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Integrative genomics identifies distinct molecular classes of neuroblastoma and shows that multiple genes are targeted by regional alterations in DNA copy number. Wang et al. (2006). Cancer Res.
Source: Pearson correlation with 231,830 interactions from GEO
Tags:
Multiclass cancer diagnosis using tumor gene expression signatures. Ramaswamy et al. (2001). Proc Natl Acad Sci U S A.
Source: Pearson correlation with 226,615 interactions from supplementary material
Tags:
Genomic analysis reveals few genetic alterations in pediatric acute myeloid leukemia. Radtke et al. (2009). Proc Natl Acad Sci U S A.
Source: Pearson correlation with 377,767 interactions from GEO
Tags:
Expression profiling of liposarcoma yields a multigene predictor of patient outcome and identifies genes that contribute to liposarcomagenesis. Gobble et al. (2011). Cancer Res.
Source: Pearson correlation with 449,507 interactions from GEO
Tags:
Gene expression classifiers for relapse-free survival and minimal residual disease improve risk classification and outcome prediction in pediatric B-precursor acute lymphoblastic leukemia. Kang et al. (2010). Blood.
Source: Pearson correlation with 549,783 interactions from GEO
Tags:
A biologic definition of Burkitt's lymphoma from transcriptional and genomic profiling. Hummel et al. (2006). N Engl J Med.
Source: Pearson correlation with 466,765 interactions from GEO
Tags:
Gene signatures of progression and metastasis in renal cell cancer. Jones et al. (2005). Clin Cancer Res.
Source: Pearson correlation with 365,428 interactions from GEO
Tags:
Oncogenic pathway signatures in human cancers as a guide to targeted therapies. Bild et al. (2006). Nature.
Note: One of 3 datasets produced from this publication.
Source: Pearson correlation with 254,105 interactions from GEO
Tags:
Regional variation in gene expression in the healthy colon is dysregulated in ulcerative colitis. Noble et al. (2008). Gut.
Source: Pearson correlation with 603,016 interactions from GEO
The effect of insulin on expression of genes and biochemical pathways in human skeletal muscle. Wu et al. (2007). Endocrine.
Source: Pearson correlation with 223,988 interactions from GEO
Tags:
Gene expression analysis of soft tissue sarcomas: characterization and reclassification of malignant fibrous histiocytoma. Nakayama et al. (2007). Mod Pathol.
Source: Pearson correlation with 361,398 interactions from GEO
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Tumor cell gene expression changes following short-term in vivo exposure to single agent chemotherapeutics are related to survival in multiple myeloma. Burington et al. (2008). Clin Cancer Res.
Source: Pearson correlation with 266,464 interactions from GEO
Tags:
Molecular classification of Crohn's disease and ulcerative colitis patients using transcriptional profiles in peripheral blood mononuclear cells. Burczynski et al. (2006). J Mol Diagn.
Source: Pearson correlation with 419,356 interactions from GEO
Transcriptome signature of resistance exercise adaptations: mixed muscle and fiber type specific profiles in young and old adults. Raue et al. (2012). J Appl Physiol.
Source: Pearson correlation with 483,849 interactions from GEO
Toxicity from radiation therapy associated with abnormal transcriptional responses to DNA damage. Rieger et al. (2004). Proc Natl Acad Sci U S A.
Source: Pearson correlation with 220,846 interactions from GEO
Tags:
Mucosal gene expression of antimicrobial peptides in inflammatory bowel disease before and after first infliximab treatment. Arijs et al. (2009). PLoS One.
Source: Pearson correlation with 570,210 interactions from GEO
Tags:
Computational identification of hepatitis C virus associated microRNA-mRNA regulatory modules in human livers. Peng et al. (2009). BMC Genomics.
Source: Pearson correlation with 349,954 interactions from GEO
Tags:
Gene expression changes in the course of normal brain aging are sexually dimorphic. Berchtold et al. (2008). Proc Natl Acad Sci U S A.
Source: Pearson correlation with 507,933 interactions from GEO
Tags:
Gene expression profiling and response signatures associated with differential responses to infliximab treatment in ulcerative colitis. Toedter et al. (2011). Am J Gastroenterol.
