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