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 description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 575 to 624 of 8289 in total
Value Type  : Ranked
Network Comparison Type  : Divided
Filtered  : 1
Rank
description
Interaction Map
red
green
network_comparison
288 40s ribosomal protein s4, x isoform (single copy abundant mrna protein) (scr10). [swissprot;acc:p12750] High confidence 240.758 266.078 1.10517
small nuclear ribonucleoprotein sm d1 (snrnp core protein d1) (sm-d1) (sm-d autoantigen). [swissprot;acc:p13641] Low confidence 200.288 192.004 1.04314
289 hpaii tiny fragments locus 9c. [refseq;acc:nm_022727] High confidence 272.781 246.892 1.10486
kh domain-containing, rna-binding, signal transduction-associated protein 2; sam68-like mammalian protein 1. [refseq;acc:nm_152688] Low confidence 209.31 200.66 1.04311
290 lysosomal-associated transmembrane protein 4 beta; putative integral membrane transporter. [refseq;acc:nm_018407] 210 201.325 1.04309
ribonucleoside-diphosphate reductase m2 chain (ec 1.17.4.1) (ribonucleotide reductase small chain). [swissprot;acc:p31350] High confidence 231.969 210.064 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] 251.679 228.037 1.10368
pl6 protein (placental protein 6). [swissprot;acc:q12893] Low confidence 209.995 201.322 1.04308
292 40s ribosomal protein s15a. [swissprot;acc:p39027] High confidence 241.411 266.414 1.10357
lysosomal-associated transmembrane protein 4a (golgi 4-transmembrane spanning transporter mtp). [swissprot;acc:q15012] Low confidence 209.995 201.322 1.04308
293 60s ribosomal protein l23 (l17). [swissprot;acc:p23131] High confidence 240.782 265.717 1.10356
probable calcium-transporting atpase kiaa0703 (ec 3.6.3.8). [swissprot;acc:o75185] Low confidence 218.785 209.763 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 240.782 265.717 1.10356
jagged 2 precursor (jagged2) (hj2). [swissprot;acc:q9y219] Low confidence 218.715 209.71 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 223.273 202.423 1.103
myocyte-specific enhancer factor 2d. [swissprot;acc:q14814] Low confidence 218.713 209.709 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 241.282 266.12 1.10294
297 60s ribosomal protein l7. [swissprot;acc:p18124] 235.727 259.984 1.1029
myocyte-specific enhancer factor 2c. [swissprot;acc:q06413] Low confidence 218.714 209.709 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 268.632 243.588 1.10281
myocyte-specific enhancer factor 2a (serum response factor-like protein 1). [swissprot;acc:q02078] Low confidence 218.715 209.71 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 268.635 243.592 1.10281
endoribonuclease dicer (ec 3.1.26.-) (helicase with rnase motif) (helicase-moi). [swissprot;acc:q9upy3] Low confidence 208.915 200.322 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] 218.661 209.669 1.04289
metalloprotease 1; metalloprotease 1 (pitrilysin family). [refseq;acc:nm_014889] High confidence 150.959 166.351 1.10196
301 beta-1,4 mannosyltransferase. [refseq;acc:nm_019109] 150.982 166.372 1.10193
large neutral amino acids transporter small subunit 2 (l-type amino acid transporter 2) (hlat2). [swissprot;acc:q9uhi5] Low confidence 205.154 196.72 1.04287
302 60s ribosomal protein l26. [swissprot;acc:q02877] High confidence 242.326 267.008 1.10185
xenotropic and polytropic retrovirus receptor. [refseq;acc:nm_004736] Low confidence 209.12 200.548 1.04274
303 60s ribosomal protein l35. [swissprot;acc:p42766] High confidence 242.333 266.999 1.10179
homer, neuronal immediate early gene, 3. [refseq;acc:nm_004838] Low confidence 210.057 201.45 1.04273
304 40s ribosomal protein s15 (rig protein). [swissprot;acc:p11174] High confidence 242.339 266.986 1.1017
kh domain containing, rna binding, signal transduction associated 1; gap-associated tyrosine phosphoprotein p62 (sam68). [refseq;acc:nm_006559] Low confidence 209.232 200.662 1.04271
305 homer, neuronal immediate early gene, 1b. [refseq;acc:nm_004272] 210.05 201.454 1.04267
mitochondrial ribosomal protein l2. [refseq;acc:nm_015950] High confidence 242.339 266.986 1.1017
306 60s ribosomal protein l14 (cag-isl 7). [swissprot;acc:p50914] 242.153 266.673 1.10126
small nuclear ribonucleoprotein f (snrnp-f) (sm protein f) (sm-f) (smf). [swissprot;acc:q15356] Low confidence 202.122 193.867 1.04258
307 phosphorylase b kinase gamma catalytic chain, skeletal muscle isoform (ec 2.7.1.38) (phosphorylase kinase gamma subunit 1). [swissprot;acc:q16816] 217.957 227.209 1.04245
serine racemase (ec 5.1.1.-). [swissprot;acc:q9gzt4] High confidence 242.153 266.673 1.10126
308 60s ribosomal protein l34. [swissprot;acc:p49207]
homer, neuronal immediate early gene, 2; homer homolog 3 (drosophila). [refseq;acc:nm_004839] Low confidence 210.018 201.475 1.0424
309 microsomal signal peptidase 18 kda subunit (ec 3.4.-.-) (spase 18 kda subunit) (spc18) (endopeptidase sp18). [swissprot;acc:p21378] 200.213 192.103 1.04222
protein transport protein sec61 alpha subunit isoform 2 (sec61 alpha- 2). [swissprot;acc:q9y2r3] High confidence 242.153 266.673 1.10126
310 nadh-ubiquinone oxidoreductase 39 kda subunit, mitochondrial precursor (ec 1.6.5.3) (ec 1.6.99.3) (complex i-39kd) (ci-39kd). [swissprot;acc:q16795] Low confidence 205.75 197.484 1.04186
protein transport protein sec61 alpha subunit isoform 1 (sec61 alpha- 1). [swissprot;acc:p38378] High confidence 242.153 266.673 1.10126
311 protein translation factor sui1 homolog gc20. [swissprot;acc:o60739] 242.627 267.151 1.10108
ubiquitin-activating enzyme e1c (uba3 homolog, yeast); ubiquitin-activating enzyme e1c (homologous to yeast uba3). [refseq;acc:nm_003968] Low confidence 192.088 184.374 1.04184
312 60s ribosomal protein l3-like. [swissprot;acc:q92901] High confidence 242.195 266.663 1.10103
u2 small nuclear ribonucleoprotein a' (u2 snrnp-a'). [swissprot;acc:p09661] Low confidence 202.051 193.937 1.04184

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/