H-Invitational Database
Names
More detailed information about this field from each metasource.
H-Invitational Database
metasource: Fairsharing.org
version: FAIRsharing.org: H-InvDB; H-Invitational Database; DOI: https://doi.org/10.25504/FAIRsharing.j45zag; Last edited: Jan. 8, 2019, 1:21 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
H-InvDB
metasource: Fairsharing.org
version: FAIRsharing.org: H-InvDB; H-Invitational Database; DOI: https://doi.org/10.25504/FAIRsharing.j45zag; Last edited: Jan. 8, 2019, 1:21 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
metasource: bio.tools
version: extracted_at: 2022-11-04T11:27:09.518324
H-Invitational Database, an integrated database of human genes and transcripts
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
h-invdb
metasource: bio.tools
version: extracted_at: 2022-11-04T11:27:09.518324
Names
More detailed information about this field from each metasource.
H-Invitational Database
metasource: Fairsharing.orgversion: FAIRsharing.org: H-InvDB; H-Invitational Database; DOI: https://doi.org/10.25504/FAIRsharing.j45zag; Last edited: Jan. 8, 2019, 1:21 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
H-InvDB
metasource: Fairsharing.orgversion: FAIRsharing.org: H-InvDB; H-Invitational Database; DOI: https://doi.org/10.25504/FAIRsharing.j45zag; Last edited: Jan. 8, 2019, 1:21 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
metasource: bio.tools
version: extracted_at: 2022-11-04T11:27:09.518324
H-Invitational Database, an integrated database of human genes and transcripts
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
h-invdb
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:27:09.518324
Other names: H-InvDB, H-Invitational Database, an integrated database of human genes and transcripts, h-invdb
Names
More detailed information about this field from each metasource.
H-Invitational Database
metasource: Fairsharing.orgversion: FAIRsharing.org: H-InvDB; H-Invitational Database; DOI: https://doi.org/10.25504/FAIRsharing.j45zag; Last edited: Jan. 8, 2019, 1:21 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
H-InvDB
metasource: Fairsharing.orgversion: FAIRsharing.org: H-InvDB; H-Invitational Database; DOI: https://doi.org/10.25504/FAIRsharing.j45zag; Last edited: Jan. 8, 2019, 1:21 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
metasource: bio.tools
version: extracted_at: 2022-11-04T11:27:09.518324
H-Invitational Database, an integrated database of human genes and transcripts
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
h-invdb
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:27:09.518324
H-Invitational Database (H-InvDB) is an integrated database of human genes and transcripts. By extensive analyses of all human transcripts, we provide curated annotations of human genes and transcripts that include gene structures, alternative splicing variants, non-coding functional RNAs, protein functions, functional domains, sub-cellular localizations, metabolic pathways, protein 3D structure, genetic polymorphisms (SNPs, indels and microsatellite repeats) , relation with diseases, gene expression profiling, and molecular evolutionary features , protein-protein interactions (PPIs) and gene families/groups.
Description
More detailed information about this field from each metasource.
H-Invitational Database (H-InvDB) is an integrated database of human genes and transcripts. By extensive analyses of all human transcripts, we provide curated annotations of human genes and transcripts that include gene structures, alternative splicing variants, non-coding functional RNAs, protein functions, functional domains, sub-cellular localizations, metabolic pathways, protein 3D structure, genetic polymorphisms (SNPs, indels and microsatellite repeats) , relation with diseases, gene expression profiling, and molecular evolutionary features , protein-protein interactions (PPIs) and gene families/groups.
metasource: Fairsharing.orgversion: FAIRsharing.org: H-InvDB; H-Invitational Database; DOI: https://doi.org/10.25504/FAIRsharing.j45zag; Last edited: Jan. 8, 2019, 1:21 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
H-InvDB (http://h-invitational.jp/) is an integrated database of human genes and transcripts. By extensive analyses of all human transcripts, we provide curated annotations of human genes and transcripts that include gene structures, alternative splicing variants, non-coding functional RNAs, protein functions, functional domains, sub-cellular localizations, metabolic pathways, protein 3D structure, genetic polymorphisms (SNPs, indels and microsatellite repeats), relation with diseases, gene expression profiling, molecular evolutionary features, protein-protein interactions (PPIs) and gene families/groups. H-InvDB is produced by the "Genome Information Integration Project" (2005-2008) based upon the annotation technology established in the H-Invitational Project for annotation of human full-length cDNAs, and presented as a key integrated database of human genes in METI integrated database project (2008-). H-InvDB consists of three main views, Transcript view, Locus view and Protein view, and six sub-databases with web-based viewers; G-integra, H-ANGEL, DiseaseInfo Viewer, Evola, PPI view and Gene Family/Group view, and provided as flat files, XML files and sequence fasta files.
