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 [...,...].
Rank Value Type Gene Interaction Map description red Network Comparison Type network_comparison Filtered green
Results: HTML CSV LaTeX Showing element 3180 to 3229 of 7460 in total
Value Type  : Measured
Interaction Map  : High confidence
Filtered  : 1
Rank
description
red
Network Comparison Type
network_comparison
green
1088 tax interaction protein 1. [refseq;acc:nm_014604] 5732.73 Divided 1.09139 6256.63
1089 glycogen synthase kinase-3 alpha (ec 2.7.1.37) (gsk-3 alpha). [swissprot;acc:p49840] 6439.79 Subtracted 519.42 6959.21
serine--pyruvate aminotransferase (ec 2.6.1.51) (spt) (alanine-- glyoxylate aminotransferase) (ec 2.6.1.44) (agt). [swissprot;acc:p21549] 6390.28 Divided 1.0912 6973.08
1090 glycogen synthase kinase-3 beta (ec 2.7.1.37) (gsk-3 beta). [swissprot;acc:p49841] 6439.79 Subtracted 519.42 6959.21
interleukin enhancer-binding factor 1 (cellular transcription factor ilf-1). [swissprot;acc:q01167] 5651.07 Divided 1.09086 6164.55
1091 phosphomannomutase 1 (ec 5.4.2.8) (pmm 1) (pmmh-22). [swissprot;acc:q92871] 5509.89 Subtracted 519.4 6029.29
polyadenylate-binding protein 3 (poly(a)-binding protein 3) (pabp 3) (testis-specific poly(a)-binding protein). [swissprot;acc:q9h361] 5791.05 Divided 1.09075 6316.61
1092 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] 5365.14 Subtracted 519.29 5884.43
hskin17 protein. [refseq;acc:nm_012311] 5791.05 Divided 1.09075 6316.61
1093 carnitine o-acetyltransferase (ec 2.3.1.7) (carnitine acetylase) (cat). [swissprot;acc:p43155]
dimethylaniline monooxygenase [n-oxide forming] 4 (ec 1.14.13.8) (hepatic flavin-containing monooxygenase 4) (fmo 4) (dimethylaniline oxidase 4). [swissprot;acc:p31512] 5365.22 Subtracted 519.1 5884.32
1094 5-methyltetrahydrofolate--homocysteine methyltransferase (ec 2.1.1.13) (methionine synthase, vitamin-b12 dependent) (ms). [swissprot;acc:q99707] 5795.13 519.06 6314.19
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] 5791.05 Divided 1.09075 6316.61
1095 ftsj homolog 3; likely ortholog of mouse ectoplacental cone, invasive trophoblast giant cells, extraembryonic ectoderm and chorion sequence 3. [refseq;acc:nm_017647] 4115.39 Subtracted 518.57 4633.96
polyadenylate-binding protein 1 (poly(a)-binding protein 1) (pabp 1). [swissprot;acc:p11940] 5791.05 Divided 1.09075 6316.61
1096 cysteine-rich motor neuron 1; cysteine-rich repeat-containing protein s52 precursor. [refseq;acc:nm_016441] 6334.15 Subtracted 518.46 6852.61
kinesin protein. [refseq;acc:nm_032559] 5356.23 Divided 1.09072 5842.15
1097 60s ribosomal protein l39. [swissprot;acc:p02404] 4708.61 Subtracted 518.1 5226.71
homolog of yeast maf1. [refseq;acc:nm_032272] 6133.83 Divided 1.0907 6690.18
1098 60s ribosomal protein l18a. [swissprot;acc:q02543] 4708.61 Subtracted 518.1 5226.71
tumor differentially expressed protein 2. [refseq;acc:nm_178865] 6133.83 Divided 1.0907 6690.18
1099 40s ribosomal protein s19. [swissprot;acc:p39019] 4708.61 Subtracted 518.1 5226.71
tumor differentially expressed protein 1 (transmembrane protein sbbi99). [swissprot;acc:q13530] 6133.83 Divided 1.0907 6690.18
