. PMID:24773235
Absence/presence calling in microarray-based CGH experiments with non-model organisms. PMID:24771343
A Framework for Content-based Retrieval of EEG with Applications to Neuroscience and Beyond. PMID:24770451
Deciphering key features in protein structures with the new ENDscript server. PMID:24753421
SysPTM 2.0: an updated systematic resource for post-translational modification. PMID:24705204
A framework for organizing cancer-related variations from existing databases, publications and NGS data using a High-performance Integrated Virtual Environment (HIVE). PMID:24667251
Resources for functional genomics studies in Drosophila melanogaster. PMID:24653003
Validation and genotyping of multiple human polymorphic inversions mediated by inverted repeats reveals a high degree of recurrence. PMID:24651690
Immunomic, genomic and transcriptomic characterization of CT26 colorectal carcinoma. PMID:24621249
Drug2Gene: an exhaustive resource to explore effectively the drug-target relation network. PMID:24618344
Genome-wide association study of urinary albumin excretion rate in patients with type 1 diabetes. PMID:24595857
Estimating differential expression from multiple indicators. PMID:24586062
OMACC: an Optical-Map-Assisted Contig Connector for improving de novo genome assembly. PMID:24564959
Structure-critical distribution of aromatic residues in the fibronectin type III protein family. PMID:24563228
DFLAT: functional annotation for human development. PMID:24507166
Improving mRNA 5' coding sequence determination in the mouse genome. PMID:24504701
Minimum information about a biofilm experiment (MIABiE): standards for reporting experiments and data on sessile microbial communities living at interfaces. PMID:24478124
Genome-scale analysis of demographic history and adaptive selection. PMID:24474201
Pathway analysis for drug repositioning based on public database mining. PMID:24460210
bex-db: Bioinformatics workbench for comprehensive analysis of barley-expressed genes. PMID:24399916
Variants of the PPARD gene and their clinicopathological significance in colorectal cancer. PMID:24391853
New mini- zincin structures provide a minimal scaffold for members of this metallopeptidase superfamily. PMID:24383880
Plant Genome DataBase Japan (PGDBj): a portal website for the integration of plant genome-related databases. PMID:24363285
Evaluating the impact of different sequence databases on metaproteome analysis: insights from a lab-assembled microbial mixture. PMID:24349410
Sequencing the transcriptome of milk production: milk trumps mammary tissue. PMID:24330573
BacMet: antibacterial biocide and metal resistance genes database. PMID:24304895
Pfam: the protein families database. PMID:24288371
Ribosomal Database Project: data and tools for high throughput rRNA analysis. PMID:24288368
PortEco: a resource for exploring bacterial biology through high-throughput data and analysis tools. PMID:24285306
The Mouse Genome Database: integration of and access to knowledge about the laboratory mouse. PMID:24285300
Rates of evolution of hominoid seminal proteins are correlated with function and expression, rather than mating system. PMID:24281413
Lynx: a database and knowledge extraction engine for integrative medicine. PMID:24270788
The UCSC Genome Browser database: 2014 update. PMID:24270787
Therapeutic target database update 2014: a resource for targeted therapeutics. PMID:24265219
RefSeq: an update on mammalian reference sequences. PMID:24259432
Updates on the web-based VIOLIN vaccine database and analysis system. PMID:24259431
MultitaskProtDB: a database of multitasking proteins. PMID:24253302
InvFEST, a database integrating information of polymorphic inversions in the human genome. PMID:24253300
DNA hypermethylation and DNA hypomethylation is present at different loci in chronic kidney disease. PMID:24253112
Linking transcriptional changes over time in stimulated dendritic cells to identify gene networks activated during the innate immune response. PMID:24244133
Mouse phenome database. PMID:24243846
ClinVar: public archive of relationships among sequence variation and human phenotype. PMID:24234437
PATRIC, the bacterial bioinformatics database and analysis resource. PMID:24225323
The genome portal of the Department of Energy Joint Genome Institute: 2014 updates. PMID:24225321
NPInter v2.0: an updated database of ncRNA interactions. PMID:24217916
GenBank. PMID:24217914
AgeFactDB--the JenAge Ageing Factor Database--towards data integration in ageing research. PMID:24217911
Negatome 2.0: a database of non-interacting proteins derived by literature mining, manual annotation and protein structure analysis. PMID:24214996
DrugBank 4.0: shedding new light on drug metabolism. PMID:24203711
CottonGen: a genomics, genetics and breeding database for cotton research. PMID:24203703
TreeFam v9: a new website, more species and orthology-on-the-fly. PMID:24194607
HypoxiaDB: a database of hypoxia-regulated proteins. PMID:24178989
The Database of Genomic Variants: a curated collection of structural variation in the human genome. PMID:24174537
GeneProf data: a resource of curated, integrated and reusable high-throughput genomics experiments. PMID:24174536
SIMAP--the database of all-against-all protein sequence similarities and annotations with new interfaces and increased coverage. PMID:24165881
The mouse Gene Expression Database (GXD): 2014 update. PMID:24163257
uORFdb--a comprehensive literature database on eukaryotic uORF biology. PMID:24163100
MEROPS: the database of proteolytic enzymes, their substrates and inhibitors. PMID:24157837
The ability of bifidobacteria to degrade arabinoxylan oligosaccharide constituents and derived oligosaccharides is strain dependent. PMID:24141124
Ketone bodies as signaling metabolites. PMID:24140022
HoPaCI-DB: host-Pseudomonas and Coxiella interaction database. PMID:24137008
Patent human infections with the whipworm, Trichuris trichiura, are not associated with alterations in the faecal microbiota. PMID:24124574
Manteia, a predictive data mining system for vertebrate genes and its applications to human genetic diseases. PMID:24038354
Deep sequencing reveals increased DNA methylation in chronic rat epilepsy. PMID:24005891
The Complete Genome Sequence of Methanobrevibacter sp. AbM4. PMID:23991254
The genome and developmental transcriptome of the strongylid nematode Haemonchus contortus. PMID:23985341
The presence, role and clinical use of spermatozoal RNAs. PMID:23856356
Using an isolated rat kidney model to identify kidney origin proteins in urine. PMID:23825584
MHCcluster, a method for functional clustering of MHC molecules. PMID:23775223
webPDBinder: a server for the identification of ligand binding sites on protein structures. PMID:23737450
aLeaves facilitates on-demand exploration of metazoan gene family trees on MAFFT sequence alignment server with enhanced interactivity. PMID:23677614
Genome-wide identification of bone metastasis-related microRNAs in lung adenocarcinoma by high-throughput sequencing. PMID:23593434
RegTransBase--a database of regulatory sequences and interactions based on literature: a resource for investigating transcriptional regulation in prokaryotes. PMID:23547897
The 2013 Nucleic Acids Research Database Issue and the online molecular biology database collection. PMID:23203983
GenBank. PMID:23193287