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
This tool provides curated annotations of human genes and transcripts that include gene structures, alternative splicing isoforms, non-coding functional RNAs, protein functions, functional domains, sub-cellular localizations, metabolic pathways, protein 3D structure, genetic polymorphisms (SNPs, indels and microsatellite repeats), relation with diseases, gene expression profiling, and molecular evolutionary features, protein-protein interactions and gene families/groups.
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:27:09.518324
Webpage:
http://www.h-invitational.jp/hinv/ahg-db/index.jspWebpage
More detailed information about this field from each metasource.
http://www.h-invitational.jp/hinv/ahg-db/index.jsp
metasource: Fairsharing.orgversion: FAIRsharing.org: H-InvDB; H-Invitational Database; DOI: https://doi.org/10.25504/FAIRsharing.j45zag; Last edited: Jan. 8, 2019, 1:21 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
http://www.h-invitational.jp/
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
metasource: bio.tools
version: extracted_at: 2022-11-04T11:27:09.518324
Licence:
Name: Creative Commons Attribution-ShareAlike 2.1 Japan (CC BY-SA 2.1 JP)Licence name
More detailed information about this field from each metasource.
Creative Commons Attribution-ShareAlike 2.1 Japan (CC BY-SA 2.1 JP)
metasource: Fairsharing.orgversion: FAIRsharing.org: H-InvDB; H-Invitational Database; DOI: https://doi.org/10.25504/FAIRsharing.j45zag; Last edited: Jan. 8, 2019, 1:21 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
Licence URL
More detailed information about this field from each metasource.
https://creativecommons.org/licenses/by-sa/2.1/jp/deed.en_US
metasource: Fairsharing.orgversion: FAIRsharing.org: H-InvDB; H-Invitational Database; DOI: https://doi.org/10.25504/FAIRsharing.j45zag; Last edited: Jan. 8, 2019, 1:21 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
Publications:
Publications
More detailed information about this field from each metasource.
Integrative annotation of 21,037 human genes validated by full-length cDNA clones
PMID: 15103394
metasource: Fairsharing.org
version: FAIRsharing.org: H-InvDB; H-Invitational Database; DOI: https://doi.org/10.25504/FAIRsharing.j45zag; Last edited: Jan. 8, 2019, 1:21 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
The H-Invitational Database (H-InvDB), a comprehensive annotation resource for human genes and transcripts
PMID: 18089548
metasource: Fairsharing.org
version: FAIRsharing.org: H-InvDB; H-Invitational Database; DOI: https://doi.org/10.25504/FAIRsharing.j45zag; Last edited: Jan. 8, 2019, 1:21 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
H-InvDB in 2013: an omics study platform for human functional gene and transcript discovery
PMID: 23197657
metasource: Fairsharing.org
version: FAIRsharing.org: H-InvDB; H-Invitational Database; DOI: https://doi.org/10.25504/FAIRsharing.j45zag; Last edited: Jan. 8, 2019, 1:21 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
http://dx.doi.org/10.1093/nar/gks1245
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
http://dx.doi.org/10.1093/nar/gkp1020
metasource: bio.tools
version: extracted_at: 2022-11-04T11:27:09.518324
Publications
More detailed information about this field from each metasource.
Integrative annotation of 21,037 human genes validated by full-length cDNA clones
PMID: 15103394
metasource: Fairsharing.org
version: FAIRsharing.org: H-InvDB; H-Invitational Database; DOI: https://doi.org/10.25504/FAIRsharing.j45zag; Last edited: Jan. 8, 2019, 1:21 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
The H-Invitational Database (H-InvDB), a comprehensive annotation resource for human genes and transcripts
PMID: 18089548
metasource: Fairsharing.org
version: FAIRsharing.org: H-InvDB; H-Invitational Database; DOI: https://doi.org/10.25504/FAIRsharing.j45zag; Last edited: Jan. 8, 2019, 1:21 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
H-InvDB in 2013: an omics study platform for human functional gene and transcript discovery
PMID: 23197657
metasource: Fairsharing.org
version: FAIRsharing.org: H-InvDB; H-Invitational Database; DOI: https://doi.org/10.25504/FAIRsharing.j45zag; Last edited: Jan. 8, 2019, 1:21 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
http://dx.doi.org/10.1093/nar/gks1245
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
http://dx.doi.org/10.1093/nar/gkp1020
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:27:09.518324
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Integrative annotation of 21,037 human genes validated by full-length cDNA clones
PubMed citations: 146.
