A gene atlas of the mouse and human protein-encoding transcriptomes.

By Andrew I. Su, T. Wiltshire, S. Batalov, H. Lapp, K. Ching, David Block, Jie Zhang, R. Soden, M. Hayakawa, Gabriel Kreiman and 3 more. Proceedings of the National Academy of Sciences of the United States of America, 2004

3,676 citations recorded by the source corpus.

Subfields: Genetics, Molecular Biology

View Paper: https://www.semanticscholar.org/paper/9fef020822f0fb69eee04cceef83524b7b2212b1

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In Genetics

1. Gonçalo R. Abecasis
2. Mark J. Daly
3. Bruce J. Aronow
4. Anil G. Jegga
5. David Haussler
6. Wei-Min Chen
7. W. James Kent
8. Martin C. Frith

In Molecular Biology

1. David P. Bartel
2. John S. Mattick
3. Richard A. Young
4. Bernhard O. Palsson
5. David Haussler
6. Aviv Regev
7. Roded Sharan
8. Manolis Kellis

Citations in the corpus

• Frozen robust multiarray analysis (fRMA). (2010, methodology): “To assess the effect of combining data preprocessed separately, we created two artificial batches each containing the same 15 tissues from the E-AFMX-5 data set (Su et al., 2004).”
• An Abundance of Ubiquitously Expressed Genes Revealed by Tissue Transcriptome Sequence Data (2009, methodology): “Using additional microarray data, expression of ,8,000 genes was detected in each tissue but as few as 1–3% of these were detected in all tissues [10].”
• Enrichr: interactive and collaborative HTML5 gene list enrichment analysis tool (2013, background): “The cell type category is made of four gene-set libraries: genes highly expressed in human and mouse tissues extracted from the Mouse and Human Gene Atlases [44] and genes highly expressed in cancer cell lines from the Cancer Cell Line Encyclopedia (CCLE) [45] and NCI-60 [46].”
• Dynamic modularity in protein interaction networks predicts breast cancer outcome (2009, methodology): “Next, we obtained genome-wide expression data measured in 79 human tissue”
• An expression atlas of human primary cells: inference of gene function from coexpression networks (2013, background): “[6,7] to generate the Symatlas (now BioGPS, http://www.”
• Global and Local Architecture of the Mammalian microRNA–Transcription Factor Regulatory Network (2007, methodology): “Expression data across human tissues and organs has recently become available for miRs [34] and is also available for protein coding mRNAs [35].”
• The UCSC genome browser and associated tools (2012, background): “Examples of this type of track include probe sets for commercially available microarrays, human copy-number variation (CNV) data from the Database of Genomic Variants (DGV) [25]; human dismorphology data from DECIPHER [26]; expression data for mouse and human from the GNF Expression Atlas [27]; and ”
• Enhancing the Prioritization of Disease-Causing Genes through Tissue Specific Protein Interaction Networks (2012, methodology): “We downloaded the Novartis Research Foundation Gene Expression Database ( GNF ) tissue - specific gene expression data set [ 38 ] from the Gene Expression Omnibus ( http : / / www . ncbi . nlm . nih . gov / geo / ) ( GDS596 ) .”
• Characterising and Predicting Haploinsufficiency in the Human Genome (2010, methodology): “Gene expression profiles in human were obtained from the GNF Atlas [32].”
• WebGestalt: an integrated system for exploring gene sets in various biological contexts (2005, background): “Microarray data on the tissuespecific pattern of mRNA expression are recently available for a panel of 79 human and 61 mouse tissues (22).”
• Airway epithelial gene expression in the diagnostic evaluation of smokers with suspect lung cancer (2007, background): “have shown that many of the inflammatory genes in our biomarker are expressed in airway epithelium, and the Human Gene Atlas stud”
• Hepatitis B and D viruses exploit sodium taurocholate co-transporting polypeptide for species-specific entry into hepatocytes. (2014, methodology): “Yan et al recently identified sodium taurocholate co-transporting polypeptide (NTCP/SLC10A1) as a preSspecific receptor in primary tupaia hepatocytes and demonstrate that human (h) NTCP promotes HBV/HDV entry into hepatoma cells.(3) In addition, tupaia Ntcp mediates entry of”
• Online Predicted Human Interaction Database (2005, positive): “We used the human GeneAtlas data (Su et al., 2004), derived from 79 normal human tissues, to provide evidence of PPIs through gene co-expression.”