1100 60s ribosomal protein l31. [swissprot;acc:p12947] 4708.61 Subtracted 518.1 5226.71
tumor differentially expressed 1 protein like. [swissprot;acc:q9nrx5] 6133.83 Divided 1.0907 6690.18
1101 d-3-phosphoglycerate dehydrogenase (ec 1.1.1.95) (3-pgdh). [swissprot;acc:o43175]
exocyst complex component sec10 (hsec10). [swissprot;acc:o00471] 6721.25 Subtracted 517.09 7238.34
1102 phenylalanyl-trna synthetase beta chain (ec 6.1.1.20) (phenylalanine-- trna ligase beta chain) (phers) (hspc173). [swissprot;acc:q9nsd9] 5462.88 Divided 1.09066 5958.12
transcription factor mafg (v-maf musculoaponeurotic fibrosarcoma oncogene homolog g) (hmaf). [swissprot;acc:o15525] 7433.73 Subtracted 516.88 7950.61
1103 ny-ren-62 antigen (fragment). [sptrembl;acc:q9y590] 5358.18 Divided 1.09062 5843.73
transcription factor maff (v-maf musculoaponeurotic fibrosarcoma oncogene homolog f) (u-maf). [swissprot;acc:q9ulx9] 7433.73 Subtracted 516.88 7950.61
1104 kinesin-like protein kif2 (kinesin-2) (hk2). [swissprot;acc:o00139] 5359.72 Divided 1.09054 5844.97
transcription factor mafk (erythroid transcription factor nf-e2 p18 subunit). [swissprot;acc:o60675] 7433.73 Subtracted 516.88 7950.61
1105 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]
synaptotagmin xii (sytxii). [swissprot;acc:q8iv01] 5460.49 Divided 1.09049 5954.62
1106 neural cell adhesion molecule l1 precursor (n-cam l1) (cd171 antigen). [swissprot;acc:p32004] 7433.73 Subtracted 516.88 7950.61
peptide methionine sulfoxide reductase (ec 1.8.4.6) (protein- methionine-s-oxide reductase) (peptide met(o) reductase). [swissprot;acc:q9uj68] 5489.99 Divided 1.09046 5986.63
1107 phosphoserine aminotransferase (ec 2.6.1.52) (psat). [swissprot;acc:q9y617]
transcription initiation factor tfiid 31 kda subunit (tafii-31) (tafii-32) (tafii32). [swissprot;acc:q16594] 7433.73 Subtracted 516.88 7950.61
1108 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]
rrp5 protein homolog (programmed cell death protein 11). [swissprot;acc:q14690] 4846.16 Divided 1.09016 5283.08
1109 nuclear factor (erythroid-derived 2)-like 3; nf-e2-related factor 3. [refseq;acc:nm_004289] 7433.73 Subtracted 516.88 7950.61
rab3a interacting protein (rabin3)-like 1. [refseq;acc:nm_013401] 6545.19 Divided 1.08979 7132.89
1110 mstp028 protein. [refseq;acc:nm_031954] 5838.87 Subtracted 516.19 6355.06
nadph:adrenodoxin oxidoreductase, mitochondrial precursor (ec 1.18.1.2) (adrenodoxin reductase) (ar) (ferredoxin-nadp(+) reductase). [swissprot;acc:p22570] 5947.53 Divided 1.08979 6481.56
1111 putative sialoglycoprotease type 2. [refseq;acc:nm_022353] 5393.37 Subtracted 516.1 5909.47
rab3a interacting protein isoform alpha 1; rabin3; ssx2 interacting protein. [refseq;acc:nm_022456] 6540.61 Divided 1.08972 7127.41
1112 putative phosphoglycerate mutase 3 (ec 5.4.2.1) (ec 5.4.2.4) (ec 3.1.3.13). [swissprot;acc:q8n0y7] 5910.54 1.08968 6440.58
swi/snf related, matrix associated, actin dependent regulator of chromatin subfamily b member 1 (integrase interactor 1 protein) (hsnf5) (baf47). [swissprot;acc:q12824] 5840.01 Subtracted 515.55 6355.56
1113 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] 5910.54 Divided 1.08968 6440.58

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/