146 articles citing: Integrative annotation of 21,037 human genes validated by full-length cDNA clones
Pseudomonas syringae AlgU Downregulates Flagellin Gene Expression, Helping Evade Plant Immunity. PMID:31740494
MIR100HG: a credible prognostic biomarker and an oncogenic lncRNA in gastric cancer. PMID:30886062
From "Cellular" RNA to "Smart" RNA: Multiple Roles of RNA in Genome Stability and Beyond. PMID:29600857
Genome-wide identification of conserved intronic non-coding sequences using a Bayesian segmentation approach. PMID:28347272
Alga-PrAS (Algal Protein Annotation Suite): A Database of Comprehensive Annotation in Algal Proteomes. PMID:28069893
The Effect of Human Genome Annotation Complexity on RNA-Seq Gene Expression Quantification. PMID:27532059
Large intergenic non-coding RNA-ROR reverses gemcitabine-induced autophagy and apoptosis in breast cancer cells. PMID:27449099
Selection pressure on human STR loci and its relevance in repeat expansion disease. PMID:27290643
Death of a dogma: eukaryotic mRNAs can code for more than one protein. PMID:26578573
Identification of linc-NeD125, a novel long non coding RNA that hosts miR-125b-1 and negatively controls proliferation of human neuroblastoma cells. PMID:26480000
IAOseq: inferring abundance of overlapping genes using RNA-seq data. PMID:25707673
VaDE: a manually curated database of reproducible associations between various traits and human genomic polymorphisms. PMID:25361969
Multiplicity of 5' cap structures present on short RNAs. PMID:25079783
Panning for Long Noncoding RNAs. PMID:24970166
Regulatory Roles for Long ncRNA and mRNA. PMID:24216986
Unlocking Triticeae genomics to sustainably feed the future. PMID:24204022
Large-scale collection and analysis of full-length cDNAs from Brachypodium distachyon and integration with Pooideae sequence resources. PMID:24130698
pseudoMap: an innovative and comprehensive resource for identification of siRNA-mediated mechanisms in human transcribed pseudogenes. PMID:23396300
Transcribed pseudogene ψPPM1K generates endogenous siRNA to suppress oncogenic cell growth in hepatocellular carcinoma. PMID:23376929
PCDq: human protein complex database with quality index which summarizes different levels of evidences of protein complexes predicted from h-invitational protein-protein interactions integrative dataset. PMID:23282181
H-InvDB in 2013: an omics study platform for human functional gene and transcript discovery. PMID:23197657
Prediction of protein-destabilizing polymorphisms by manual curation with protein structure. PMID:23189203
Reconstructing the demographic history of the human lineage using whole-genome sequences from human and three great apes. PMID:22975719
Comparative genome analysis of three eukaryotic parasites with differing abilities to transform leukocytes reveals key mediators of Theileria-induced leukocyte transformation. PMID:22951932
Bioinformatics tools and novel challenges in long non-coding RNAs (lncRNAs) functional analysis. PMID:22312241
Human long non-coding RNAs promote pluripotency and neuronal differentiation by association with chromatin modifiers and transcription factors. PMID:22193719
HGPD: Human Gene and Protein Database, 2012 update. PMID:22140100
Abundance of ultramicro inversions within local alignments between human and chimpanzee genomes. PMID:22011259
Weak seed-pairing stability and high target-site abundance decrease the proficiency of lsy-6 and other microRNAs. PMID:21909094
Development of full-length cDNAs from Chinese cabbage (Brassica rapa Subsp. pekinensis) and identification of marker genes for defence response. PMID:21745830
Sniper: improved SNP discovery by multiply mapping deep sequenced reads. PMID:21689413
A computational approach to candidate gene prioritization for X-linked mental retardation using annotation-based binary filtering and motif-based linear discriminatory analysis. PMID:21668950
Saturation of the human phenome. PMID:21532833
Transcriptome sequencing demonstrates that human papillomavirus is not active in cutaneous squamous cell carcinoma. PMID:21490616
Predicting promoter activities of primary human DNA sequences. PMID:21486745
Comprehensive sequence analysis of 24,783 barley full-length cDNAs derived from 12 clone libraries. PMID:21415278
Tethering of poly(A)-binding protein interferes with non-translated mRNA decay from the 5' end in yeast. PMID:20732870
Genome-wide computational identification and manual annotation of human long noncoding RNA genes. PMID:20587619
Sequence features that drive human promoter function and tissue specificity. PMID:20501695
The transcript repeat element: the human Alu sequence as a component of gene networks influencing cancer. PMID:20393868
RNA dust: where are the genes? PMID:20211845
Genomics and bioinformatics resources for crop improvement. PMID:20208064
Projection of gene-protein networks to the functional space of the proteome and its application to analysis of organism complexity. PMID:20158875
A multigene predictor of outcome in glioblastoma. PMID:20150367
Identification and analysis of in planta expressed genes of Magnaporthe oryzae. PMID:20146797
H-DBAS: human-transcriptome database for alternative splicing: update 2010. PMID:19969536