Source: Pearson correlation with 572,082 interactions from GEO
Tags:
Distinctive gene expression patterns in human mammary epithelial cells and breast cancers. Perou et al. (1999). Proc Natl Acad Sci U S A.
Source: Pearson correlation with 50,804 interactions from supplementary material
Tags:
Genome-wide survey of human alternative pre-mRNA splicing with exon junction microarrays. Johnson et al. (2003). Science.
Source: Pearson correlation with 426,934 interactions from GEO
Tags:
A comprehensive transcript index of the human genome generated using microarrays and computational approaches. Schadt et al. (2004). Genome Biol.
Note: Predicted transcript array
Source: Pearson correlation with 60,454 interactions from GEO
Source: Direct interaction with 171 interactions from iRefIndex
Source: Direct interaction with 345 interactions from BioGRID
A human functional protein interaction network and its application to cancer data analysis. Wu et al. (2010). Genome Biol.
Source: 78,448 interactions from supplementary material
Tags:
Source: Direct interaction with 24,924 interactions from Pathway Commons
Source: Direct interaction with 937 interactions from Pathway Commons
Source: Direct interaction with 10,118 interactions from Pathway Commons
Source: Direct interaction with 598 interactions from Pathway Commons
Source: Direct interaction with 685 interactions from Pathway Commons
Composition and three-dimensional EM structure of double affinity-purified, human prespliceosomal A complexes. Behzadnia et al. (2007). EMBO J.
Source: Direct interaction with 101 interactions from iRefIndex
Interaction and assembly of murine pre-replicative complex proteins in yeast and mouse cells. Kneissl et al. (2003). J Mol Biol.
Source: Direct interaction with 83 interactions from iRefIndex
Tags:
Proteomics analysis identifies phosphorylation-dependent alpha-synuclein protein interactions. McFarland et al. (2008). Mol Cell Proteomics.
Source: Direct interaction with 152 interactions from iRefIndex
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Systematic analysis of human protein complexes identifies chromosome segregation proteins. Hutchins et al. (2010). Science.
Source: Direct interaction with 141 interactions from iRefIndex
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Systematic analysis of the protein interaction network for the human transcription machinery reveals the identity of the 7SK capping enzyme. Jeronimo et al. (2007). Mol Cell.
Source: Direct interaction with 660 interactions from iRefIndex
Tags:
Self-assembling protein microarrays. Ramachandran et al. (2004). Science.
Source: Direct interaction with 119 interactions from iRefIndex
A PP2A phosphatase high density interaction network identifies a novel striatin-interacting phosphatase and kinase complex linked to the cerebral cavernous malformation 3 (CCM3) protein. Goudreault et al. (2009). Mol Cell Proteomics.
Source: Direct interaction with 242 interactions from iRefIndex
Tags:
A set of consensus mammalian mediator subunits identified by multidimensional protein identification technology. Sato et al. (2004). Mol Cell.
Source: Direct interaction with 235 interactions from iRefIndex
Tags:
Large-scale structural analysis of the classical human protein tyrosine phosphatome. Barr et al. (2009). Cell.
Source: Direct interaction with 177 interactions from iRefIndex
Source: Direct interaction with 385 interactions from iRefIndex
A quantitative protein interaction network for the ErbB receptors using protein microarrays. Jones et al. (2006). Nature.
Source: Direct interaction with 139 interactions from iRefIndex
Tags:
Defining the human deubiquitinating enzyme interaction landscape. Sowa et al. (2009). Cell.
Note: One of 2 datasets produced from this publication.
Source: Direct interaction with 1,511 interactions from BioGRID
Source: Direct interaction with 41,955 interactions from iRefIndex
Characterization of the interactome of the human MutL homologues MLH1, PMS1, and PMS2. Cannavo et al. (2007). J Biol Chem.
Source: Direct interaction with 109 interactions from iRefIndex
Tags:
Source: Direct interaction with 28,821 interactions from BioGRID
Source: Direct interaction with 12,700 interactions from iRefIndex
Source: Direct interaction with 5,310 interactions from iRefIndex
Source: Direct interaction with 637 interactions from iRefIndex
Source: Direct interaction with 21,448 interactions from iRefIndex
RNA and RNA binding proteins participate in early stages of cell spreading through spreading initiation centers. de Hoog et al. (2004). Cell.
