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

Table 3: Type II network, divided ranks. This table presents the output of the simulation of a type-II network in which we relied on the high confidence interactions and micro-array results. The output of the micro-array was then ranked and these ranks used as input into the network simulation. After performing two such simulations (one for the MK5 off and one for the MK5 on microarray output), we divided the ranks and sorted the results accordingly. The output of this technique is a collection of proteins that cluster naturally together.


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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 [...,...].
Gene Rank Filtered Network Comparison Type description Value Type Interaction Map green red network_comparison
Results: HTML CSV LaTeX Showing element 551 to 600 of 3730 in total
Network Comparison Type  : Divided
Value Type  : Ranked
Interaction Map  : High confidence
Rank
Filtered
description
green
red
network_comparison
276 0 60s ribosomal protein l9. [swissprot;acc:p32969] 9922.33 10741.6 1.08257
1 60s ribosomal protein l32. [swissprot;acc:p02433] 266.969 241.13 1.10716
277 0 60s ribosomal protein l17 (l23). [swissprot;acc:p18621] 10251.6 11096.8 1.08245
1 40s ribosomal protein s29. [swissprot;acc:p30054] 267.642 241.849 1.10665
278 0 associated molecule with the sh3 domain of stam (amsh) like protein. [refseq;acc:nm_020799] 10763.4 11644 1.08181
1 40s ribosomal protein s11. [swissprot;acc:p04643] 267.088 241.399 1.10642
279 0 anaphase promoting complex subunit 11 (hepatocellular carcinoma associated ring finger protein) (hspc214). [swissprot;acc:q9nyg5] 9812.39 10614.2 1.08171
1 histone acetyltransferase type b subunit 2 (retinoblastoma binding protein p46) (retinoblastoma-binding protein 7) (rbbp-7). [swissprot;acc:q16576] 228.42 252.644 1.10605
280 0 crooked neck-like protein 1 (crooked neck homolog) (hcrn) (cgi-201) (mstp021). [swissprot;acc:q9bzj0] 11471.2 10620.1 1.08014
1 metastasis-associated protein mta1. [swissprot;acc:q13330] 228.356 252.512 1.10578
281 0 phospholipid scramblase 3 (pl scramblase 3) (ca(2+)-dependent phospholipid scramblase 3). [swissprot;acc:q9nry6] 13514.5 12522.7 1.0792
1 60s ribosomal protein l17 (l23). [swissprot;acc:p18621] 267.335 241.808 1.10557
282 0 sh3-containing grb2-like protein 1 (sh3 domain protein 2b) (extra eleven-nineteen leukemia fusion gene) (een) (een fusion partner of mll). [swissprot;acc:q99961] 8732.68 8095.69 1.07868
1 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] 228.297 252.39 1.10553
283 0 lifeguard; kiaa0950 protein. [refseq;acc:nm_012306] 11959.2 11107.1 1.07672
1 60s ribosomal protein l11. [swissprot;acc:p39026] 267.346 241.828 1.10552
284 0 tyrosinase-related gene segment, exon 5 (fragment). [sptrembl;acc:q15677] 16041.6 14898.9 1.0767
1 crk-associated substrate (p130cas) (breast cancer anti-estrogen resistance 1 protein). [swissprot;acc:p56945] 203.235 224.657 1.10541
285 0 dj408b20.3 (novel protein similar to 60s acidic ribosomal protein p2 (rplp2)). [sptrembl;acc:q9h5a9] 9925.58 10686 1.07661
1 t-complex protein 1, delta subunit (tcp-1-delta) (cct-delta) (stimulator of tar rna binding). [swissprot;acc:p50991] 203.242 224.647 1.10532
286 0 dyskerin (nucleolar protein nap57) (cbf5 homolog). [swissprot;acc:o60832] 11367.3 12228.2 1.07573
1 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] 203.251 224.633 1.1052
287 0 proto-oncogene tyrosine-protein kinase src (ec 2.7.1.112) (p60-src) (c-src). [swissprot;acc:p12931] 16590.3 17842.7 1.07549
