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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
Tags:
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
Tags:
Systematic analysis of human protein complexes identifies chromosome segregation proteins. Hutchins et al. (2010). Science.
Source: Direct interaction with 141 interactions from iRefIndex
Tags:
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
histone cluster 1, H2bg [Source:HGNC Symbol;Acc:4746]
Functions:
Synonyms: ENSG00000187990; ENSP00000244601; 8339; HIST1H2BG; H2B1J_HUMAN; P06899;
More at Entrez
E2F transcription factor 4, p107/p130-binding [Source:HGNC Symbol;Acc:3118]
Functions:
Synonyms: ENSG00000205250; ENSP00000368686; 1874; E2F4; NP_001941; NM_001950; E2F-4; E2F4_HUMAN; Q16254;
More at Entrez
POU class 2 homeobox 1 [Source:HGNC Symbol;Acc:9212]
Functions:
Synonyms: ENSG00000143190; ENSP00000271411; ENSP00000356836; ENSP00000356839; ENSP00000356840; ENSP00000391523; ENSP00000401217; ENSP00000404571; ENSP00000414660; ENSP00000415993; ENSP00000441285; ENSP00000444625; ENSP00000452761; ENSP00000452912; ENSP00000453094; ENSP00000453135; 5451; POU2F1; NP_001185712; NP_001185715; NP_002688; NM_001198783; NM_001198786; NM_002697; NR_037163; oct-1B; OTF1; P14859; PO2F1_HUMAN;
More at Entrez
interleukin 33 [Source:HGNC Symbol;Acc:16028]
Functions:
Synonyms: ENSG00000137033; ENSP00000370842; ENSP00000394039; ENSP00000414238; 90865; IL33; NP_001186569; NP_001186570; NP_254274; NM_001199640; NM_001199641; NM_033439; C9orf26; DKFZp586H0523; DVS27; IL1F11; NF-HEV; NFEHEV; RP11-575C20.2; IL33_HUMAN; O95760;
More at Entrez
RAD51 homolog B (S. cerevisiae) [Source:HGNC Symbol;Acc:9822]
Functions:
Synonyms: ENSG00000182185; ENSP00000343531; ENSP00000375101; ENSP00000385485; ENSP00000417408; ENSP00000417948; ENSP00000418859; ENSP00000419471; ENSP00000419881; ENSP00000420061; ENSP00000450585; ENSP00000451616; ENSP00000452044; 5890; RAD51B; NP_002868; NP_598193; NP_598194; NM_002877; NM_133509; NM_133510; hREC2; R51H2; RAD51L1; REC2; O15315; RA51B_HUMAN;
More at Entrez
histone cluster 1, H2be [Source:HGNC Symbol;Acc:4753]
Functions:
Synonyms: ENSG00000197697; ENSP00000348924; 8344; HIST1H2BE;
More at Entrez
histone cluster 1, H2bf [Source:HGNC Symbol;Acc:4752]
Functions:
Synonyms: ENSG00000197846; ENSP00000353074; 8343; HIST1H2BF;
More at Entrez
B-cell CLL/lymphoma 10 [Source:HGNC Symbol;Acc:989]
Functions:
Synonyms: ENSG00000142867; ENSP00000271015; ENSP00000359612; ENSP00000378242; 8915; BCL10; NP_003912; NM_003921; c-E10; CARMEN; CIPER; CLAP; mE10; BCL10_HUMAN; O95999;
More at Entrez
histone cluster 1, H3d [Source:HGNC Symbol;Acc:4767]
Functions:
Synonyms: ENSG00000197409; ENSP00000366999; ENSP00000367062; 8351; HIST1H3D;
More at Entrez
histone cluster 3, H2bb [Source:HGNC Symbol;Acc:20514]
Functions:
Synonyms: ENSG00000196890; ENSP00000375736; 128312; HIST3H2BB; NP_778225; NM_175055; H2B3B_HUMAN; Q8N257;
More at Entrez
histone cluster 1, H2bi [Source:HGNC Symbol;Acc:4756]
Functions:
