Expression Atlas update—an integrated database of gene and protein expression in humans, animals and plants
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Summary
The first proteomics study in human tissues is now displayed alongside transcriptomics data in the same tissues, and novel analyses and visualisations include: ‘enrichment’ in each differential comparison of GO terms, Reactome, Plant Reactome pathways and InterPro domains.
- Type
- article
- Published
- 2015-10-19
- Cited by
- 513
- References
- 40
- Access
- Open access
- OpenAlex
- https://openalex.org/W2146749911
- Semantic Scholar
- https://api.semanticscholar.org/CorpusID:10391751
Keywords
Biology, Human Protein Atlas, Gene expression profiling, Computational biology, Gene expression
References
- The Genotype-Tissue Expression (GTEx) project
- A comprehensive transcriptional portrait of human cancer cell lines
- Orchestrating high-throughput genomic analysis with Bioconductor
- Probability-based protein identification by searching sequence databases using mass spectrometry data
- A promoter-level mammalian expression atlas
- Fast and accurate database searches with MS-GF+Percolator
- Accurate and Sensitive Peptide Identification with Mascot Percolator
- Ensembl Genomes 2013: scaling up access to genome-wide data
- RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome
- Tissue-based map of the human proteome
- Hotspots of aberrant epigenomic reprogramming in human induced pluripotent stem cells
- Gramene 2013: comparative plant genomics resources
- The Cancer Cell Line Encyclopedia enables predictive modeling of anticancer drug sensitivity
- OpenMS – An open-source software framework for mass spectrometry
- A draft map of the human proteome
- Expression Atlas update—a database of gene and transcript expression from microarray- and sequencing-based functional genomics experiments
- Independent filtering increases detection power for high-throughput experiments
- Enhanced Peptide Identification by Electron Transfer Dissociation Using an Improved Mascot Percolator
- ArrayExpress update—trends in database growth and links to data analysis tools
- Enhancer Evolution across 20 Mammalian Species
Cited by
- Plant specimen contextual data consensus
- ExpressionDB: An open source platform for distributing genome-scale datasets
- Whole Exome Sequencing of Patients from Multicase Families with Systemic Lupus Erythematosus Identifies Multiple Rare Variants
- The European Bioinformatics Institute in 2016: Data growth and integration
- Identifying ligands at orphan GPCRs: current status using structure‐based approaches
- Systems Biology of Type 2 Diabetes in Skeletal Muscle
- Webulous and the Webulous Google Add-On - a web service and application for ontology building from templates
- Transcriptomics resources of human tissues and organs
- Identification of lung‐specific genes by meta‐analysis of multiple tissue RNA‐seq data
- Research Resources for Nuclear Receptor Signaling Pathways
- Pan-cancer immunogenomic analyses reveal genotype-immunophenotype relationships and predictors of response to checkpoint blockade
- Mammalian PNLDC1 is a novel poly(A) specific exonuclease with discrete expression during early development
- In Silico Systems Pharmacology to Assess Drug's Therapeutic and Toxic Effects.
- OpenMS: a flexible open-source software platform for mass spectrometry data analysis
- How to Identify Pathogenic Mutations among All Those Variations: Variant Annotation and Filtration in the Genome Sequencing Era
- A Critical Evaluation of Analytic Aspects of Gene Expression Profiling in Lymphoid Leukemias with Broad Applications to Cancer Genomics
- Systems Medicine as an Emerging Tool for Cardiovascular Genetics
- recount: A large-scale resource of analysis-ready RNA-seq expression data
- Co-regulation of paralog genes in the three-dimensional chromatin architecture
- Tissue Specificity of Gene Expression
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