H-InvDB in 2009: extended database and data mining resources for human genes and transcripts. PMID:19933760
Automated quantitative assessment of proteins' biological function in protein knowledge bases. PMID:19920991
Transcripts of unknown function in multiple-signaling pathways involved in human stem cell differentiation. PMID:19531736
Structural implication of splicing stochastics. PMID:19528068
Hyperlink Management System and ID Converter System: enabling maintenance-free hyperlinks among major biological databases. PMID:19454601
TriFLDB: a database of clustered full-length coding sequences from Triticeae with applications to comparative grass genomics. PMID:19448038
Comparative component analysis of exons with different splicing frequencies. PMID:19404386
Coding region structural heterogeneity and turnover of transcription start sites contribute to divergence in expression between duplicate genes. PMID:19175934
Identification of gene 3' ends by automated EST cluster analysis. PMID:19095794
Determination of tag density required for digital transcriptome analysis: application to an androgen-sensitive prostate cancer model. PMID:19088194
Regulation of neural macroRNAs by the transcriptional repressor REST. PMID:19050060
Differentiating protein-coding and noncoding RNA: challenges and ambiguities. PMID:19043537
AS-ALPS: a database for analyzing the effects of alternative splicing on protein structure, interaction and network in human and mouse. PMID:19015123
Non-coding RNAs revealed during identification of genes involved in chicken immune responses. PMID:19009289
VarySysDB: a human genetic polymorphism database based on all H-InvDB transcripts. PMID:18953038
The Functional RNA Database 3.0: databases to support mining and annotation of functional RNAs. PMID:18948287
Distribution and effects of nonsense polymorphisms in human genes. PMID:18852891
Noncoding RNA in development. PMID:18839252
Low conservation and species-specific evolution of alternative splicing in humans and mice: comparative genomics analysis using well-annotated full-length cDNAs. PMID:18838389
NRED: a database of long noncoding RNA expression. PMID:18829717
A common variant in the 3'UTR of the GRIK4 glutamate receptor gene affects transcript abundance and protects against bipolar disorder. PMID:18824690
The impact of microRNAs on protein output. PMID:18668037
Conserved secondary structures in Aspergillus. PMID:18665251
Fine expression profiling of full-length transcripts using a size-unbiased cDNA library prepared with the vector-capping method. PMID:18487259
An overview of the wcd EST clustering tool. PMID:18480101
Two different classes of co-occurring motif pairs found by a novel visualization method in human promoter regions. PMID:18312685
Large-scale analysis of Macaca fascicularis transcripts and inference of genetic divergence between M. fascicularis and M. mulatta. PMID:18294402
Computational analysis of full-length cDNAs reveals frequent coupling between transcriptional and splicing programs. PMID:18276623
Automated production of recombinant human proteins as resource for proteome research. PMID:18226205
The H-Invitational Database (H-InvDB), a comprehensive annotation resource for human genes and transcripts. PMID:18089548
Diversity of preferred nucleotide sequences around the translation initiation codon in eukaryote genomes. PMID:18086709
Penalized likelihood for sparse contingency tables with an application to full-length cDNA libraries. PMID:18072965
Gene organization in rice revealed by full-length cDNA mapping and gene expression analysis through microarray. PMID:18043742
Computational RNomics of drosophilids. PMID:17996037
The HGNC Database in 2008: a resource for the human genome. PMID:17984084
Evola: Ortholog database of all human genes in H-InvDB with manual curation of phylogenetic trees. PMID:17982176
MetaProm: a neural network based meta-predictor for alternative human promoter prediction. PMID:17941982
A systematic approach for testing expression of human full-length proteins in cell-free expression systems. PMID:17915018
A cross-species alignment tool (CAT). PMID:17880681
Distinct class of putative "non-conserved" promoters in humans: comparative studies of alternative promoters of human and mouse genes. PMID:17567985
A new advance in alternative splicing databases: from catalogue to detailed analysis of regulation of expression and function of human alternative splicing variants. PMID:17547750
ProtSweep, 2Dsweep and DomainSweep: protein analysis suite at DKFZ. PMID:17526514
Intrinsic promoter activities of primary DNA sequences in the human genome. PMID:17522093
Virtual Northern analysis of the human genome. PMID:17520019
Porcine transcriptome analysis based on 97 non-normalized cDNA libraries and assembly of 1,021,891 expressed sequence tags. PMID:17407547
Comparative analysis of genome tiling array data reveals many novel primate-specific functional RNAs in human. PMID:17288572
Large-scale identification of novel transcripts in the human genome. PMID:17267814
Global reconstruction of the human metabolic network based on genomic and bibliomic data. PMID:17267599