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More detailed information about this field from each metasource.

annotation
metasource: Fairsharing.org
version: FAIRsharing.org: Protein; The Protein Database; DOI: https://doi.org/10.25504/FAIRsharing.rtndct; Last edited: July 7, 2021, 9:23 a.m.; Last accessed: Jan 03 2022 7:08 p.m.

gene functional annotation
metasource: Fairsharing.org
version: FAIRsharing.org: Protein; The Protein Database; DOI: https://doi.org/10.25504/FAIRsharing.rtndct; Last edited: July 7, 2021, 9:23 a.m.; Last accessed: Jan 03 2022 7:08 p.m.

protein
metasource: Fairsharing.org
version: FAIRsharing.org: Protein; The Protein Database; DOI: https://doi.org/10.25504/FAIRsharing.rtndct; Last edited: July 7, 2021, 9:23 a.m.; Last accessed: Jan 03 2022 7:08 p.m.

polypeptide_region
metasource: Fairsharing.org
version: FAIRsharing.org: Protein; The Protein Database; DOI: https://doi.org/10.25504/FAIRsharing.rtndct; Last edited: July 7, 2021, 9:23 a.m.; Last accessed: Jan 03 2022 7:08 p.m.

protein sequence databases
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657

general sequence databases
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657

blast
metasource: re3data.org
version: re3data.org: NCBI Protein; editing status 2019-03-21; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3X039 last accessed: 2022-11-04

dna
metasource: re3data.org
version: re3data.org: NCBI Protein; editing status 2019-03-21; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3X039 last accessed: 2022-11-04

rna
metasource: re3data.org
version: re3data.org: NCBI Protein; editing status 2019-03-21; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3X039 last accessed: 2022-11-04

genes
metasource: re3data.org
version: re3data.org: NCBI Protein; editing status 2019-03-21; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3X039 last accessed: 2022-11-04

protein structures
metasource: re3data.org
version: re3data.org: NCBI Protein; editing status 2019-03-21; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3X039 last accessed: 2022-11-04

gene functional annotation protein polypeptide region protein sequence general sequence blast dna rna gene protein structures

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PIR - Protein Information Resource

ProtClustDB

Protein Clusters

PRF

Conserved Domain Database

NCBI Taxonomy

NCBI Gene

Secreted Protein Database

Heme Protein Database

GenBank

Entrez Protein Clusters

Protein Protein Interaction Inhibition Database

Reference Sequence Database

Worldwide Protein Data Bank

Protein kinase resource

TRIP

NPD - Nuclear Protein Database

Integrated resource of protein families, domains and functional sites

InterDom

NCBI Nucleotide