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 Gene Value Type description Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 1486 to 1535 of 14920 in total
Network Comparison Type  : Divided
Interaction Map  : High confidence
Rank
Value Type
description
Filtered
red
green
network_comparison
186 Squared huntingtin interacting protein c. [refseq;acc:nm_012272] 0 5086.87 3492.66 1.45645
Rooted 60s ribosomal protein l15. [swissprot;acc:p39030] 19.482 17.0546 1.14233
microtubule-associated proteins 1a/1b light chain 3a (map1a/map1b lc3 a) (map1a/1b light chain 3 a). [swissprot;acc:q9h492] 1 153.578 133.176 1.1532
187 Measured importin 9. [refseq;acc:nm_018085] 0 1143.55 1397.66 1.22221
small nuclear ribonucleoprotein sm d3 (snrnp core protein d3) (sm-d3). [swissprot;acc:p43331] 1 4569.48 5885.79 1.28807
Ranked adenylosuccinate synthase-like 1. [refseq;acc:nm_152328] 0 9955.22 11213.7 1.12641
rev1-like; rev1 protein; rev1 (yeast homolog)- like. [refseq;acc:nm_016316] 1 226.582 198.444 1.14179
Squared heparan sulfate d-glucosaminyl 3-o-sulfotransferase 3b1. [refseq;acc:nm_006041] 41502.9 30836.8 1.34589
tubulin gamma-1 chain (gamma-1 tubulin) (gamma-tubulin complex component 1) (gcp-1). [swissprot;acc:p23258] 0 8660.1 5963.73 1.45213
Rooted cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326] 1 153.548 133.153 1.15317
udp-glucuronosyltransferase 2b17 precursor, microsomal (ec 2.4.1.17) (udpgt) (c19-steroid specific udp-glucuronosyltransferase). [swissprot;acc:o75795] 0 32.4121 28.377 1.1422
188 Measured nucleosome assembly protein 1-like 4 (nucleosome assembly protein 2) (nap2). [swissprot;acc:q99733] 1143.55 1397.66 1.22221
source of immunodominant mhc-associated peptides; homolog of yeast stt3 gene. [refseq;acc:nm_178862] 1 4571.89 5864.86 1.28281
Ranked 60s ribosomal protein l15. [swissprot;acc:p39030] 0 11745.2 13203.1 1.12413
protein arginine n-methyltransferase 1 (ec 2.1.1.-) (interferon receptor 1-bound protein 4). [swissprot;acc:q99873] 1 226.582 198.444 1.14179
Squared heparan sulfate d-glucosaminyl 3-o-sulfotransferase 2; heparin-glucosamine 3-o-sulfotransferase. [refseq;acc:nm_006043] 41502.9 30836.8 1.34589
transcription factor mafk (erythroid transcription factor nf-e2 p18 subunit). [swissprot;acc:o60675] 0 157.095 228.024 1.4515
Rooted transcription factor e2f1 (e2f-1) (retinoblastoma binding protein 3) (rbbp-3) (prb-binding protein e2f-1) (pbr3) (retinoblastoma-associated protein 1) (rbap-1). [swissprot;acc:q01094] 1 46.0352 53.0192 1.15171
udp-glucuronosyltransferase 2b11 precursor, microsomal (ec 2.4.1.17) (udpgt). [swissprot;acc:o75310] 0 32.4121 28.377 1.1422
189 Measured oligosaccharyl transferase stt3 subunit homolog (b5) (integral membrane protein 1) (tmc). [swissprot;acc:p46977] 1 4571.89 5864.86 1.28281
pyrroline-5-carboxylate reductase (ec 1.5.1.2) (p5cr) (p5c reductase). [swissprot;acc:p32322] 0 1249.24 1023.76 1.22025
Ranked protein arginine n-methyltransferase 4 (ec 2.1.1.-). [swissprot;acc:q9nr22] 1 226.582 198.444 1.14179
sal-like protein 4 (zinc finger protein sall4). [swissprot;acc:q9ujq4] 0 10634.4 9465 1.12355
Squared mrna decapping enzyme; histidine triad protein member 5; heat shock-like protein 1. [refseq;acc:nm_014026] 1 41502.9 30836.8 1.34589
nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333] 0 232467 160184 1.45125
Rooted transcription factor e2f2 (e2f-2). [swissprot;acc:q14209] 1 46.0352 53.0192 1.15171
