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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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 description Interaction Map Value Type Network Comparison Type Filtered green red network_comparison
Results: HTML CSV LaTeX Showing element 551 to 600 of 8289 in total
Value Type  : Ranked
Network Comparison Type  : Divided
Filtered  : 1
Rank
description
Interaction Map
green
red
network_comparison
276 20 kda nuclear cap binding protein (ncbp 20 kda subunit) (cbp20) (ncbp interacting protein 1) (nip1). [swissprot;acc:p52298] Low confidence 191.474 199.939 1.04421
60s ribosomal protein l32. [swissprot;acc:p02433] High confidence 266.969 241.13 1.10716
277 40s ribosomal protein s29. [swissprot;acc:p30054] 267.642 241.849 1.10665
cln3 protein (battenin) (batten disease protein). [swissprot;acc:q13286] Low confidence 202.965 211.912 1.04408
278 40s ribosomal protein s11. [swissprot;acc:p04643] High confidence 267.088 241.399 1.10642
asc-type amino acid transporter 1 (asc-1). [swissprot;acc:q9ns82] Low confidence 196.369 205.006 1.04398
279 histone acetyltransferase type b subunit 2 (retinoblastoma binding protein p46) (retinoblastoma-binding protein 7) (rbbp-7). [swissprot;acc:q16576] High confidence 228.42 252.644 1.10605
transcriptional repressor nac1. [refseq;acc:nm_052876] Low confidence 211.2 202.309 1.04395
280 lbp-9. [refseq;acc:nm_014553] 210.509 219.758 1.04394
metastasis-associated protein mta1. [swissprot;acc:q13330] High confidence 228.356 252.512 1.10578
281 60s ribosomal protein l17 (l23). [swissprot;acc:p18621] 267.335 241.808 1.10557
transcription factor cp2; transcription factor cp2, alpha globin. [refseq;acc:nm_005653] Low confidence 210.503 219.749 1.04392
282 alpha-amylase, salivary precursor (ec 3.2.1.1) (1,4-alpha-d-glucan glucanohydrolase). [swissprot;acc:p04745] 210.498 219.742 1.04391
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] High confidence 228.297 252.39 1.10553
283 60s ribosomal protein l11. [swissprot;acc:p39026] 267.346 241.828 1.10552
upstream binding protein 1 (lbp-1a). [refseq;acc:nm_014517] Low confidence 210.484 219.722 1.04389
284 crk-associated substrate (p130cas) (breast cancer anti-estrogen resistance 1 protein). [swissprot;acc:p56945] High confidence 203.235 224.657 1.10541
tankyrase 2 (ec 2.4.2.30) (tank2) (tankyrase ii) (tnks-2) (trf1- interacting ankyrin-related adp-ribose polymerase 2) (tankyrase-like protein) (tankyrase-related protein). [swissprot;acc:q9h2k2] Low confidence 205.692 214.675 1.04367
285 t-complex protein 1, delta subunit (tcp-1-delta) (cct-delta) (stimulator of tar rna binding). [swissprot;acc:p50991] High confidence 203.242 224.647 1.10532
transcription initiation factor tfiid 135 kda subunit (tafii-135) (tafii135) (tafii-130) (tafii130). [swissprot;acc:o00268] Low confidence 211.175 202.354 1.04359
286 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] High confidence 203.251 224.633 1.1052
transcription initiation factor tfiid 105 kda subunit (tafii-105) (tafii105) (fragment). [swissprot;acc:q92750] Low confidence 211.174 202.356 1.04358
287 40s ribosomal protein s4, y isoform 2. [swissprot;acc:q8td47] High confidence 266.079 240.758 1.10517
rgs19-interacting protein 1 (gaip c-terminus interacting protein gipc) (rgs-gaip interacting protein) (tax interaction protein 2) (tip-2). [swissprot;acc:o14908] Low confidence 201.397 210.132 1.04337
288 40s ribosomal protein s4, x isoform (single copy abundant mrna protein) (scr10). [swissprot;acc:p12750] High confidence 266.078 240.758 1.10517
small nuclear ribonucleoprotein sm d1 (snrnp core protein d1) (sm-d1) (sm-d autoantigen). [swissprot;acc:p13641] Low confidence 192.004 200.288 1.04314
289 hpaii tiny fragments locus 9c. [refseq;acc:nm_022727] High confidence 246.892 272.781 1.10486
kh domain-containing, rna-binding, signal transduction-associated protein 2; sam68-like mammalian protein 1. [refseq;acc:nm_152688] Low confidence 200.66 209.31 1.04311
290 lysosomal-associated transmembrane protein 4 beta; putative integral membrane transporter. [refseq;acc:nm_018407] 201.325 210 1.04309
ribonucleoside-diphosphate reductase m2 chain (ec 1.17.4.1) (ribonucleotide reductase small chain). [swissprot;acc:p31350] High confidence 210.064 231.969 1.10428
291 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
pl6 protein (placental protein 6). [swissprot;acc:q12893] Low confidence 201.322 209.995 1.04308
292 40s ribosomal protein s15a. [swissprot;acc:p39027] High confidence 266.414 241.411 1.10357
lysosomal-associated transmembrane protein 4a (golgi 4-transmembrane spanning transporter mtp). [swissprot;acc:q15012] Low confidence 201.322 209.995 1.04308
293 60s ribosomal protein l23 (l17). [swissprot;acc:p23131] High confidence 265.717 240.782 1.10356
probable calcium-transporting atpase kiaa0703 (ec 3.6.3.8). [swissprot;acc:o75185] Low confidence 209.763 218.785 1.04301
294 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] High confidence 265.717 240.782 1.10356
jagged 2 precursor (jagged2) (hj2). [swissprot;acc:q9y219] Low confidence 209.71 218.715 1.04294
295 multisynthetase complex auxiliary component p43 [contains: endothelial-monocyte activating polypeptide ii (emap-ii) (small inducible cytokine subfamily e member 1)]. [swissprot;acc:q12904] High confidence 202.423 223.273 1.103
myocyte-specific enhancer factor 2d. [swissprot;acc:q14814] Low confidence 209.709 218.713 1.04294
296 jagged 1 precursor (jagged1) (hj1). [swissprot;acc:p78504] 218.714
mitochondrial ribosomal protein l4 isoform a. [refseq;acc:nm_015956] High confidence 266.12 241.282 1.10294
297 60s ribosomal protein l7. [swissprot;acc:p18124] 259.984 235.727 1.1029
myocyte-specific enhancer factor 2c. [swissprot;acc:q06413] Low confidence 209.709 218.714 1.04294
298 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] High confidence 243.588 268.632 1.10281
myocyte-specific enhancer factor 2a (serum response factor-like protein 1). [swissprot;acc:q02078] Low confidence 209.71 218.715 1.04294
299 calpain 1, large [catalytic] subunit (ec 3.4.22.17) (calcium-activated neutral proteinase) (canp) (mu-type) (mucanp) (micromolar-calpain). [swissprot;acc:p07384] High confidence 243.592 268.635 1.10281
endoribonuclease dicer (ec 3.1.26.-) (helicase with rnase motif) (helicase-moi). [swissprot;acc:q9upy3] Low confidence 200.322 208.915 1.0429
300 calcium-transporting atpase type 2c, member 1 (ec 3.6.3.8) (atpase 2c1) (atp-dependent ca(2+) pump pmr1) (hussy-28). [swissprot;acc:p98194] 209.669 218.661 1.04289
metalloprotease 1; metalloprotease 1 (pitrilysin family). [refseq;acc:nm_014889] High confidence 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/