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 - Divided Values

Type II network, divided values. Interestingly most of the proteins in the first 100 positions in this table would occur in the divided ranks table between position 100 and 200, indicating a difference in emphasis between the two simulations but not in the overall function. The fully annotated table, include Ensembl gene identifiers and network values can be found in the supplementary data.


Navigation/Query Panel:
Click on the attribute name to hide/unhide it. The green arrows can be used to shift columns left/right. Exact word match is written as =..., regular expressions can be matched with ~.... To select all values larger or equal than use >.... This would be <... for values smaller or equal than. To select all values within a specific range use [...,...].
Gene Rank description Network Comparison Type Value Type Interaction Map red Filtered network_comparison green
Results: HTML CSV LaTeX Showing element 1194 to 1243 of 3228 in total
Network Comparison Type  : Divided
Value Type  : Measured
Interaction Map  : High confidence
Filtered  : 1
Rank
description
red
network_comparison
green
1194 t-complex protein 1, epsilon subunit (tcp-1-epsilon) (cct-epsilon). [swissprot;acc:p48643] 8425.35 1.08692 7751.57
1195 similar to trna synthetase class ii. [refseq;acc:nm_152268] 5439.56 1.08671 5911.24
1196 kappa b-ras 1. [refseq;acc:nm_020345] 5721.19 1.0867 6217.2
1197 i-kappa-b-interacting ras-like protein 2. [refseq;acc:nm_017595]
1198 snare associated protein snapin. [refseq;acc:nm_012437]
1199 serine hydroxymethyltransferase, mitochondrial precursor (ec 2.1.2.1) (serine methylase) (glycine hydroxymethyltransferase) (shmt). [swissprot;acc:p34897] 5449.48 1.08667 5921.77
1200 xylulokinase homolog; xylulokinase (h. influenzae) homolog. [refseq;acc:nm_005108] 5950.27 1.08663 6465.72
1201 thymidylate kinase (ec 2.7.4.9) (dtmp kinase). [swissprot;acc:p23919] 6042.31 1.08651 6565.03
1202 porphobilinogen deaminase (ec 4.3.1.8) (hydroxymethylbilane synthase) (hmbs) (pre-uroporphyrinogen synthase) (pbg-d). [swissprot;acc:p08397] 4913.07 1.08648 5337.95
1203 geranylgeranyl pyrophosphate synthetase (ggpp synthetase) (ggppsase) (geranylgeranyl diphosphate synthase) [includes: dimethylallyltransferase (ec 2.5.1.1); geranyltranstransferase (ec 2.5.1.10); farnesyltranstransferase (ec 2.5.1.29)]. [swissprot;acc:o95749] 4322.65 1.08638 4696.04
1204 suppressor of cytokine signaling 1 (socs-1) (jak-binding protein) (jab) (stat induced stat inhibitor 1) (ssi-1) (tec-interacting protein 3) (tip-3). [swissprot;acc:o15524] 5946.33 1.08635 6459.79
1205 glia maturation factor gamma (gmf-gamma). [swissprot;acc:o60234]
1206 asc-1 complex subunit p100. [refseq;acc:nm_032204]
1207 fk506-binding protein 1a (ec 5.2.1.8) (peptidyl-prolyl cis-trans isomerase) (ppiase) (rotamase) (12 kda fkbp) (fkbp-12) (immunophilin fkbp12). [swissprot;acc:p20071]
1208 meiotic recombination protein dmc1/lim15 homolog. [swissprot;acc:q14565] 5913.73 1.08628 6423.98
1209 bifunctional aminoacyl-trna synthetase [includes: glutamyl-trna synthetase (ec 6.1.1.17) (glutamate--trna ligase); prolyl-trna synthetase (ec 6.1.1.15) (proline--trna ligase)]. [swissprot;acc:p07814] 5420.87 1.08609 5887.53
1210 trimethyllysine dioxygenase, mitochondrial precursor (ec 1.14.11.8) (epsilon-trimethyllysine 2-oxoglutarate dioxygenase) (tml-alpha- ketoglutarate dioxygenase) (tml hydroxylase) (tml dioxygenase) (tmld). [swissprot;acc:q9nvh6] 6410.73 1.08603 6962.22
1211 gtp-binding protein era homolog (hera) (fragment). [swissprot;acc:o75616]
1212 hiv-1 rev binding protein 2; rev interacting protein. [refseq;acc:nm_007043] 4077.89 1.08592 4428.28
1213 branched-chain amino acid aminotransferase, cytosolic (ec 2.6.1.42) (bcat(c)) (eca39 protein). [swissprot;acc:p54687] 5890.62 1.08588 6396.53
1214 mitogen-activated protein kinase kinase kinase 7 (ec 2.7.1.-) (transforming growth factor-beta-activated kinase 1) (tgf-beta- activated kinase 1). [swissprot;acc:o43318] 6001.16 1.08577 6515.9