Source: Direct interaction with 220 interactions from iRefIndex
Mammalian BTBD12/SLX4 assembles a Holliday junction resolvase and is required for DNA repair. Svendsen et al. (2009). Cell.
Source: Direct interaction with 233 interactions from iRefIndex
Tags:
Source: Direct interaction with 13,341 interactions from iRefIndex
An integrated workflow for charting the human interaction proteome: insights into the PP2A system. Glatter et al. (2009). Mol Syst Biol.
Source: Direct interaction with 307 interactions from iRefIndex
Tags:
High-throughput mapping of a dynamic signaling network in mammalian cells. Barrios-Rodiles et al. (2005). Science.
Source: Direct interaction with 547 interactions from iRefIndex
Tags:
Mouse Piwi interactome identifies binding mechanism of Tdrkh Tudor domain to arginine methylated Miwi. Chen et al. (2009). Proc Natl Acad Sci U S A.
Note: I2D predictions of protein protein interactions using Chen-Pawson-2009 Mus musculus data
Source: Direct interaction with 30 interactions from I2D
A map of the interactome network of the metazoan C. elegans. Li et al. (2004). Science.
Note: I2D predictions of protein protein interactions using Li-Vidal-2004 Caenorhabditis elegans data
Source: Direct interaction with 567 interactions from I2D
BioGRID: a general repository for interaction datasets. Stark et al. (2006). Nucleic Acids Res.
Note: I2D predictions of protein protein interactions using BioGRID Saccharomyces cerevisiae data
Source: Direct interaction with 13,434 interactions from I2D
Comparative assessment of large-scale data sets of protein-protein interactions. von Mering et al. (2002). Nature.
Note: I2D predictions of protein protein interactions using vonMering-Bork-2002 Saccharomyces cerevisiae data
Source: Direct interaction with 1,196 interactions from I2D
A map of the interactome network of the metazoan C. elegans. Li et al. (2004). Science.
Note: I2D predictions of protein protein interactions using Li-Vidal-2004 Caenorhabditis elegans data
Source: Direct interaction with 15 interactions from I2D
Comparative assessment of large-scale data sets of protein-protein interactions. von Mering et al. (2002). Nature.
Note: I2D predictions of protein protein interactions using vonMering-Bork-2002 Saccharomyces cerevisiae data
Source: Direct interaction with 3,001 interactions from I2D
Comparative assessment of large-scale data sets of protein-protein interactions. von Mering et al. (2002). Nature.
Note: I2D predictions of protein protein interactions using vonMering-Bork-2002 Saccharomyces cerevisiae data
Source: Direct interaction with 16,074 interactions from I2D
A gene-coexpression network for global discovery of conserved genetic modules. Stuart et al. (2003). Science.
Source: 24,952 interactions from supplementary material
Tags:
High-quality binary protein interaction map of the yeast interactome network. Yu et al. (2008). Science.
Note: I2D predictions of protein protein interactions using Yu Gold Standard Saccharomyces cerevisiae data
Source: Direct interaction with 386 interactions from I2D
Tags:
The IntAct molecular interaction database in 2010. Aranda et al. (2010). Nucleic Acids Res.
Note: I2D predictions of protein protein interactions using IntAct Rattus norvegicus data
Source: Direct interaction with 1,054 interactions from I2D
MINT: a Molecular INTeraction database. Zanzoni et al. (2002). FEBS Lett.
Note: I2D predictions of protein protein interactions using MINT Mus musculus data
Source: Direct interaction with 977 interactions from I2D
MINT: a Molecular INTeraction database. Zanzoni et al. (2002). FEBS Lett.
Note: I2D predictions of protein protein interactions using MINT Rattus norvegicus data
Source: Direct interaction with 574 interactions from I2D
The IntAct molecular interaction database in 2010. Aranda et al. (2010). Nucleic Acids Res.
Note: I2D predictions of protein protein interactions using IntAct Mus musculus data
Source: Direct interaction with 3,422 interactions from I2D
BioGRID: a general repository for interaction datasets. Stark et al. (2006). Nucleic Acids Res.
