Expression Atlas: gene and protein expression across multiple studies and organisms
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Summary
Novel features and visualizations include the on-the-fly analysis of gene set overlaps and the option to view gene co-expression in experiments investigating constitutive gene expression across tissues or other conditions.
- Type
- article
- Published
- 2017-11-20
- Cited by
- 362
- References
- 32
- Access
- Open access
- OpenAlex
- https://openalex.org/W2769591387
- Semantic Scholar
- https://api.semanticscholar.org/CorpusID:1489058
Keywords
Biology, Atlas (anatomy), Computational biology, Gene expression, Gene
References
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- ArrayExpress update—simplifying data submissions
- Integrative analysis of 111 reference human epigenomes
- Transcriptome analysis of human tissues and cell lines reveals one dominant transcript per gene
- Gramene 2016: comparative plant genomics and pathway resources
- NCBI GEO: archive for functional genomics data sets—update
- The complex portal - an encyclopaedia of macromolecular complexes
- HTSeq—a Python framework to work with high-throughput sequencing data
- 2016 update of the PRIDE database and its related tools
- Mapping RNA-seq Reads with STAR
- TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions
- Expression Atlas update—an integrated database of gene and protein expression in humans, animals and plants
- The sequence read archive: explosive growth of sequencing data
- WormBase 2016: expanding to enable helminth genomic research
- Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2
- Ensembl Genomes 2016: more genomes, more complexity
- Ensembl Plants: Integrating Tools for Visualizing, Mining, and Analyzing Plant Genomics Data.
- OpenMS: a flexible open-source software platform for mass spectrometry data analysis
- The human-induced pluripotent stem cell initiative—data resources for cellular genetics
- The ProteomeXchange consortium in 2017: supporting the cultural change in proteomics public data deposition
Cited by
- The European Bioinformatics Institute in 2017: data coordination and integration
- Tools for building de novo transcriptome assembly
- HumCFS: a database of fragile sites in human chromosomes
- A call for public archives for biological image data
- Community-driven roadmap for integrated disease maps
- A family of long intergenic non-coding RNA genes in human chromosomal region 22q11.2 carry a DNA translocation breakpoint/AT-rich sequence
- The G protein-coupled receptor GPR34 - The past 20 years of a grownup.
- GZMA and RASGRP1 are novel tumor suppressors that counter dissemination of Theileria annulata-transformed macrophages
- Predicting peptide presentation by major histocompatibility complex class I using one million peptides
- Signatures of T cell dysfunction and exclusion predict cancer immunotherapy response
- A tissue-based draft map of the murine MHC class I immunopeptidome
- A Computational Method for Classifying Different Human Tissues with Quantitatively Tissue-Specific Expressed Genes
- Mass Spectrometry and Proteomics 2018: the Mass Spectrometry Society of Japan, Japanese Proteomics Society, and Asia-Oceania Human Proteome Organization
- AgBioData consortium recommendations for sustainable genomics and genetics databases for agriculture
- POSTAR2: deciphering the post-transcriptional regulatory logics
- gganatogram: An R package for modular visualisation of anatograms and tissues based on ggplot2
- PopHumanScan: the online catalog of human genome adaptation
- ArrayExpress update – from bulk to single-cell expression data
- Complex Portal 2018: extended content and enhanced visualization tools for macromolecular complexes
- Human APOBEC3G Prevents Emergence of Infectious Endogenous Retrovirus in Mice
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