1215 branched-chain amino acid aminotransferase, mitochondrial precursor (ec 2.6.1.42) (bcat(m)) (placental protein 18) (pp18). [swissprot;acc:o15382] 5892.05 1.08575 6397.28
1216 fibulin-2 precursor. [swissprot;acc:p98095] 8670.59 1.08561 9412.9
1217 cad protein [includes: glutamine-dependent carbamoyl-phosphate synthase (ec 6.3.5.5); aspartate carbamoyltransferase (ec 2.1.3.2); dihydroorotase (ec 3.5.2.3)]. [swissprot;acc:p27708] 6021.21 1.08557 6536.45
1218 cyclin m4; ancient conserved domain protein 4. [refseq;acc:nm_020184] 5736 1.08552 6226.52
1219 tcd37 homolog; prune. [refseq;acc:nm_021222] 5735.95 6226.46
1220 cyclin m3; ancient conserved domain protein 3. [refseq;acc:nm_017623] 5735.65 1.08551 6226.13
1221 cyclin m2; ancient conserved domain protein 2. [refseq;acc:nm_017649] 5736.34 6226.88
1222 cyclin m1; ancient conserved domain protein 1. [refseq;acc:nm_020348] 5735.74 6226.23
1223 transketolase-like 1 (ec 2.2.1.1) (transketolase 2) (tk 2) (transketolase related protein). [swissprot;acc:p51854] 6011.44 1.08536 6524.55
1224 splicing factor 3b subunit 4 (spliceosome associated protein 49) (sap 49) (sf3b50) (pre-mrna splicing factor sf3b 49 kda subunit). [swissprot;acc:q15427] 4331.35 1.08532 4700.91
1225 apurinic/apyrimidinic endonuclease 2; apurinic/apyrimidinic endonuclease-like 2; apex nuclease-like 2. [refseq;acc:nm_014481] 5546.5 1.08529 6019.57
1226 tyrosinase-related gene segment, exon 5 (fragment). [sptrembl;acc:q15677] 5997.24 1.08527 6508.62
1227 pinin, desmosome associated protein; pinin. [refseq;acc:nm_002687] 5973.95 6483.32
1228 dopachrome tautomerase precursor (ec 5.3.3.12) (dt) (dct) (dopachrome delta-isomerase) (tyrosinase-related protein 2) (trp-2) (trp2). [swissprot;acc:p40126] 5998.58 1.0852 6509.65
1229 5,6-dihydroxyindole-2-carboxylic acid oxidase precursor (ec 1.14.18.-) (dhica oxidase) (tyrosinase-related protein 1) (trp-1) (trp1) (trp) (catalase b) (glycoprotein-75) (melanoma antigen gp75). [swissprot;acc:p17643] 5998.69 1.08519 6509.74
1230 dystrobrevin binding protein 1; dysbindin. [refseq;acc:nm_032122] 5678.02 1.08518 6161.65
1231 probable dimethyladenosine transferase (ec 2.1.1.-) (s- adenosylmethionine-6-n',n'-adenosyl(rrna) dimethyltransferase) (18s rrna dimethylase). [swissprot;acc:q9unq2] 5132.68 1.08511 5569.54
1232 nuclear factor, interleukin 3 regulated. [refseq;acc:nm_005384] 5869.24 1.08494 6367.8
1233 tyrosinase precursor (ec 1.14.18.1) (monophenol monooxygenase) (tumor rejection antigen ab) (sk29-ab) (lb24-ab). [swissprot;acc:p14679] 6004.54 1.08489 6514.24
1234 similar to ecotropic viral integration site 5; neuroblastoma stage 4s gene. [refseq;acc:nm_145245] 5807.83 1.08482 6300.47
1235 ecotropic viral integration site 5; neuroblastoma stage 4s gene. [refseq;acc:nm_005665]
1236 p10-binding protein. [refseq;acc:nm_024491] 5594.18 1.08461 6067.49
1237 tsc22-related inducible leucine zipper protein 2 (tsc-22-like protein thg-1). [swissprot;acc:q9y3q8] 5873.56 1.08457 6370.31
1238 sphingolipid delta 4 desaturase; membrane fatty acid (lipid) desaturase; dihydroceramide desaturase. [refseq;acc:nm_003676]
1239 daz associated protein 1 isoform b; deleted in azoospermia associated protein 1. [refseq;acc:nm_018959] 5654.53 6132.76
1240 retinoic acid induced 17; pias-like protein hzimp10. [refseq;acc:nm_020338] 5654.54 1.08456 6132.69
1241 26s proteasome non-atpase regulatory subunit 2 (26s proteasome regulatory subunit s2) (26s proteasome subunit p97) (tumor necrosis factor type 1 receptor associated protein 2) (55.11 protein). [swissprot;acc:q13200] 6436.19 1.08451 6980.13
1242 ubiquitin-conjugating enzyme e2 e1 (ec 6.3.2.19) (ubiquitin-protein ligase e1) (ubiquitin carrier protein e1) (ubch6). [swissprot;acc:p51965] 11143.5 1.08439 10276.3
1243 ubiquitin-conjugating enzyme e2e 3; ubiquitin carrier protein; ubiquitin-protein ligase. [refseq;acc:nm_006357]

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/