Note: I2D predictions of protein protein interactions using BioGRID Mus musculus data
Source: Direct interaction with 288 interactions from I2D
Ontological visualization of protein-protein interactions. Drabkin et al. (2005). BMC Bioinformatics.
Note: I2D predictions of protein protein interactions using MGI Mus musculus data
Source: Direct interaction with 724 interactions from I2D
A map of the interactome network of the metazoan C. elegans. Li et al. (2004). Science.
Note: I2D predictions of protein protein interactions using Li-Vidal-2004 Caenorhabditis elegans data
Source: Direct interaction with 103 interactions from I2D
The IntAct molecular interaction database in 2010. Aranda et al. (2010). Nucleic Acids Res.
Note: I2D predictions of protein protein interactions using IntAct Drosophila melanogaster data
Source: Direct interaction with 3,920 interactions from I2D
BIND--a data specification for storing and describing biomolecular interactions, molecular complexes and pathways. Bader et al. (2000). Bioinformatics.
Note: I2D predictions of protein protein interactions using BIND Rattus norvegicus data
Source: Direct interaction with 556 interactions from I2D
Systematic interactome mapping and genetic perturbation analysis of a C. elegans TGF-beta signaling network. Tewari et al. (2004). Mol Cell.
Note: I2D predictions of protein protein interactions usingTewari-Vidal-2004 Caenorhabditis elegans data
Source: Direct interaction with 18 interactions from I2D
Tags:
BIND--a data specification for storing and describing biomolecular interactions, molecular complexes and pathways. Bader et al. (2000). Bioinformatics.
Note: I2D predictions of protein protein interactions using BIND Saccharomyces cerevisiae data
Source: Direct interaction with 1,543 interactions from I2D
MINT: a Molecular INTeraction database. Zanzoni et al. (2002). FEBS Lett.
Note: I2D predictions of protein protein interactions using MINT Caenorhabditis elegans data
Source: Direct interaction with 1,166 interactions from I2D
InnateDB: facilitating systems-level analyses of the mammalian innate immune response. Lynn et al. (2008). Mol Syst Biol.
Note: I2D predictions of protein protein interactions using INNATEDB Mus musculus data
Source: Direct interaction with 1,455 interactions from I2D
Tags:
BIND--a data specification for storing and describing biomolecular interactions, molecular complexes and pathways. Bader et al. (2000). Bioinformatics.
Note: I2D predictions of protein protein interactions using BIND Caenorhabditis elegans data
Source: Direct interaction with 911 interactions from I2D
An in vivo map of the yeast protein interactome. Tarassov et al. (2008). Science.
Note: I2D predictions of protein protein interactions using Tarassov-Michnick-2008 Saccharomyces cerevisiae data
Source: Direct interaction with 441 interactions from I2D
Tags:
Global landscape of protein complexes in the yeast Saccharomyces cerevisiae. Krogan et al. (2006). Nature.
Note: I2D predictions of protein protein interactions using Krogan-Greenblatt-2006 Saccharomyces cerevisiae data
Source: Direct interaction with 1,794 interactions from I2D
BIND--a data specification for storing and describing biomolecular interactions, molecular complexes and pathways. Bader et al. (2000). Bioinformatics.