1 40s ribosomal protein s4, y isoform 2. [swissprot;acc:q8td47] 266.079 240.758 1.10517
288 0 5,6-dihydroxyindole-2-carboxylic acid oxidase precursor (ec 1.14.18.-) (dhica oxidase) (tyrosinase-related protein 1) (trp-1) (trp1) (trp) (catalase b) (glycoprotein-75) (melanoma antigen gp75). [swissprot;acc:p17643] 16053 14930.6 1.07517
1 40s ribosomal protein s4, x isoform (single copy abundant mrna protein) (scr10). [swissprot;acc:p12750] 266.078 240.758 1.10517
289 0 forkhead box protein g1c (forkhead-related protein fkhl3) (hfk3) (fragment). [swissprot;acc:q14488] 14091.9 15147.2 1.07489
1 hpaii tiny fragments locus 9c. [refseq;acc:nm_022727] 246.892 272.781 1.10486
290 0 interleukin-1 receptor-associated kinase 4; interleukin-1 receptor associated kinase 4. [refseq;acc:nm_016123] 14091.9 15147.2 1.07489
1 ribonucleoside-diphosphate reductase m2 chain (ec 1.17.4.1) (ribonucleotide reductase small chain). [swissprot;acc:p31350] 210.064 231.969 1.10428
291 0 far upstream element-binding protein; far upstream element binding protein; fuse-binding protein. [refseq;acc:nm_003902] 11731.8 10922.9 1.07406
1 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] 228.037 251.679 1.10368
292 0 ran-binding protein 2-like 1 isoform 2; sperm membrane protein bs-63; ran-binding protein 2-like 1. [refseq;acc:nm_032260] 9574.98 10280.5 1.07368
1 40s ribosomal protein s15a. [swissprot;acc:p39027] 266.414 241.411 1.10357
293 0 ran-binding protein 2-like 1 isoform 2; sperm membrane protein bs-63; ran-binding protein 2-like 1. [refseq;acc:nm_032260] 9583.27 10287.1 1.07344
1 60s ribosomal protein l23 (l17). [swissprot;acc:p23131] 265.717 240.782 1.10356
294 0 transcription initiation factor tfiid 20/15 kda subunits (tafii- 20/tafii-15) (tafii20/tafii15). [swissprot;acc:q16514] 13025.1 13981.5 1.07343
1 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] 265.717 240.782 1.10356
295 0 transcription factor-like protein morf4 (mortality factor 4) (cellular senescence-related protein 1) (sen1). [swissprot;acc:q9y690] 12751.8 13687.7 1.07339
1 multisynthetase complex auxiliary component p43 [contains: endothelial-monocyte activating polypeptide ii (emap-ii) (small inducible cytokine subfamily e member 1)]. [swissprot;acc:q12904] 202.423 223.273 1.103
296 0 lon protease homolog, mitochondrial precursor (ec 3.4.21.-) (lon protease-like protein) (lonp) (lonhs). [swissprot;acc:p36776] 10941.8 10194.1 1.07335
1 mitochondrial ribosomal protein l4 isoform a. [refseq;acc:nm_015956] 266.12 241.282 1.10294
297 0 daz associated protein 1 isoform b; deleted in azoospermia associated protein 1. [refseq;acc:nm_018959] 8719 8123.75 1.07327
1 60s ribosomal protein l7. [swissprot;acc:p18124] 259.984 235.727 1.1029
298 0 40s ribosomal protein sa (p40) (34/67 kda laminin receptor) (colon carcinoma laminin-binding protein) (nem/1chd4) (multidrug resistance- associated protein mgr1-ag). [swissprot;acc:p08865] 12842.5 11977.8 1.07219
1 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] 243.588 268.632 1.10281
299 0 3 beta-hydroxysteroid dehydrogenase (fragments). [sptrembl;acc:q9udk8] 11512.3 12338.7 1.07178
1 calpain 1, large [catalytic] subunit (ec 3.4.22.17) (calcium-activated neutral proteinase) (canp) (mu-type) (mucanp) (micromolar-calpain). [swissprot;acc:p07384] 243.592 268.635 1.10281
300 0 camp-dependent protein kinase, gamma-catalytic subunit (ec 2.7.1.37) (pka c-gamma). [swissprot;acc:p22612] 8650.24 9270.49 1.0717
1 metalloprotease 1; metalloprotease 1 (pitrilysin family). [refseq;acc:nm_014889] 166.351 150.959 1.10196

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/