Synonyms: ENSG00000168242; ENSP00000366962; 8346; HIST1H2BI;
More at Entrez
histone cluster 1, H2bc [Source:HGNC Symbol;Acc:4757]
Functions:
Synonyms: ENSG00000180596; ENSP00000321744; ENSP00000380180; 8347; HIST1H2BC;
More at Entrez
lysyl oxidase [Source:HGNC Symbol;Acc:6664]
Functions:
Synonyms: ENSG00000113083; ENSP00000231004; ENSP00000378862; ENSP00000427538; ENSP00000440355; 4015; LOX; NP_001171573; NP_002308; NM_001178102; NM_002317; LYOX_HUMAN; P28300;
More at Entrez
histone cluster 1, H3e [Source:HGNC Symbol;Acc:4769]
Functions:
Synonyms: ENSG00000196966; ENSP00000353581; 8353; HIST1H3E;
More at Entrez
histone cluster 1, H2bd [Source:HGNC Symbol;Acc:4747]
Functions:
Synonyms: ENSG00000158373; ENSP00000289316; ENSP00000367008; 3017; HIST1H2BD; NP_066407; NP_619790; NM_021063; NM_138720; dJ221C16.6; H2B.1B; H2B/b; H2BFB; HIRIP2; H2B1D_HUMAN; P58876;
More at Entrez
histone cluster 1, H3f [Source:HGNC Symbol;Acc:4773]
Functions:
Synonyms: ENSG00000256316; ENSP00000444823; 8968; HIST1H3F;
More at Entrez
histone cluster 1, H2ae [Source:HGNC Symbol;Acc:4724]
Functions:
Synonyms: ENSG00000168274; ENSP00000303373; 3012; HIST1H2AE;
More at Entrez
histone cluster 1, H2bj [Source:HGNC Symbol;Acc:4761]
Functions:
Synonyms: ENSG00000124635; ENSP00000342886; ENSP00000445633; 8970; HIST1H2BJ; NP_066402; NM_021058; H2B/r; H2BFR;
More at Entrez
histone cluster 1, H2bn [Source:HGNC Symbol;Acc:4749]
Functions:
Synonyms: ENSG00000233822; ENSP00000380177; ENSP00000446031; 8341; HIST1H2BN; NP_003511; NM_003520; H2B/d; H2BFD; H2B1N_HUMAN; Q99877;
More at Entrez
TAF6 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 80kDa [Source:HGNC Symbol;Acc:11540]
Functions:
Synonyms: ENSG00000106290; ENSP00000344537; ENSP00000389575; ENSP00000390073; ENSP00000390220; ENSP00000395627; ENSP00000399982; ENSP00000406315; ENSP00000407980; ENSP00000410012; ENSP00000412346; ENSP00000413614; ENSP00000416396; ENSP00000419555; ENSP00000419760; ENSP00000427710; ENSP00000428071; ENSP00000428639; 6878; TAF6; NP_001177344; NP_005632; NP_647476; NM_001190415; NM_005641; NM_139122; NM_139123; NM_139315; NR_033792; MGC:8964; TAF(II)70; TAF(II)80; TAF2E; TAFII-70; TAFII-80; TAFII70; TAFII80; TAFII85; P49848; TAF6_HUMAN;
More at Entrez
histone cluster 1, H2bb [Source:HGNC Symbol;Acc:4751]
Functions:
Synonyms: ENSG00000196226; ENSP00000350580; 3018; HIST1H2BB; NP_066406; NM_021062; H2B/f; H2BFF; H2B1B_HUMAN; P33778;
More at Entrez
| query genes | n/a | 1 / 1 |
| nucleosome | 2.45E-4 | 4 / 25 |
| nucleosome assembly | 2.2E-3 | 4 / 50 |
| protein-DNA complex | 2.31E-3 | 4 / 57 |
| chromatin assembly | 2.31E-3 | 4 / 60 |
| nucleosome organization | 3.04E-3 | 4 / 69 |
| protein-DNA complex assembly | 3.04E-3 | 4 / 71 |
| chromatin assembly or disassembly | 4.6E-3 | 4 / 82 |
| protein-DNA complex subunit organization | 4.6E-3 | 4 / 87 |
| DNA packaging | 4.6E-3 | 4 / 86 |
| DNA conformation change | 7.81E-3 | 4 / 102 |
| chromatin | 7.45E-2 | 4 / 185 |
3.1.1
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BC6A2CFD2795E5B0D9AC711B85326A96.genemania