Note: I2D predictions of protein protein interactions using BIND Mus musculus data
Source: Direct interaction with 1,198 interactions from I2D
Source: Pearson correlation with 530,357 interactions from Pfam
Source: Pearson correlation with 488,822 interactions from InterPro
protein phosphatase, Mg2+/Mn2+ dependent, 1G [Source:HGNC Symbol;Acc:9278]
Functions:
Synonyms: ENSG00000115241; ENSP00000264714; ENSP00000342778; ENSP00000378913; ENSP00000442536; 5496; PPM1G; NP_817092; NM_177983; PP2CG; PP2CGAMMA; PPP2CG; O15355; PPM1G_HUMAN;
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extended synaptotagmin-like protein 1 [Source:HGNC Symbol;Acc:29534]
Functions:
Synonyms: ENSG00000139641; ENSP00000267113; ENSP00000377612; ENSP00000386045; ENSP00000445952; ENSP00000447756; 23344; ESYT1; NP_001171725; NP_056107; NM_001184796; NM_015292; FAM62A; KIAA0747; MBC2; ESYT1_HUMAN; Q9BSJ8;
More at Entrez
phosphoinositide-3-kinase, regulatory subunit 4 [Source:HGNC Symbol;Acc:8982]
Functions:
Synonyms: ENSG00000196455; ENSP00000349205; ENSP00000422767; ENSP00000424274; ENSP00000427302; 30849; PIK3R4; NP_055417; NM_014602; VPS15; PI3R4_HUMAN; Q99570;
More at Entrez
phosphoinositide-3-kinase, class 3 [Source:HGNC Symbol;Acc:8974]
Functions:
Synonyms: ENSG00000078142; ENSP00000262039; ENSP00000381845; 5289; PIK3C3; NP_002638; NM_002647; hVps34; VPS34; PK3C3_HUMAN; Q8NEB9;
More at Entrez
heat shock 10kDa protein 1 (chaperonin 10) [Source:HGNC Symbol;Acc:5269]
Functions:
Synonyms: ENSG00000115541; ENSP00000233893; ENSP00000386447; ENSP00000387101; 3336; HSPE1; NP_002148; NM_002157; CPN10; EPF; GROES; HSP10; CH10_HUMAN; P61604;
More at Entrez
small nuclear ribonucleoprotein polypeptide A [Source:HGNC Symbol;Acc:11151]
Functions:
Synonyms: ENSG00000077312; ENSP00000243563; ENSP00000445672; 6626; SNRPA; NP_004587; NM_004596; Mud1; U1-A; U1A; P09012; SNRPA_HUMAN;
More at Entrez
low density lipoprotein receptor-related protein associated protein 1 [Source:HGNC Symbol;Acc:6701]
Functions:
Synonyms: ENSG00000163956; ENSP00000421648; ENSP00000421922; 4043; LRPAP1; NP_002328; NM_002337; A2MRAP; A2RAP; HBP44; RAP; AMRP_HUMAN; P30533;
More at Entrez
MpV17 mitochondrial inner membrane protein [Source:HGNC Symbol;Acc:7224]
Functions:
Synonyms: ENSG00000115204; ENSP00000233545; ENSP00000349713; ENSP00000369383; ENSP00000382006; ENSP00000383955; ENSP00000384586; ENSP00000385175; ENSP00000385671; ENSP00000386000; ENSP00000388043; ENSP00000403824; ENSP00000405235; ENSP00000406441; ENSP00000411574; 4358; MPV17; NP_002428; NM_002437; MTDPS6; MPV17_HUMAN; P39210;
More at Entrez
small nuclear ribonucleoprotein 70kDa (U1) [Source:HGNC Symbol;Acc:11150]
Functions:
Synonyms: ENSG00000104852; ENSP00000221448; ENSP00000385077; ENSP00000387351; ENSP00000444479; 6625; SNRNP70; NP_003080; NM_001009820; NM_003089; RNPU1Z; RPU1; Snp1; SNRP70; U1-70K; U170K; U1AP; U1RNP; P08621; RU17_HUMAN;
More at Entrez
Y box binding protein 1 [Source:HGNC Symbol;Acc:8014]
Functions:
Synonyms: ENSG00000065978; ENSP00000361621; ENSP00000361626; ENSP00000389639; ENSP00000405937; 4904; YBX1; NP_004550; NM_004559; BP-8; CSDA2; CSDB; DBPB; MDR-NF1; NSEP-1; NSEP1; YB-1; YB1; P67809; YBOX1_HUMAN;
More at Entrez
RAD50 homolog (S. cerevisiae) [Source:HGNC Symbol;Acc:9816]
