Scientific

MK5 Microarray Data

Affected Genes - Ontology Breakdown - Gene Enrichment - Proteome Analysis

These are the micro-array results of a differential gene expression microarray experiments and the subsequent analysis steps performed on them. The up/down- regulation ratio was obtained by measuring WT cells against MK5 activated cells. See material and methods for technical information as well as the data usage policy.

MK5 Proteome Analysis

Table 3: Type II network, divided ranks. This table presents the output of the simulation of a type-II network in which we relied on the high confidence interactions and micro-array results. The output of the micro-array was then ranked and these ranks used as input into the network simulation. After performing two such simulations (one for the MK5 off and one for the MK5 on microarray output), we divided the ranks and sorted the results accordingly. The output of this technique is a collection of proteins that cluster naturally together.


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Gene Filtered Network Comparison Type Value Type network_comparison Interaction Map Rank red description green
Results: HTML CSV LaTeX Showing element 101 to 150 of 77072 in total
Filtered  : 0
Network Comparison Type  : Divided
Value Type  : Measured
network_comparison
Interaction Map
Rank
red
description
green
1.00897 Low confidence 779 2630.81 coatomer beta' subunit (beta'-coat protein) (beta'-cop) (p102). [swissprot;acc:p35606] 2607.43
1.00902 778 4825.89 17-beta-hydroxysteroid dehydrogenase type vii-like. [refseq;acc:nm_182829] 4869.42
1.00907 777 28412 blocked early in transport 1 homolog (s. cerevisiae) like; golgi snare 15 kda protein. [refseq;acc:nm_016526] 28156.5
1.00929 776 5949.8 transketolase-like 1 (ec 2.2.1.1) (transketolase 2) (tk 2) (transketolase related protein). [swissprot;acc:p51854] 6005.06
1.00936 775 2790.62 similar to cg7020 gene product (fragment). [sptrembl;acc:q96ib4] 2764.75
1.00967 774 2339.98 60s ribosomal protein l23 (l17). [swissprot;acc:p23131] 2362.61
1.00997 773 3772.49 60s ribosomal protein l14 (cag-isl 7). [swissprot;acc:p50914] 3735.24
1.01015 772 6827.6 tfiih basal transcription factor complex p44 subunit (basic transcription factor 2 44 kda subunit) (btf2-p44) (general transcription factor iih polypeptide 2). [swissprot;acc:q13888] 6896.92
1.01017 771 1593.68 26s proteasome non-atpase regulatory subunit 10 (26s proteasome regulatory subunit p28) (gankyrin). [swissprot;acc:o75832] 1609.88
1.01019 770 2268.29 estradiol 17 beta-dehydrogenase 1 (ec 1.1.1.62) (17-beta-hsd 1) (placental 17-beta-hydroxysteroid dehydrogenase) (20 alpha- hydroxysteroid dehydrogenase) (20-alpha-hsd) (e2dh). [swissprot;acc:p14061] 2291.41
1.01032 769 1251.08 tpte and pten homologous inositol lipid phosphatase. [refseq;acc:nm_130785] 1238.3
1.01034 768 1252.32 putative protein-tyrosine phosphatase tpte (ec 3.1.3.48). [swissprot;acc:p56180] 1239.5
1.01038 767 1543.06 tubulin beta-5 chain (tubulin 5 beta). [swissprot;acc:p04350] 1527.21
1.01073 766 2916.26 ubiquinol-cytochrome c reductase complex core protein i, mitochondrial precursor (ec 1.10.2.2). [swissprot;acc:p31930] 2947.56
1.01079 764 2635.02 protein regulator of cytokinesis 1; protein regulating cytokinesis 1. [refseq;acc:nm_003981] 2663.44
765 1686 cervical cancer 1 protooncogene protein p40; regulator of tp53. [refseq;acc:nm_015416] 1668
1.01082 High confidence 466 1467.74 ischemia/reperfusion inducible protein. [refseq;acc:nm_024640] 1483.62
Low confidence 763
1.01088 762 2466.24 suppressor of actin 1. [refseq;acc:nm_014016] 2493.07
1.01102 High confidence 465 6323 homer, neuronal immediate early gene, 1b. [refseq;acc:nm_004272] 6254.09
1.01115 Low confidence 761 4409.59 orphan nuclear receptor nr2e1 (nuclear receptor tlx) (tailless homolog) (tll) (htll). [swissprot;acc:q9y466] 4360.96
1.01136 High confidence 464 2290.09 maleylacetoacetate isomerase (ec 5.2.1.2) (maai) (glutathione s- transferase zeta 1) (ec 2.5.1.18) (gstz1-1). [swissprot;acc:o43708] 2264.37
