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 [...,...].
Value Type Interaction Map Gene Rank Network Comparison Type description Filtered green red network_comparison
Results: HTML CSV LaTeX Showing element 3180 to 3229 of 29840 in total
Value Type  : Measured
Interaction Map  : High confidence
Filtered  : 1
Rank
Network Comparison Type
description
green
red
network_comparison
1088 Subtracted bag-family molecular chaperone regulator-1 (bcl-2 binding athanogene- 1) (bag-1) (glucocorticoid receptor-associated protein rap46). [swissprot;acc:q99933] 6959.21 6439.79 519.42
1089 Divided serine--pyruvate aminotransferase (ec 2.6.1.51) (spt) (alanine-- glyoxylate aminotransferase) (ec 2.6.1.44) (agt). [swissprot;acc:p21549] 6973.08 6390.28 1.0912
Subtracted glycogen synthase kinase-3 alpha (ec 2.7.1.37) (gsk-3 alpha). [swissprot;acc:p49840] 6959.21 6439.79 519.42
1090 Divided interleukin enhancer-binding factor 1 (cellular transcription factor ilf-1). [swissprot;acc:q01167] 6164.55 5651.07 1.09086
Subtracted glycogen synthase kinase-3 beta (ec 2.7.1.37) (gsk-3 beta). [swissprot;acc:p49841] 6959.21 6439.79 519.42
1091 Divided polyadenylate-binding protein 3 (poly(a)-binding protein 3) (pabp 3) (testis-specific poly(a)-binding protein). [swissprot;acc:q9h361] 6316.61 5791.05 1.09075
Subtracted phosphomannomutase 1 (ec 5.4.2.8) (pmm 1) (pmmh-22). [swissprot;acc:q92871] 6029.29 5509.89 519.4
1092 Divided hskin17 protein. [refseq;acc:nm_012311] 6316.61 5791.05 1.09075
Subtracted dimethylaniline monooxygenase [n-oxide forming] 1 (ec 1.14.13.8) (fetal hepatic flavin-containing monooxygenase 1) (fmo 1) (dimethylaniline oxidase 1). [swissprot;acc:q01740] 5884.43 5365.14 519.29
1093 Divided carnitine o-acetyltransferase (ec 2.3.1.7) (carnitine acetylase) (cat). [swissprot;acc:p43155] 6316.61 5791.05 1.09075
Subtracted dimethylaniline monooxygenase [n-oxide forming] 4 (ec 1.14.13.8) (hepatic flavin-containing monooxygenase 4) (fmo 4) (dimethylaniline oxidase 4). [swissprot;acc:p31512] 5884.32 5365.22 519.1
1094 Divided polyadenylate-binding protein 4 (poly(a)-binding protein 4) (pabp 4) (inducible poly(a)-binding protein) (ipabp) (activated-platelet protein-1) (app-1). [swissprot;acc:q13310] 6316.61 5791.05 1.09075
Subtracted 5-methyltetrahydrofolate--homocysteine methyltransferase (ec 2.1.1.13) (methionine synthase, vitamin-b12 dependent) (ms). [swissprot;acc:q99707] 6314.19 5795.13 519.06
1095 Divided polyadenylate-binding protein 1 (poly(a)-binding protein 1) (pabp 1). [swissprot;acc:p11940] 6316.61 5791.05 1.09075
Subtracted ftsj homolog 3; likely ortholog of mouse ectoplacental cone, invasive trophoblast giant cells, extraembryonic ectoderm and chorion sequence 3. [refseq;acc:nm_017647] 4633.96 4115.39 518.57
1096 Divided kinesin protein. [refseq;acc:nm_032559] 5842.15 5356.23 1.09072
Subtracted cysteine-rich motor neuron 1; cysteine-rich repeat-containing protein s52 precursor. [refseq;acc:nm_016441] 6852.61 6334.15 518.46
1097 Divided homolog of yeast maf1. [refseq;acc:nm_032272] 6690.18 6133.83 1.0907
Subtracted 60s ribosomal protein l39. [swissprot;acc:p02404] 5226.71 4708.61 518.1
1098 Divided tumor differentially expressed protein 2. [refseq;acc:nm_178865] 6690.18 6133.83 1.0907
Subtracted 60s ribosomal protein l18a. [swissprot;acc:q02543] 5226.71 4708.61 518.1
1099 Divided tumor differentially expressed protein 1 (transmembrane protein sbbi99). [swissprot;acc:q13530] 6690.18 6133.83 1.0907
Subtracted 40s ribosomal protein s19. [swissprot;acc:p39019] 5226.71 4708.61 518.1
1100 Divided tumor differentially expressed 1 protein like. [swissprot;acc:q9nrx5] 6690.18 6133.83 1.0907
