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.


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Gene Rank Network Comparison Type description Value Type Interaction Map Filtered green network_comparison red
Results: HTML CSV LaTeX Showing element 551 to 600 of 6456 in total
Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1
Rank
Network Comparison Type
description
green
network_comparison
red
276 Divided 60s ribosomal protein l32. [swissprot;acc:p02433] 266.969 1.10716 241.13
Subtracted atp-dependent rna helicase ddx24 (dead-box protein 24). [swissprot;acc:q9gzr7] 235.183 23.254 258.437
277 Divided 40s ribosomal protein s29. [swissprot;acc:p30054] 267.642 1.10665 241.849
Subtracted 60s ribosomal protein l4 (l1). [swissprot;acc:p36578] 262.434 23.157 239.277
278 Divided 40s ribosomal protein s11. [swissprot;acc:p04643] 267.088 1.10642 241.399
Subtracted myelin gene expression factor 2. [refseq;acc:nm_016132] 258.476 23.093 235.383
279 Divided histone acetyltransferase type b subunit 2 (retinoblastoma binding protein p46) (retinoblastoma-binding protein 7) (rbbp-7). [swissprot;acc:q16576] 228.42 1.10605 252.644
Subtracted trna pseudouridine synthase a (ec 4.2.1.70) (pseudouridylate synthase i) (pseudouridine synthase i) (uracil hydrolyase). [swissprot;acc:q9y606] 265.715 23.055 242.66
280 Divided metastasis-associated protein mta1. [swissprot;acc:q13330] 228.356 1.10578 252.512
Subtracted transcription factor dp-2 (e2f dimerization partner 2). [swissprot;acc:q14188] 244.168 23.04 267.208
281 Divided 60s ribosomal protein l17 (l23). [swissprot;acc:p18621] 267.335 1.10557 241.808
Subtracted 60s ribosomal protein l12, mitochondrial precursor (l12mt) (5c5-2). [swissprot;acc:p52815] 265.104 22.945 242.159
282 Divided chromatin assembly factor 1 subunit c (caf-1 subunit c) (chromatin assembly factor i p48 subunit) (caf-i 48 kda subunit) (caf-ip48) (retinoblastoma binding protein p48) (retinoblastoma-binding protein 4) (rbbp-4) (msi1 protein homolog). [swissprot;acc:q09028] 228.297 1.10553 252.39
Subtracted nudix (nucleoside diphosphate linked moiety x)-type motif 12. [refseq;acc:nm_031438] 265.104 22.945 242.159
283 Divided 60s ribosomal protein l11. [swissprot;acc:p39026] 267.346 1.10552 241.828
Subtracted 60s ribosomal protein l11, mitochondrial precursor (l11mt) (cgi-113). [swissprot;acc:q9y3b7] 265.255 22.885 242.37
284 Divided crk-associated substrate (p130cas) (breast cancer anti-estrogen resistance 1 protein). [swissprot;acc:p56945] 203.235 1.10541 224.657
Subtracted dna-directed rna polymerase iii largest subunit (ec 2.7.7.6) (rpc155) (rpc1). [swissprot;acc:o14802] 265.516 22.83 242.686
285 Divided t-complex protein 1, delta subunit (tcp-1-delta) (cct-delta) (stimulator of tar rna binding). [swissprot;acc:p50991] 203.242 1.10532 224.647
Subtracted dna-directed rna polymerase i largest subunit (ec 2.7.7.6) (rna polymerase i 194 kda subunit) (rpa194). [swissprot;acc:o95602] 265.481 22.79 242.691
286 Divided enhancer of filamentation 1 (hef1) (crk-associated substrate-related protein) (cas-l) (casl) (pp105) (neural precursor cell expressed developmentally down-regulated 9). [swissprot;acc:q14511] 203.251 1.1052 224.633
Subtracted 60s ribosomal protein l30. [swissprot;acc:p04645] 265.365 22.772 242.593
287 Divided 40s ribosomal protein s4, y isoform 2. [swissprot;acc:q8td47] 266.079 1.10517 240.758
Subtracted splicing factor 3b subunit 1 (spliceosome associated protein 155) (sap 155) (sf3b155) (pre-mrna splicing factor sf3b 155 kda subunit). [swissprot;acc:o75533] 202.459 22.758 225.217
