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.


Navigation/Query Panel:
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 Interaction Map description 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
Interaction Map
description
green
red
network_comparison
276 High confidence 60s ribosomal protein l32. [swissprot;acc:p02433] 266.969 241.13 1.10716
Low confidence 20 kda nuclear cap binding protein (ncbp 20 kda subunit) (cbp20) (ncbp interacting protein 1) (nip1). [swissprot;acc:p52298] 191.474 199.939 1.04421
277 High confidence 40s ribosomal protein s29. [swissprot;acc:p30054] 267.642 241.849 1.10665
Low confidence cln3 protein (battenin) (batten disease protein). [swissprot;acc:q13286] 202.965 211.912 1.04408
278 High confidence 40s ribosomal protein s11. [swissprot;acc:p04643] 267.088 241.399 1.10642
Low confidence asc-type amino acid transporter 1 (asc-1). [swissprot;acc:q9ns82] 196.369 205.006 1.04398
279 High confidence 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
Low confidence transcriptional repressor nac1. [refseq;acc:nm_052876] 211.2 202.309 1.04395
280 High confidence metastasis-associated protein mta1. [swissprot;acc:q13330] 228.356 252.512 1.10578
Low confidence lbp-9. [refseq;acc:nm_014553] 210.509 219.758 1.04394
281 High confidence 60s ribosomal protein l17 (l23). [swissprot;acc:p18621] 267.335 241.808 1.10557
Low confidence transcription factor cp2; transcription factor cp2, alpha globin. [refseq;acc:nm_005653] 210.503 219.749 1.04392
282 High confidence 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
Low confidence alpha-amylase, salivary precursor (ec 3.2.1.1) (1,4-alpha-d-glucan glucanohydrolase). [swissprot;acc:p04745] 210.498 219.742 1.04391
283 High confidence 60s ribosomal protein l11. [swissprot;acc:p39026] 267.346 241.828 1.10552
Low confidence upstream binding protein 1 (lbp-1a). [refseq;acc:nm_014517] 210.484 219.722 1.04389
284 High confidence crk-associated substrate (p130cas) (breast cancer anti-estrogen resistance 1 protein). [swissprot;acc:p56945] 203.235 224.657 1.10541
Low confidence 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] 205.692 214.675 1.04367
285 High confidence 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
Low confidence transcription initiation factor tfiid 135 kda subunit (tafii-135) (tafii135) (tafii-130) (tafii130). [swissprot;acc:o00268] 211.175 202.354 1.04359
286 High confidence 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
Low confidence transcription initiation factor tfiid 105 kda subunit (tafii-105) (tafii105) (fragment). [swissprot;acc:q92750] 211.174 202.356 1.04358
287 High confidence 40s ribosomal protein s4, y isoform 2. [swissprot;acc:q8td47] 266.079 240.758 1.10517
Low confidence rgs19-interacting protein 1 (gaip c-terminus interacting protein gipc) (rgs-gaip interacting protein) (tax interaction protein 2) (tip-2). [swissprot;acc:o14908] 201.397 210.132 1.04337
288 High confidence 40s ribosomal protein s4, x isoform (single copy abundant mrna protein) (scr10). [swissprot;acc:p12750] 266.078 240.758 1.10517
Low confidence small nuclear ribonucleoprotein sm d1 (snrnp core protein d1) (sm-d1) (sm-d autoantigen). [swissprot;acc:p13641] 192.004 200.288 1.04314
289 High confidence hpaii tiny fragments locus 9c. [refseq;acc:nm_022727] 246.892 272.781 1.10486
Low confidence kh domain-containing, rna-binding, signal transduction-associated protein 2; sam68-like mammalian protein 1. [refseq;acc:nm_152688] 200.66 209.31 1.04311
290 High confidence ribonucleoside-diphosphate reductase m2 chain (ec 1.17.4.1) (ribonucleotide reductase small chain). [swissprot;acc:p31350] 210.064 231.969 1.10428
Low confidence lysosomal-associated transmembrane protein 4 beta; putative integral membrane transporter. [refseq;acc:nm_018407] 201.325 210 1.04309
291 High confidence 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
Low confidence pl6 protein (placental protein 6). [swissprot;acc:q12893] 201.322 209.995 1.04308
292 High confidence 40s ribosomal protein s15a. [swissprot;acc:p39027] 266.414 241.411 1.10357
Low confidence lysosomal-associated transmembrane protein 4a (golgi 4-transmembrane spanning transporter mtp). [swissprot;acc:q15012] 201.322 209.995 1.04308
293 High confidence 60s ribosomal protein l23 (l17). [swissprot;acc:p23131] 265.717 240.782 1.10356
Low confidence probable calcium-transporting atpase kiaa0703 (ec 3.6.3.8). [swissprot;acc:o75185] 209.763 218.785 1.04301
294 High confidence 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
Low confidence jagged 2 precursor (jagged2) (hj2). [swissprot;acc:q9y219] 209.71 218.715 1.04294
295 High confidence 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
Low confidence myocyte-specific enhancer factor 2d. [swissprot;acc:q14814] 209.709 218.713 1.04294
296 High confidence mitochondrial ribosomal protein l4 isoform a. [refseq;acc:nm_015956] 266.12 241.282 1.10294
Low confidence jagged 1 precursor (jagged1) (hj1). [swissprot;acc:p78504] 209.709 218.714 1.04294
297 High confidence 60s ribosomal protein l7. [swissprot;acc:p18124] 259.984 235.727 1.1029
Low confidence myocyte-specific enhancer factor 2c. [swissprot;acc:q06413] 209.709 218.714 1.04294
298 High confidence 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
Low confidence myocyte-specific enhancer factor 2a (serum response factor-like protein 1). [swissprot;acc:q02078] 209.71 218.715 1.04294
299 High confidence 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
Low confidence endoribonuclease dicer (ec 3.1.26.-) (helicase with rnase motif) (helicase-moi). [swissprot;acc:q9upy3] 200.322 208.915 1.0429
300 High confidence metalloprotease 1; metalloprotease 1 (pitrilysin family). [refseq;acc:nm_014889] 166.351 150.959 1.10196
Low confidence 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

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/