Subtracted 60s ribosomal protein l31. [swissprot;acc:p12947] 5226.71 4708.61 518.1
1101 Divided d-3-phosphoglycerate dehydrogenase (ec 1.1.1.95) (3-pgdh). [swissprot;acc:o43175] 6690.18 6133.83 1.0907
Subtracted exocyst complex component sec10 (hsec10). [swissprot;acc:o00471] 7238.34 6721.25 517.09
1102 Divided phenylalanyl-trna synthetase beta chain (ec 6.1.1.20) (phenylalanine-- trna ligase beta chain) (phers) (hspc173). [swissprot;acc:q9nsd9] 5958.12 5462.88 1.09066
Subtracted transcription factor mafg (v-maf musculoaponeurotic fibrosarcoma oncogene homolog g) (hmaf). [swissprot;acc:o15525] 7950.61 7433.73 516.88
1103 Divided ny-ren-62 antigen (fragment). [sptrembl;acc:q9y590] 5843.73 5358.18 1.09062
Subtracted transcription factor maff (v-maf musculoaponeurotic fibrosarcoma oncogene homolog f) (u-maf). [swissprot;acc:q9ulx9] 7950.61 7433.73 516.88
1104 Divided kinesin-like protein kif2 (kinesin-2) (hk2). [swissprot;acc:o00139] 5844.97 5359.72 1.09054
Subtracted transcription factor mafk (erythroid transcription factor nf-e2 p18 subunit). [swissprot;acc:o60675] 7950.61 7433.73 516.88
1105 Divided synaptotagmin xii (sytxii). [swissprot;acc:q8iv01] 5954.62 5460.49 1.09049
Subtracted cell adhesion molecule with homology to l1cam precursor; neural cell adhesion molecule; cell adhesion molecule l1-like; l1 cell adhesion molecule 2. [refseq;acc:nm_006614] 7950.61 7433.73 516.88
1106 Divided peptide methionine sulfoxide reductase (ec 1.8.4.6) (protein- methionine-s-oxide reductase) (peptide met(o) reductase). [swissprot;acc:q9uj68] 5986.63 5489.99 1.09046
Subtracted neural cell adhesion molecule l1 precursor (n-cam l1) (cd171 antigen). [swissprot;acc:p32004] 7950.61 7433.73 516.88
1107 Divided phosphoserine aminotransferase (ec 2.6.1.52) (psat). [swissprot;acc:q9y617] 5986.63 5489.99 1.09046
Subtracted transcription initiation factor tfiid 31 kda subunit (tafii-31) (tafii-32) (tafii32). [swissprot;acc:q16594] 7950.61 7433.73 516.88
1108 Divided rrp5 protein homolog (programmed cell death protein 11). [swissprot;acc:q14690] 5283.08 4846.16 1.09016
Subtracted nuclear factor erythroid 2 related factor 1 (nf-e2 related factor 1) (nfe2-related factor 1) (nuclear factor, erythroid derived 2, like 1) (transcription factor 11) (transcription factor hbz17) (transcription factor lcr-f1) (locus control region-factor 1). [swissprot;acc:q14494] 7950.61 7433.73 516.88
1109 Divided rab3a interacting protein (rabin3)-like 1. [refseq;acc:nm_013401] 7132.89 6545.19 1.08979
Subtracted nuclear factor (erythroid-derived 2)-like 3; nf-e2-related factor 3. [refseq;acc:nm_004289] 7950.61 7433.73 516.88
1110 Divided nadph:adrenodoxin oxidoreductase, mitochondrial precursor (ec 1.18.1.2) (adrenodoxin reductase) (ar) (ferredoxin-nadp(+) reductase). [swissprot;acc:p22570] 6481.56 5947.53 1.08979
Subtracted mstp028 protein. [refseq;acc:nm_031954] 6355.06 5838.87 516.19
1111 Divided rab3a interacting protein isoform alpha 1; rabin3; ssx2 interacting protein. [refseq;acc:nm_022456] 7127.41 6540.61 1.08972
Subtracted putative sialoglycoprotease type 2. [refseq;acc:nm_022353] 5909.47 5393.37 516.1
1112 Divided putative phosphoglycerate mutase 3 (ec 5.4.2.1) (ec 5.4.2.4) (ec 3.1.3.13). [swissprot;acc:q8n0y7] 6440.58 5910.54 1.08968
Subtracted swi/snf related, matrix associated, actin dependent regulator of chromatin subfamily b member 1 (integrase interactor 1 protein) (hsnf5) (baf47). [swissprot;acc:q12824] 6355.56 5840.01 515.55
1113 Divided phosphoglycerate mutase 1 (ec 5.4.2.1) (ec 5.4.2.4) (ec 3.1.3.13) (phosphoglycerate mutase isozyme b) (pgam-b) (bpg-dependent pgam 1). [swissprot;acc:p18669] 6440.58 5910.54 1.08968

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/