Novel expressed sequences identified in a model of androgen independent prostate cancer. PMID:17257419
Computational promoter analysis of mouse, rat and human antimicrobial peptide-coding genes. PMID:17254313
Curated genome annotation of Oryza sativa ssp. japonica and comparative genome analysis with Arabidopsis thaliana. PMID:17210932
Noncoding RNAs database (ncRNAdb). PMID:17169980
RNAdb 2.0--an expanded database of mammalian non-coding RNAs. PMID:17145715
The UCSC genome browser database: update 2007. PMID:17142222
H-DBAS: alternative splicing database of completely sequenced and manually annotated full-length cDNAs based on H-Invitational. PMID:17130147
Pan-genome isolation of low abundance transcripts using SAGE tag. PMID:17113583
fRNAdb: a platform for mining/annotating functional RNA candidates from non-coding RNA sequences. PMID:17099231
The proteins of human chromosome 21. PMID:17048356
The disparate nature of "intergenic" polyadenylation sites. PMID:16931874
Performance assessment of promoter predictions on ENCODE regions in the EGASP experiment. PMID:16925837
Large-scale identification and characterization of alternative splicing variants of human gene transcripts using 56,419 completely sequenced and manually annotated full-length cDNAs. PMID:16914452
A RecA-mediated exon profiling method. PMID:16896013
Conservation of alternative polyadenylation patterns in mammalian genes. PMID:16872498
Functional single nucleotide polymorphism-based association studies. PMID:16848977
TACT: Transcriptome Auto-annotation Conducting Tool of H-InvDB. PMID:16845023
Differential repression of alternative transcripts: a screen for miRNA targets. PMID:16699595
Mice and men: their promoter properties. PMID:16683032
A systematic analysis of disease-associated variants in the 3' regulatory regions of human protein-coding genes I: general principles and overview. PMID:16645853
AltTrans: transcript pattern variants annotated for both alternative splicing and alternative polyadenylation. PMID:16556303
Conserved family of glycerol kinase loci in Drosophila melanogaster. PMID:16545593
Deciphering cellular states of innate tumor drug responses. PMID:16542501
A comprehensive software suite for the analysis of cDNAs. PMID:16487083
Combined expression trait correlations and expression quantitative trait locus mapping. PMID:16424919
The Rice Annotation Project Database (RAP-DB): hub for Oryza sativa ssp. japonica genome information. PMID:16381971
Transposon-free regions in mammalian genomes. PMID:16365385
Retroposition of processed pseudogenes: the impact of RNA stability and translational control. PMID:16356584
Comprehensive analysis of transcriptional promoter structure and function in 1% of the human genome. PMID:16344566
Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. PMID:16344560
Rapid and efficient cDNA library screening by self-ligation of inverse PCR products (SLIP). PMID:16326860
Characterization of 954 bovine full-CDS cDNA sequences. PMID:16305752
Leveraging human genomic information to identify nonhuman primate sequences for expression array development. PMID:16288651
Alternative splicing and protein function. PMID:16274476
Alternative pre-mRNA processing regulates cell-type specific expression of the IL4l1 and NUP62 genes. PMID:16029492
Replication-associated strand asymmetries in mammalian genomes: toward detection of replication origins. PMID:15985556
The genome sequence of black cottonwood (Populus trichocarpa) reveals 18 conserved cellulose synthase (CesA) genes. PMID:15940463
Detecting novel low-abundant transcripts in Drosophila. PMID:15923377
Direct isolation and identification of promoters in the human genome. PMID:15899964
Large-scale analysis of human alternative protein isoforms: pattern classification and correlation with subcellular localization signals. PMID:15860772
Pilot Anopheles gambiae full-length cDNA study: sequencing and initial characterization of 35,575 clones. PMID:15833126
Comparative gene finding in chicken indicates that we are closing in on the set of multi-exonic widely expressed human genes. PMID:15809229
Comparative promoter region analysis powered by CORG. PMID:15723697
Integration with the human genome of peptide sequences obtained by high-throughput mass spectrometry. PMID:15642101
Full-length cDNAs from chicken bursal lymphocytes to facilitate gene function analysis. PMID:15642098
The Human Anatomic Gene Expression Library (H-ANGEL), the H-Inv integrative display of human gene expression across disparate technologies and platforms. PMID:15608263
DDBJ in collaboration with mass-sequencing teams on annotation. PMID:15608189
RNAdb--a comprehensive mammalian noncoding RNA database. PMID:15608161
Transcriptome analysis for the chicken based on 19,626 finished cDNA sequences and 485,337 expressed sequence tags. PMID:15590942
From ORFeome to biology: a functional genomics pipeline. PMID:15489336
Human ORFeome version 1.1: a platform for reverse proteomics. PMID:15489335
A catalog of human cDNA expression clones and its application to structural genomics. PMID:15345055 -
The H-Invitational Database (H-InvDB), a comprehensive annotation resource for human genes and transcripts
PubMed citations: 43.
