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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Rank Value Type Gene Network Comparison Type red description Interaction Map Filtered green network_comparison
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
red
description
green
network_comparison
276 Divided 241.13 60s ribosomal protein l32. [swissprot;acc:p02433] 266.969 1.10716
Subtracted 258.437 atp-dependent rna helicase ddx24 (dead-box protein 24). [swissprot;acc:q9gzr7] 235.183 23.254
277 Divided 241.849 40s ribosomal protein s29. [swissprot;acc:p30054] 267.642 1.10665
Subtracted 239.277 60s ribosomal protein l4 (l1). [swissprot;acc:p36578] 262.434 23.157
278 Divided 241.399 40s ribosomal protein s11. [swissprot;acc:p04643] 267.088 1.10642
Subtracted 235.383 myelin gene expression factor 2. [refseq;acc:nm_016132] 258.476 23.093
279 Divided 252.644 histone acetyltransferase type b subunit 2 (retinoblastoma binding protein p46) (retinoblastoma-binding protein 7) (rbbp-7). [swissprot;acc:q16576] 228.42 1.10605
Subtracted 242.66 trna pseudouridine synthase a (ec 4.2.1.70) (pseudouridylate synthase i) (pseudouridine synthase i) (uracil hydrolyase). [swissprot;acc:q9y606] 265.715 23.055
280 Divided 252.512 metastasis-associated protein mta1. [swissprot;acc:q13330] 228.356 1.10578
Subtracted 267.208 transcription factor dp-2 (e2f dimerization partner 2). [swissprot;acc:q14188] 244.168 23.04
281 Divided 241.808 60s ribosomal protein l17 (l23). [swissprot;acc:p18621] 267.335 1.10557
Subtracted 242.159 60s ribosomal protein l12, mitochondrial precursor (l12mt) (5c5-2). [swissprot;acc:p52815] 265.104 22.945
282 Divided 252.39 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
Subtracted 242.159 nudix (nucleoside diphosphate linked moiety x)-type motif 12. [refseq;acc:nm_031438] 265.104 22.945
283 Divided 241.828 60s ribosomal protein l11. [swissprot;acc:p39026] 267.346 1.10552
Subtracted 242.37 60s ribosomal protein l11, mitochondrial precursor (l11mt) (cgi-113). [swissprot;acc:q9y3b7] 265.255 22.885
284 Divided 224.657 crk-associated substrate (p130cas) (breast cancer anti-estrogen resistance 1 protein). [swissprot;acc:p56945] 203.235 1.10541
Subtracted 242.686 dna-directed rna polymerase iii largest subunit (ec 2.7.7.6) (rpc155) (rpc1). [swissprot;acc:o14802] 265.516 22.83
285 Divided 224.647 t-complex protein 1, delta subunit (tcp-1-delta) (cct-delta) (stimulator of tar rna binding). [swissprot;acc:p50991] 203.242 1.10532
Subtracted 242.691 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
286 Divided 224.633 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
Subtracted 242.593 60s ribosomal protein l30. [swissprot;acc:p04645] 265.365 22.772
287 Divided 240.758 40s ribosomal protein s4, y isoform 2. [swissprot;acc:q8td47] 266.079 1.10517
Subtracted 225.217 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
288 Divided 240.758 40s ribosomal protein s4, x isoform (single copy abundant mrna protein) (scr10). [swissprot;acc:p12750] 266.078 1.10517
Subtracted 234.691 syntaxin 10 (syn10). [swissprot;acc:o60499] 257.442 22.751
289 Divided 272.781 hpaii tiny fragments locus 9c. [refseq;acc:nm_022727] 246.892 1.10486
Subtracted 234.673 syntaxin 6. [swissprot;acc:o43752] 257.414 22.741
290 Divided 231.969 ribonucleoside-diphosphate reductase m2 chain (ec 1.17.4.1) (ribonucleotide reductase small chain). [swissprot;acc:p31350] 210.064 1.10428
Subtracted 242.109 suppressor of ty 5 homolog; suppressor of ty (s.cerevisiae) 5 homolog. [refseq;acc:nm_003169] 264.79 22.681
291 Divided 251.679 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
Subtracted 241.509 adenylate kinase isoenzyme 2, mitochondrial (ec 2.7.4.3) (atp-amp transphosphorylase). [swissprot;acc:p54819] 264.163 22.654
292 Divided 241.411 40s ribosomal protein s15a. [swissprot;acc:p39027] 266.414 1.10357
Subtracted 234.146 heterogeneous nuclear ribonucleoprotein m (hnrnp m). [swissprot;acc:p52272] 256.627 22.481
293 Divided 240.782 60s ribosomal protein l23 (l17). [swissprot;acc:p23131] 265.717 1.10356
Subtracted 219.421 c439a6.1 (novel protein similar to heparan sulfate (glucosamine) 3-o- sulfotransferases) (fragment). [sptrembl;acc:q96qi5] 196.978 22.443
294 Divided 240.782 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
Subtracted 219.421 heparan sulfate d-glucosaminyl 3-o-sulfotransferase 3a1; heparin-glucosamine 3-o-sulfotransferase. [refseq;acc:nm_006042] 196.978 22.443
295 Divided 223.273 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
Subtracted 219.421 heparan sulfate d-glucosaminyl 3-o-sulfotransferase 3b1. [refseq;acc:nm_006041] 196.978 22.443
296 Divided 241.282 mitochondrial ribosomal protein l4 isoform a. [refseq;acc:nm_015956] 266.12 1.10294
Subtracted 219.421 heparan sulfate d-glucosaminyl 3-o-sulfotransferase 2; heparin-glucosamine 3-o-sulfotransferase. [refseq;acc:nm_006043] 196.978 22.443
297 Divided 235.727 60s ribosomal protein l7. [swissprot;acc:p18124] 259.984 1.1029
Subtracted 219.421 mrna decapping enzyme; histidine triad protein member 5; heat shock-like protein 1. [refseq;acc:nm_014026] 196.978 22.443
298 Divided 268.632 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
Subtracted 266.421 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
299 Divided 268.635 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
Subtracted 266.421 transcription factor e2f2 (e2f-2). [swissprot;acc:q14209] 244.236 22.185
300 Divided 150.959 metalloprotease 1; metalloprotease 1 (pitrilysin family). [refseq;acc:nm_014889] 166.351 1.10196
Subtracted 257.017 probable atp-dependent 61 kda nucleolar rna helicase (dead-box protein 21). [swissprot;acc:q9ny93] 234.945 22.072

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/