Tag: proteomics experiment

The PRIDE PRoteomics IDEntifications database is a centralized, standards compliant, public data repository that provides protein and peptide identifications together with supporting evidence.

MitoMiner is an integrated data warehouse of mammalian localisation evidence, phenotypes and diseases. This data has been integrated to allow the creation of sophisticated data mining queries spanning many different sources. It is primarily concerned ...

Arabidopsis Protein Phosphorylation Site Database

iProX is a public platform for collecting and sharing raw data, analysis results and metadata obtained from proteomics experiments. The iProX repository employs a web-based proteome data submission process and open sharing of mass spectrometry-based ...

Proteome-pI is an online database containing information about predicted isoelectric points for 5,029 proteomes (21 million of sequences) calculated using 18 methods. The isoelectric point, the pH at which a particular molecule carries no net electri ...

Unimod is a community-supported, comprehensive database of protein modifications for mass spectrometry applications. The aim is to provide accurate and verifiable values, derived from elemental compositions, for the mass differences introduced by all ...

Proteomics database for streptomyces and caulobacter and neisseria. Unique database in the field, containing knowledge based data of time series of protein expression for various stages of development of the given species.

The dbDEPC is a database of differentially expressed proteins in human cancers.

A basic ontology which describes the proteomics pipeline infrastructure for CPTAC project

GlycoPOST is a mass spectrometry data repository for glycomics. Users can release their "raw/processed" data via this site with a unique identifier number for the paper publication. Submission conditions are in accordance with the Minimum Information ...

Community-editable fluorescent protein database, cataloging an expanded range of proteins and parameters, including a new spectra viewer.

The ECM-protein knowledge database. Please follow MatrisomeDB. MatrisomeDB will be hosted at matrisomedb.org very soon.

Japanese Multi Omics Reference Panel

GELBANK is a publicly available database of two-dimensional gel electrophoresis (2DE) gel images of proteomes from organisms with known genome information (available at http://gelbank.anl.gov). GELBANK serves as a database for those proteomics labs t ...

A community resource of quantitative mass spectrometry-based proteomics datasets. MassIVE.quant is an extension of the Mass Spectrometry Interactive Virtual Environment (MassIVE) to provide the opportunity for large-scale deposition of data from qua ...

CCSbase is an all-in-one web interface for querying the CCS database and accessing the predictive model to support unknown compound identifications.

DIPPER is a spatiotemporal proteomics atlas of human intervertebral discs for exploring ageing and degeneration dynamics.

A database of high-resolution MS/MS spectra for lichen metabolites. The Global Natural Product Social Molecular Networking (GNPS) site creates a community for natural product researchers working with mass spectrometry data. MassIVE Datasets : Docum ...

Prediction of the Metabolites Resulting from Phase 1 and Phase 2 Biotransformations of Xenobiotics. New E-Resource for Drug Discovery. Regioselectivity prediction for phase 1 and phase 2 metabolism.

an annotated database of protein associations. Tabloid Proteome is a database of protein association network generated using publically available mass spectrometry based experiments in PRIDE.These associations represent a broad scala of biological a ...

dbPTM is a databases which accumulates the biological information related to protein post-translational modification (PTM), such as the catalytic sites, structural information, solvent accessibility of residues, protein secondary structures, protein ...

CycloBranch is an open and platform-free software that provide the de novo generation of molecular formulas of unknown compounds in both liquid chromatography/mass spectrometry and mass spectrometry imaging datafiles.

Online Crowd-Sourced HR-MS Database for Suspect and Non-targeted Screening of New Psychoactive Substances.

A large-scaled depository of mass spectrometry datasets for metabolome analysis.

DynLib is spectral database containing spectras from LC-MS runs for maize organs in order to investigate the metabolome.

2DE-pattern is a database containing data on proteins/isoforms/proteoforms profiles.

Database for the mulberry metabolome. The Mulberry Metabolome Database. Comprehensively, freely, and User-friendly.

Toward Enhancing the Precision of Top Hits in Ligand-Based Virtual Screening of Drug Leads from Large Compound Databases.

How to Illuminate the Dark Proteome Using the Multi-omic OpenProt Resource. OpenProt is the first database that enforces a polycistronic model of eukaryotic genome annotations. Thus, OpenProt annotates known proteins (called RefProts) but also novel ...

The database of pre-computed isoelectric points and molecular weights for proteins and digest peptides from model organism's proteomes. Contains data for over 61 million protein sequences from 20,115 proteomes with isoelectric point predicted using 2 ...

Fusarium graminearum Genome Database (FGDB) is a comprehensive genome database on one of the most devastating fungal plant pathogens of wheat and barley. FGDB provides information on two gene sets independently derived by automated annotation of the ...

A repository of protein interaction data from mass spectrometry experiments.

An updated database for PTM dynamics in human, mouse, rat and yeast.

Deep Proteome Profiling Enabled Functional Annotation and Data-Independent Quantification of Proline Hydroxylation Targets.

DNMSO is an ontology for representing de novo sequencing results from Tandem-MS data. For the identification and sequencing of proteins, mass spectrometry (MS) has become the tool of choice and as such drives proteomics.

Repository and statistical tools for directly determined PTM crosstalk based on long peptides measured by mass spectrometry. Focus on histone proteins.

CEDAR (The ComplexomE profiling DAta Resource) facilitates the storage and sharing of complexome profiling data, compliant with the MIACE standard , with the goal to enable and simplify their reuse.

An Open Access Data Repository of Mass Spectra for Chemical Ecology.

virusMS is a database for synthetic peptides of viruses with mass spectrometry. It is a tool for resourcing, annotating, and analysing synthetic peptides of SARS-CoV-2 for immunopeptidomics and other immunological studies.

A user-friendly proteome database search software with an emphasis on deciphering the spectra of O-linked glycopeptides.

DbRUSP is an interactive database for the analysis and interpretation of newborn screening (NBS) data and for studying the effects of covariates on blood metabolite levels.

Essential Features and Use Cases of the Cerebrospinal Fluid Proteome Resource (CSF-PR) | Every year, a large number of published studies present biomarkers for various neurological disorders. Many of these studies are based on mass spectrometry prote ...

PIDE (Particle Irradiation Data Ensemble) is a radiobiological database compiling more than 1100 pairs of in-vitro cell survival experiments after photon and ion irradiation.

USDA, NIH and FDA Iodine Database of U.S. Foods for Estimating Iodine Intakes.

The Lung Cancer Metabolome Database (LCMD), a freely available online database depositing 2013 lung cancer-related metabolites identified from 65 mass spectrometry-based lung cancer metabolomics studies.

A mass spectral library consisting of tryptic peptide product ion spectra generated by liquid chromatography coupled to ion trap mass spectrometry (LC-ITMS). Developed using samples derived from Arabidopsis thaliana and Medicago truncatula. The datab ...