288 Divided 40s ribosomal protein s4, x isoform (single copy abundant mrna protein) (scr10). [swissprot;acc:p12750] 266.078 1.10517 240.758
Subtracted syntaxin 10 (syn10). [swissprot;acc:o60499] 257.442 22.751 234.691
289 Divided hpaii tiny fragments locus 9c. [refseq;acc:nm_022727] 246.892 1.10486 272.781
Subtracted syntaxin 6. [swissprot;acc:o43752] 257.414 22.741 234.673
290 Divided ribonucleoside-diphosphate reductase m2 chain (ec 1.17.4.1) (ribonucleotide reductase small chain). [swissprot;acc:p31350] 210.064 1.10428 231.969
Subtracted suppressor of ty 5 homolog; suppressor of ty (s.cerevisiae) 5 homolog. [refseq;acc:nm_003169] 264.79 22.681 242.109
291 Divided nuclear transcription factor y subunit beta (nf-y protein chain b) (nf-yb) (ccaat-binding transcription factor subunit a) (cbf-a) (caat- box dna binding protein subunit b). [swissprot;acc:p25208] 228.037 1.10368 251.679
Subtracted adenylate kinase isoenzyme 2, mitochondrial (ec 2.7.4.3) (atp-amp transphosphorylase). [swissprot;acc:p54819] 264.163 22.654 241.509
292 Divided 40s ribosomal protein s15a. [swissprot;acc:p39027] 266.414 1.10357 241.411
Subtracted heterogeneous nuclear ribonucleoprotein m (hnrnp m). [swissprot;acc:p52272] 256.627 22.481 234.146
293 Divided 60s ribosomal protein l23 (l17). [swissprot;acc:p23131] 265.717 1.10356 240.782
Subtracted c439a6.1 (novel protein similar to heparan sulfate (glucosamine) 3-o- sulfotransferases) (fragment). [sptrembl;acc:q96qi5] 196.978 22.443 219.421
294 Divided brca2 and cdkn1a-interacting protein isoform bccipalpha; brca2 and cdkn1a-interacting protein; cdk inhibitor p21 binding protein; bccipalpha; bccipbeta; tok-1alpha; tok-1beta. [refseq;acc:nm_016567] 265.717 1.10356 240.782
Subtracted heparan sulfate d-glucosaminyl 3-o-sulfotransferase 3a1; heparin-glucosamine 3-o-sulfotransferase. [refseq;acc:nm_006042] 196.978 22.443 219.421
295 Divided multisynthetase complex auxiliary component p43 [contains: endothelial-monocyte activating polypeptide ii (emap-ii) (small inducible cytokine subfamily e member 1)]. [swissprot;acc:q12904] 202.423 1.103 223.273
Subtracted heparan sulfate d-glucosaminyl 3-o-sulfotransferase 3b1. [refseq;acc:nm_006041] 196.978 22.443 219.421
296 Divided mitochondrial ribosomal protein l4 isoform a. [refseq;acc:nm_015956] 266.12 1.10294 241.282
Subtracted heparan sulfate d-glucosaminyl 3-o-sulfotransferase 2; heparin-glucosamine 3-o-sulfotransferase. [refseq;acc:nm_006043] 196.978 22.443 219.421
297 Divided 60s ribosomal protein l7. [swissprot;acc:p18124] 259.984 1.1029 235.727
Subtracted mrna decapping enzyme; histidine triad protein member 5; heat shock-like protein 1. [refseq;acc:nm_014026] 196.978 22.443 219.421
298 Divided calpain 2, large [catalytic] subunit precursor (ec 3.4.22.17) (calcium-activated neutral proteinase) (canp) (m-type) (m-calpain) (millimolar-calpain) (calpain large polypeptide l2). [swissprot;acc:p17655] 243.588 1.10281 268.632
Subtracted 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] 244.236 22.185 266.421
299 Divided calpain 1, large [catalytic] subunit (ec 3.4.22.17) (calcium-activated neutral proteinase) (canp) (mu-type) (mucanp) (micromolar-calpain). [swissprot;acc:p07384] 243.592 1.10281 268.635
Subtracted transcription factor e2f2 (e2f-2). [swissprot;acc:q14209] 244.236 22.185 266.421
300 Divided metalloprotease 1; metalloprotease 1 (pitrilysin family). [refseq;acc:nm_014889] 166.351 1.10196 150.959
Subtracted probable atp-dependent 61 kda nucleolar rna helicase (dead-box protein 21). [swissprot;acc:q9ny93] 234.945 22.072 257.017

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/