43 articles citing: The H-Invitational Database (H-InvDB), a comprehensive annotation resource for human genes and transcripts
lncExplore: a database of pan-cancer analysis and systematic functional annotation for lncRNAs from RNA-sequencing data. PMID:34464437
Navigating the dynamic landscape of long noncoding RNA and protein-coding gene annotations in GENCODE. PMID:27793185
The Effect of Human Genome Annotation Complexity on RNA-Seq Gene Expression Quantification. PMID:27532059
Selection pressure on human STR loci and its relevance in repeat expansion disease. PMID:27290643
Constraint Based Modeling Going Multicellular. PMID:26904548
Systematic transcriptome analysis reveals tumor-specific isoforms for ovarian cancer diagnosis and therapy. PMID:26015570
Identification and Validation of Evolutionarily Conserved Unusually Short Pre-mRNA Introns in the Human Genome. PMID:25961948
Identification of candidate long noncoding RNAs associated with left ventricular hypertrophy. PMID:25382655
LncRBase: an enriched resource for lncRNA information. PMID:25233092
GWAS and drug targets. PMID:25057111
Brefeldin A-inhibited guanine nucleotide-exchange protein 3 (BIG3) is predicted to interact with its partner through an ARM-type α-helical structure. PMID:24997568
Assessing the impact of human genome annotation choice on RNA-seq expression estimates. PMID:24564364
Large-scale collection and analysis of full-length cDNAs from Brachypodium distachyon and integration with Pooideae sequence resources. PMID:24130698
PCDq: human protein complex database with quality index which summarizes different levels of evidences of protein complexes predicted from h-invitational protein-protein interactions integrative dataset. PMID:23282181
Prediction of protein-destabilizing polymorphisms by manual curation with protein structure. PMID:23189203
Comparative genome analysis of three eukaryotic parasites with differing abilities to transform leukocytes reveals key mediators of Theileria-induced leukocyte transformation. PMID:22951932
Consequences of the discontinuation of the International Protein Index (IPI) database and its substitution by the UniProtKB "complete proteome" sets. PMID:21932440
Computational approaches to selecting and optimising targets for structural biology. PMID:21906678
Published and perished? The influence of the searched protein database on the long-term storage of proteomics data. PMID:21700957
TargetMine, an integrated data warehouse for candidate gene prioritisation and target discovery. PMID:21408081
The Genomic HyperBrowser: inferential genomics at the sequence level. PMID:21182759
Mining Affymetrix microarray data for long non-coding RNAs: altered expression in the nucleus accumbens of heroin abusers. PMID:21128942
PathEx: a novel multi factors based datasets selector web tool. PMID:20969778
Prediction of carbohydrate-binding proteins from sequences using support vector machines. PMID:20936154
Genome-wide computational identification and manual annotation of human long noncoding RNA genes. PMID:20587619
A comprehensive survey of human polymorphisms at conserved splice dinucleotides and its evolutionary relationship with alternative splicing. PMID:20433709
GATExplorer: genomic and transcriptomic explorer; mapping expression probes to gene loci, transcripts, exons and ncRNAs. PMID:20429936
Mining mammalian transcript data for functional long non-coding RNAs. PMID:20428234
Genomics and bioinformatics resources for crop improvement. PMID:20208064
PhosSNP for systematic analysis of genetic polymorphisms that influence protein phosphorylation. PMID:19995808
H-DBAS: human-transcriptome database for alternative splicing: update 2010. PMID:19969536
H-InvDB in 2009: extended database and data mining resources for human genes and transcripts. PMID:19933760
G-compass: a web-based comparative genome browser between human and other vertebrate genomes. PMID:19846439
Hyperlink Management System and ID Converter System: enabling maintenance-free hyperlinks among major biological databases. PMID:19454601
TriFLDB: a database of clustered full-length coding sequences from Triticeae with applications to comparative grass genomics. PMID:19448038
Systems medicine: the future of medical genomics and healthcare. PMID:19348689
QuantPrime--a flexible tool for reliable high-throughput primer design for quantitative PCR. PMID:18976492
VarySysDB: a human genetic polymorphism database based on all H-InvDB transcripts. PMID:18953038