Functions:
Synonyms: ENSG00000113522; ENSP00000265335; ENSP00000368100; ENSP00000389515; ENSP00000390971; ENSP00000396100; ENSP00000396860; ENSP00000400049; ENSP00000431225; 10111; RAD50; NP_005723; NM_005732; NM_133482; hRad50; NBSLD; RAD50-2; RAD502; Q92878; RAD50_HUMAN;
More at Entrez
H2A histone family, member X [Source:HGNC Symbol;Acc:4739]
Functions:
Synonyms: ENSG00000188486; ENSP00000364310; ENSP00000434024; 3014; H2AFX; NP_002096; NM_002105; H2A.X; H2A/X; H2AX; H2AX_HUMAN; P16104;
More at Entrez
ATP synthase, H+ transporting, mitochondrial F1 complex, gamma polypeptide 1 [Source:HGNC Symbol;Acc:833]
Functions:
Synonyms: ENSG00000165629; ENSP00000338568; ENSP00000349142; ENSP00000437565; 509; ATP5C1; NP_001001973; NP_005165; NM_001001973; NM_005174; ATP5C; ATP5CL1; ATPG_HUMAN; P36542;
More at Entrez
acyl-CoA synthetase long-chain family member 4 [Source:HGNC Symbol;Acc:3571]
Functions:
Synonyms: ENSG00000068366; ENSP00000262835; ENSP00000339787; ENSP00000419171; ENSP00000421425; ENSP00000423077; ENSP00000423539; ENSP00000424808; ENSP00000425378; ENSP00000425408; 2182; ACSL4; NP_004449; NP_075266; NM_004458; NM_022977; ACS4; FACL4; LACS4; MRX63; MRX68; ACSL4_HUMAN; O60488;
More at Entrez
TSR1, 20S rRNA accumulation, homolog (S. cerevisiae) [Source:HGNC Symbol;Acc:25542]
Functions:
Synonyms: ENSG00000167721; ENSP00000301364; ENSP00000440831; 55720; TSR1; NP_060598; NM_018128; FLJ10534; Q2NL82; TSR1_HUMAN;
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hydroxyacyl-CoA dehydrogenase/3-ketoacyl-CoA thiolase/enoyl-CoA hydratase (trifunctional protein), alpha subunit [Source:HGNC Symbol;Acc:4801]
Functions:
Synonyms: ENSG00000084754; ENSP00000370023; ENSP00000405344; ENSP00000438039; 3030; HADHA; NP_000173; NM_000182; ECHA; LCEH; LCHAD; MTPA; TP-ALPHA; ECHA_HUMAN; P40939;
More at Entrez
FK506 binding protein 4, 59kDa [Source:HGNC Symbol;Acc:3720]
Functions:
Synonyms: ENSG00000004478; ENSP00000001008; ENSP00000438491; ENSP00000439703; ENSP00000442193; ENSP00000446368; 2288; FKBP4; NP_002005; NM_002014; FKBP52; FKBP59; HBI; FKBP4_HUMAN; Q02790;
More at Entrez
ADP-ribosylation factor 5 [Source:HGNC Symbol;Acc:658]
Functions:
Synonyms: ENSG00000004059; ENSP00000000233; ENSP00000412701; 381; ARF5; NP_001653; NM_001662; ARF5_HUMAN; P84085;
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bridging integrator 3 [Source:HGNC Symbol;Acc:1054]
Functions:
Synonyms: ENSG00000147439; ENSP00000276416; ENSP00000382859; ENSP00000428768; ENSP00000429660; ENSP00000430423; ENSP00000430546; 55909; BIN3; NP_061158; NM_018688; BIN3_HUMAN; Q9NQY0;
More at Entrez
proteasome (prosome, macropain) subunit, beta type, 5 [Source:HGNC Symbol;Acc:9542]
Functions:
Synonyms: ENSG00000100804; ENSP00000334973; ENSP00000355325; ENSP00000395206; ENSP00000451286; ENSP00000451816; ENSP00000452424; 5693; PSMB5; NP_001124197; NP_001138404; NP_002788; NM_001130725; NM_001144932; NM_002797; LMPX; MB1; X; P28074; PSB5_HUMAN;
More at Entrez
guanine monphosphate synthetase [Source:HGNC Symbol;Acc:4378]
Functions:
Synonyms: ENSG00000163655; ENSP00000295920; ENSP00000419851; ENSP00000438199; ENSP00000438652; 8833; GMPS; NP_003866; NM_003875; GUAA_HUMAN; P49915;
More at Entrez
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