udp-glucuronosyltransferase 2b4 precursor, microsomal (ec 2.4.1.17) (udpgt) (hyodeoxycholic acid) (hlug25) (udpgth-1). [swissprot;acc:p06133] 0 32.4121 28.377 1.1422
190 Measured dolichyl-diphosphooligosaccharide--protein glycosyltransferase 48 kda subunit precursor (ec 2.4.1.119) (oligosaccharyl transferase 48 kda subunit) (ddost 48 kda subunit). [swissprot;acc:p39656] 1 4571.89 5864.86 1.28281
protocadherin 16 precursor (cadherin 19) (cadherin fibroblast 1). [swissprot;acc:q96jq0] 0 14 11.5 1.21739
Ranked high-glucose-regulated protein 8 (ny-ren-2 antigen). [swissprot;acc:q9y5a9] 18809.5 16764.2 1.122
u1 small nuclear ribonucleoprotein 70 kda (u1 snrnp 70 kda) (snrnp70) (u1-70k). [swissprot;acc:p08621] 1 226.582 198.444 1.14179
Squared aquaporin 4 (wch4) (mercurial-insensitive water channel) (miwc). [swissprot;acc:p55087] 71389.9 96037.6 1.34525
transcription factor mafg (v-maf musculoaponeurotic fibrosarcoma oncogene homolog g) (hmaf). [swissprot;acc:o15525] 0 158.413 229.842 1.4509
Rooted gaba(a) receptor-associated protein; gaba(a)-receptor-associated protein. [refseq;acc:nm_007278] 1 149.165 129.699 1.15009
glutamyl aminopeptidase (ec 3.4.11.7) (eap) (aminopeptidase a) (apa) (differentiation antigen gp160). [swissprot;acc:q07075] 0 32.4121 28.377 1.1422
191 Measured ba395l14.12 (novel protein similar to small nuclear ribonucleoprotein polypeptide a' (snrpa1)). [sptrembl;acc:q9nu36] 743.066 904.149 1.21678
splicing factor 3b subunit 1 (spliceosome associated protein 155) (sap 155) (sf3b155) (pre-mrna splicing factor sf3b 155 kda subunit). [swissprot;acc:o75533] 1 4638.1 5923.4 1.27712
Ranked filamin a (alpha-filamin) (filamin 1) (endothelial actin-binding protein) (abp-280) (nonmuscle filamin). [swissprot;acc:p21333] 226.582 198.444 1.14179
sh3 adapter protein spin90 (sh3 protein interacting with nck, 90 kda) (vaca-interacting protein, 54 kda) (vip54) (af3p21) (diaphanous protein interacting protein) (dia interacting protein-1) (dip-1). [swissprot;acc:q9nzq3] 0 18809.5 16764.2 1.122
Squared aquaporin 5. [swissprot;acc:p55064] 1 71388.5 96035.2 1.34525
swi/snf related, matrix associated, actin dependent regulator of chromatin subfamily d member 1 (swi/snf complex 60 kda subunit) (brg1- associated factor 60a). [swissprot;acc:q96gm5] 0 40674.4 28034.4 1.45087
Rooted pallidin; pallid (mouse) homolog, pallidin. [refseq;acc:nm_012388] 1 63.1192 72.584 1.14995
udp-glucuronosyltransferase 2b10 precursor, microsomal (ec 2.4.1.17) (udpgt). [swissprot;acc:p36537] 0 32.4121 28.377 1.1422
192 Measured a-raf proto-oncogene serine/threonine-protein kinase (ec 2.7.1.-) (a-raf-1) (proto-oncogene pks). [swissprot;acc:p10398] 1 17757.5 14008 1.26767
sal-like protein 4 (zinc finger protein sall4). [swissprot;acc:q9ujq4] 0 1965.47 2389.69 1.21584
Ranked musashi 2 isoform a. [refseq;acc:nm_138962] 1 227.491 199.458 1.14055
t-complex protein 1, zeta subunit (tcp-1-zeta) (cct-zeta) (cct-zeta-1) (tcp20) (htr3). [swissprot;acc:p40227] 0 12715.9 11333.2 1.122
Squared aquaporin-cd (aqp-cd) (water channel protein for renal collecting duct) (adh water channel) (aquaporin 2) (collecting duct water channel protein) (wch-cd). [swissprot;acc:p41181] 1 71387.4 96033.4 1.34524
collagen alpha 5(iv) chain precursor. [swissprot;acc:p29400] 0 3480.56 5039.04 1.44777
Rooted splicing factor 4 isoform b; rna-binding protein. [refseq;acc:nm_021164] 1 53.6107 61.5862 1.14877

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/