Distribution and effects of nonsense polymorphisms in human genes. PMID:18852891
Low conservation and species-specific evolution of alternative splicing in humans and mice: comparative genomics analysis using well-annotated full-length cDNAs. PMID:18838389
Trans-natural antisense transcripts including noncoding RNAs in 10 species: implications for expression regulation. PMID:18653530
Isoform discovery by targeted cloning, 'deep-well' pooling and parallel sequencing. PMID:18552854
Evola: Ortholog database of all human genes in H-InvDB with manual curation of phylogenetic trees. PMID:17982176 -
H-InvDB in 2013: an omics study platform for human functional gene and transcript discovery
PubMed citations: 12.
12 articles citing: H-InvDB in 2013: an omics study platform for human functional gene and transcript discovery
Differential Evolution approach to detect recent admixture. PMID:26111206
Advances in long noncoding RNAs: identification, structure prediction and function annotation. PMID:26072035
Gateways to the FANTOM5 promoter level mammalian expression atlas. PMID:25723102
Multiple evidence strands suggest that there may be as few as 19,000 human protein-coding genes. PMID:24939910
Alzheimer disease: An interactome of many diseases. PMID:24753659
GeneSense: a new approach for human gene annotation integrated with protein-protein interaction networks. PMID:24667292
BioHackathon series in 2011 and 2012: penetration of ontology and linked data in life science domains. PMID:24495517
Lysine deacetylase (KDAC) regulatory pathways: an alternative approach to selective modulation. PMID:24449617
Review: Alternative Splicing (AS) of Genes As An Approach for Generating Protein Complexity. PMID:24179441
Transmembrane protein 208: a novel ER-localized protein that regulates autophagy and ER stress. PMID:23691174
aLeaves facilitates on-demand exploration of metazoan gene family trees on MAFFT sequence alignment server with enhanced interactivity. PMID:23677614
The 2013 Nucleic Acids Research Database Issue and the online molecular biology database collection. PMID:23203983 - http://dx.doi.org/10.1093/nar/gks1245
- http://dx.doi.org/10.1093/nar/gkp1020
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More detailed information about this field from each metasource.
alternative splicing
metasource: Fairsharing.org
version: FAIRsharing.org: H-InvDB; H-Invitational Database; DOI: https://doi.org/10.25504/FAIRsharing.j45zag; Last edited: Jan. 8, 2019, 1:21 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
cellular localization
metasource: Fairsharing.org
version: FAIRsharing.org: H-InvDB; H-Invitational Database; DOI: https://doi.org/10.25504/FAIRsharing.j45zag; Last edited: Jan. 8, 2019, 1:21 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
function analysis
metasource: Fairsharing.org
version: FAIRsharing.org: H-InvDB; H-Invitational Database; DOI: https://doi.org/10.25504/FAIRsharing.j45zag; Last edited: Jan. 8, 2019, 1:21 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
functional domain
metasource: Fairsharing.org
version: FAIRsharing.org: H-InvDB; H-Invitational Database; DOI: https://doi.org/10.25504/FAIRsharing.j45zag; Last edited: Jan. 8, 2019, 1:21 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
gene expression data
metasource: Fairsharing.org
version: FAIRsharing.org: H-InvDB; H-Invitational Database; DOI: https://doi.org/10.25504/FAIRsharing.j45zag; Last edited: Jan. 8, 2019, 1:21 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
genetic polymorphism
metasource: Fairsharing.org
version: FAIRsharing.org: H-InvDB; H-Invitational Database; DOI: https://doi.org/10.25504/FAIRsharing.j45zag; Last edited: Jan. 8, 2019, 1:21 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
non-coding rna
metasource: Fairsharing.org
version: FAIRsharing.org: H-InvDB; H-Invitational Database; DOI: https://doi.org/10.25504/FAIRsharing.j45zag; Last edited: Jan. 8, 2019, 1:21 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
protein interaction
metasource: Fairsharing.org
version: FAIRsharing.org: H-InvDB; H-Invitational Database; DOI: https://doi.org/10.25504/FAIRsharing.j45zag; Last edited: Jan. 8, 2019, 1:21 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
protein structure
metasource: Fairsharing.org
version: FAIRsharing.org: H-InvDB; H-Invitational Database; DOI: https://doi.org/10.25504/FAIRsharing.j45zag; Last edited: Jan. 8, 2019, 1:21 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
human and other vertebrate genomes