1.01145 Low confidence 760 3168.04 ubiquitin-conjugating enzyme e2-17 kda 3 (ec 6.3.2.19) (ubiquitin- protein ligase) (ubiquitin carrier protein) (e2(17)kb 3). [swissprot;acc:p47986] 3204.3
1.01153 759 1151.99 guanine nucleotide-binding protein g(q), alpha subunit. [swissprot;acc:p50148] 1165.27
1.01163 High confidence 463 1262.65 dihydrofolate reductase (ec 1.5.1.3). [swissprot;acc:p00374] 1248.14
1.01185 Low confidence 758 4679.45 anaphase promoting complex subunit 11 (hepatocellular carcinoma associated ring finger protein) (hspc214). [swissprot;acc:q9nyg5] 4624.67
1.01193 757 1183.71 dihydrofolate reductase (ec 1.5.1.3). [swissprot;acc:p00374] 1197.83
1.01202 High confidence 462 11170.7 leucine rich repeat (in flii) interacting protein 1. [refseq;acc:nm_004735] 11305
Low confidence 756
1.01203 755 147.767 40s ribosomal protein s17. [swissprot;acc:p08708] 146.011
1.01205 754 1772.08 histone h4. [swissprot;acc:p02304] 1793.43
1.01211 753 2707.35 homeobox protein cdx-2 (caudal-type homeobox protein 2) (cdx-3). [swissprot;acc:q99626] 2740.13
1.01229 High confidence 461 1915.69 dna-directed rna polymerase i 16 kda polypeptide (ec 2.7.7.6) (rpa16). [swissprot;acc:q9y2s0] 1892.44
Low confidence 752 1733.9 forkhead box protein g1c (forkhead-related protein fkhl3) (hfk3) (fragment). [swissprot;acc:q14488] 1712.85
1.01234 751 1970.98 casein kinase i alpha s-like. [refseq;acc:nm_145203] 1946.95
1.01235 750 4703.81 oligosaccharyl transferase stt3 subunit homolog (b5) (integral membrane protein 1) (tmc). [swissprot;acc:p46977] 4646.41
1.01252 749 4455.7 daz associated protein 1 isoform b; deleted in azoospermia associated protein 1. [refseq;acc:nm_018959] 4400.61
1.01259 High confidence 460 3693.07 intersectin 2 (sh3 domain-containing protein 1b) (sh3p18) (sh3p18-like wasp associated protein). [swissprot;acc:q9nzm3] 3739.55
1.01261 Low confidence 748 1679.28 importin 9. [refseq;acc:nm_018085] 1658.37
1.01266 High confidence 459 3774.08 intersectin 1 (sh3 domain-containing protein 1a) (sh3p17). [swissprot;acc:q15811] 3821.87
1.01275 Low confidence 747 2851.31 protein cgi-147. [swissprot;acc:q9y3e5] 2887.65
1.01279 746 784.942 glycerol kinase (ec 2.7.1.30) (atp:glycerol 3-phosphotransferase) (glycerokinase) (gk). [swissprot;acc:p32189] 794.983
1.01291 745 1024.55 tera protein. [refseq;acc:nm_021238] 1011.49
1.01296 744 783.888 glycerol kinase, testis specific 1 (ec 2.7.1.30) (atp:glycerol 3- phosphotransferase) (glycerokinase) (gk). [swissprot;acc:q14409] 794.045
1.01302 743 827.585 40s ribosomal protein sa (p40) (34/67 kda laminin receptor) (colon carcinoma laminin-binding protein) (nem/1chd4) (multidrug resistance- associated protein mgr1-ag). [swissprot;acc:p08865] 838.364
1.01304 742 6085.01 transcription factor cp2; transcription factor cp2, alpha globin. [refseq;acc:nm_005653] 6006.69
1.01321 739 2980.23 tyrosine aminotransferase (ec 2.6.1.5) (l-tyrosine:2-oxoglutarate aminotransferase) (tat). [swissprot;acc:p17735] 2941.38
740 2516.09 pellino protein. [refseq;acc:nm_020651] 2549.32
741 2111.72 putative forkhead box protein kiaa1041. [swissprot;acc:q9upw0] 2084.19
1.01327 High confidence 458 2633.61 nuclear rna export factor 5 (tap-like protein 1) (tapl-1). [swissprot;acc:q9h1b4] 2668.56

Legend:
- Rank is the rank after comparing the two networks
- Gene is the ensembl human gene identifier measured by 1 or more probes on the microarray
- Value Type describes how the microarray measurement was processed. Ranked indicates that we sorted all measurements and use the rank as red and green value. Measured is the normal measurement. Squared and Rooted are the square and square root respecitcely. This might be valueable to compensate for non linear light distributions.
- Network Comparison Type describes whether we divided the red and green types or whether we sutractcted them
- Interaction Map specifies whether we used only the hig hconfidence protein-protein interactions or also included the low confidence interactions.
- Filtered specifies whether we only included the high confidence microarry measurements or not.
- http://analysis.yellowcouch.org/