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
human orfs
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
gene and protein families
metasource: bio.tools
version: extracted_at: 2022-11-04T11:27:09.518324
transcriptomics
metasource: bio.tools
version: extracted_at: 2022-11-04T11:27:09.518324
genetic variation
metasource: bio.tools
version: extracted_at: 2022-11-04T11:27:09.518324
molecular interactions, pathways and networks
metasource: bio.tools
version: extracted_at: 2022-11-04T11:27:09.518324
pathology
metasource: bio.tools
version: extracted_at: 2022-11-04T11:27:09.518324
human biology
metasource: bio.tools
version: extracted_at: 2022-11-04T11:27:09.518324
functional, regulatory and non-coding rna
metasource: bio.tools
version: extracted_at: 2022-11-04T11:27:09.518324
protein targeting and localisation
metasource: bio.tools
version: extracted_at: 2022-11-04T11:27:09.518324
Tags
More detailed information about this field from each metasource.
alternative splicing
metasource: Fairsharing.orgversion: FAIRsharing.org: H-InvDB; H-Invitational Database; DOI: https://doi.org/10.25504/FAIRsharing.j45zag; Last edited: Jan. 8, 2019, 1:21 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
cellular localization
metasource: Fairsharing.orgversion: FAIRsharing.org: H-InvDB; H-Invitational Database; DOI: https://doi.org/10.25504/FAIRsharing.j45zag; Last edited: Jan. 8, 2019, 1:21 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
function analysis
metasource: Fairsharing.orgversion: FAIRsharing.org: H-InvDB; H-Invitational Database; DOI: https://doi.org/10.25504/FAIRsharing.j45zag; Last edited: Jan. 8, 2019, 1:21 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
functional domain
metasource: Fairsharing.orgversion: FAIRsharing.org: H-InvDB; H-Invitational Database; DOI: https://doi.org/10.25504/FAIRsharing.j45zag; Last edited: Jan. 8, 2019, 1:21 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
gene expression data
metasource: Fairsharing.orgversion: FAIRsharing.org: H-InvDB; H-Invitational Database; DOI: https://doi.org/10.25504/FAIRsharing.j45zag; Last edited: Jan. 8, 2019, 1:21 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
genetic polymorphism
metasource: Fairsharing.orgversion: FAIRsharing.org: H-InvDB; H-Invitational Database; DOI: https://doi.org/10.25504/FAIRsharing.j45zag; Last edited: Jan. 8, 2019, 1:21 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
non-coding rna
metasource: Fairsharing.orgversion: FAIRsharing.org: H-InvDB; H-Invitational Database; DOI: https://doi.org/10.25504/FAIRsharing.j45zag; Last edited: Jan. 8, 2019, 1:21 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
protein interaction
metasource: Fairsharing.orgversion: FAIRsharing.org: H-InvDB; H-Invitational Database; DOI: https://doi.org/10.25504/FAIRsharing.j45zag; Last edited: Jan. 8, 2019, 1:21 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
protein structure
metasource: Fairsharing.orgversion: FAIRsharing.org: H-InvDB; H-Invitational Database; DOI: https://doi.org/10.25504/FAIRsharing.j45zag; Last edited: Jan. 8, 2019, 1:21 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
human and other vertebrate genomes
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
human orfs
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
gene and protein families
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:27:09.518324
transcriptomics
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:27:09.518324
genetic variation
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:27:09.518324
molecular interactions, pathways and networks
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:27:09.518324
pathology
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:27:09.518324
human biology
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:27:09.518324
functional, regulatory and non-coding rna
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:27:09.518324
protein targeting and localisation
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:27:09.518324
alternative splicing cellular localization function analysis functional domain gene expression polymorphism non-coding rna protein interaction protein structure human and other vertebrate genomes human orfs gene and protein families transcriptomics genetic variation molecular interactions, pathways and networks pathology human functional, regulatory and non-coding rna protein targeting and localisation
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