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.


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 351 to 400 of 8289 in total
Value Type  : Ranked
Network Comparison Type  : Divided
Filtered  : 1
Rank
description
Interaction Map
red
green
network_comparison
176 dna polymerase epsilon p12 subunit (dna polymerase epsilon subunit 4). [swissprot;acc:q9nr33] High confidence 275.754 235.908 1.1689
tumor endothelial marker 6; thyroid specific ptb domain protein; tensin 3. [refseq;acc:nm_022748] Low confidence 219.336 207.703 1.05601
177 dj820b18.1 (similar to nuclear cap binding protein) (fragment). [sptrembl;acc:q8wwk2] High confidence 229.406 196.695 1.1663
ribonuclease p protein subunit p20 (ec 3.1.26.5) (rnasep protein p20) (hpop7). [swissprot;acc:o75817] Low confidence 209.954 221.607 1.0555
178 3'(2'), 5'-bisphosphate nucleotidase 1; bisphosphate 3'-nucleotidase; bpntase; pap-inositol-1,4-phosphatase. [refseq;acc:nm_006085]
formin binding protein 3; fas-ligand associated factor 1; huntingtin-interacting protein a; ny-ren-6 antigen. [refseq;acc:nm_017892] High confidence 226.887 194.72 1.1652
179 60s ribosomal protein l6 (tax-responsive enhancer element binding protein 107) (taxreb107) (neoplasm-related protein c140). [swissprot;acc:q02878] Low confidence 209.954 221.607 1.0555
huntingtin-interacting protein hypa/fbp11 (fragment). [sptrembl;acc:o75404] High confidence 226.884 194.79 1.16476
180 protocadherin 16 precursor (cadherin 19) (cadherin fibroblast 1). [swissprot;acc:q96jq0] Low confidence 218.925 207.441 1.05536
tar dna-binding protein-43 (tdp-43). [swissprot;acc:q13148] High confidence 256.228 298.438 1.16474
181 associated molecule with the sh3 domain of stam (amsh) like protein. [refseq;acc:nm_020799] Low confidence 196.362 206.979 1.05407
b9 protein; likely ortholog of mouse endothelial precursor protein b9. [refseq;acc:nm_015681] High confidence 229.818 267.265 1.16294
182 histone acetyltransferase type b catalytic subunit (ec 2.3.1.48). [swissprot;acc:o14929] 277.546 240.461 1.15422
px serine/threonine kinase. [refseq;acc:nm_017771] Low confidence 196.372 206.947 1.05385
183 20 kda nuclear cap binding protein (ncbp 20 kda subunit) (cbp20) (ncbp interacting protein 1) (nip1). [swissprot;acc:p52298] High confidence 228.306 198.011 1.153
bromodomain adjacent to zinc finger domain protein 1a (atp-utilizing chromatin assembly and remodeling factor 1) (hacf1) (atp-dependent chromatin remodelling protein) (williams syndrome transcription factor-related chromatin remodeling factor 180) (wcrf180) (hwalp1) (chrac subunit acf1) (hspc317). [swissprot;acc:q9nrl2] Low confidence 196.372 206.947 1.05385
184 odd-skipped related 1; odz (odd oz/ten-m) related 1. [refseq;acc:nm_145260] High confidence 274.027 237.79 1.15239
testis specific, 10. [refseq;acc:nm_025244] Low confidence 196.373 206.946 1.05384
185 adiponectin receptor 2. [refseq;acc:nm_024551] High confidence 281.582 246.371 1.14292
f-actin capping protein alpha-2 subunit (capz alpha-2). [swissprot;acc:p47755] Low confidence 212.589 201.755 1.0537
186 associated molecule with the sh3 domain of stam. [refseq;acc:nm_006463] 196.381 206.921 1.05367
filamin b, beta (actin binding protein 278); beta filamin; filamin 1 (actin-binding protein-280)-like; filamin b, beta (actin-binding protein-278); filamin b, beta. [refseq;acc:nm_001457] High confidence 226.582 198.444 1.14179
187 rev1-like; rev1 protein; rev1 (yeast homolog)- like. [refseq;acc:nm_016316]
ribosomal protein s6 kinase-like 1. [refseq;acc:nm_031464] Low confidence 189.373 179.829 1.05307
188 protein arginine n-methyltransferase 1 (ec 2.1.1.-) (interferon receptor 1-bound protein 4). [swissprot;acc:q99873] High confidence 226.582 198.444 1.14179
ribosomal protein s6 kinase, 52kda, polypeptide 1; ribosomal protein s6 kinase, 52kd, polypeptide 1. [refseq;acc:nm_012424] Low confidence 189.45 179.944 1.05283
189 axonemal dynein light intermediate polypeptide 1 (inner dynein arm light chain, axonemal) (hp28). [swissprot;acc:o14645] 214.779 204.039 1.05264
protein arginine n-methyltransferase 4 (ec 2.1.1.-). [swissprot;acc:q9nr22] High confidence 226.582 198.444 1.14179
190 dimethylaniline monooxygenase [n-oxide forming] 5 (ec 1.14.13.8) (hepatic flavin-containing monooxygenase 5) (fmo 5) (dimethylaniline oxidase 5). [swissprot;acc:p49326] Low confidence 210.557 200.074 1.0524
u1 small nuclear ribonucleoprotein 70 kda (u1 snrnp 70 kda) (snrnp70) (u1-70k). [swissprot;acc:p08621] High confidence 226.582 198.444 1.14179
191 filamin a (alpha-filamin) (filamin 1) (endothelial actin-binding protein) (abp-280) (nonmuscle filamin). [swissprot;acc:p21333]
oligopeptide transporter, kidney isoform (peptide transporter 2) (kidney h+/peptide cotransporter) (solute carrier family 15, member 2). [swissprot;acc:q16348] Low confidence 201.43 191.43 1.05224
192 membrane-associated nucleic acid binding protein. [refseq;acc:nm_018835] 217.341 206.571 1.05214
musashi 2 isoform a. [refseq;acc:nm_138962] High confidence 227.491 199.458 1.14055
193 hbs1-like. [refseq;acc:nm_006620] Low confidence 206.166 216.913 1.05213
musashi 1. [refseq;acc:nm_002442] High confidence 227.491 199.458 1.14055
194 conserved oligomeric golgi complex subunit 5 (13s golgi transport complex 90 kda subunit) (gtc-90) (golgi transport complex 1). [swissprot;acc:q9up83] Low confidence 215.723 205.046 1.05207
nuclear protein ukp68. [refseq;acc:nm_024824] High confidence 227.491 199.458 1.14055
195 guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-7 subunit. [swissprot;acc:o60262] Low confidence 211.679 222.623 1.0517
huntingtin interacting protein c. [refseq;acc:nm_012272] High confidence 227.971 200.417 1.13748
196 forkhead box p4; fork head-related protein like a; winged-helix repressor foxp4. [refseq;acc:nm_138457] 263.215 231.407 1.13745
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-12 subunit. [swissprot;acc:q9ubi6] Low confidence 211.679 222.623 1.0517
197 60s ribosomal protein l27. [swissprot;acc:p08526] 211.912 201.556 1.05138
forkhead box protein p1 (hspc215). [swissprot;acc:q9h334] High confidence 263.215 231.407 1.13745
198 forkhead box protein p3 (zinc finger protein jm2) (scurfin). [swissprot;acc:q9bzs1] 263.191 231.394 1.13741
heat-shock 20 kda like-protein p20. [swissprot;acc:o14558] Low confidence 219.606 208.904 1.05123
199 alpha crystallin a chain. [swissprot;acc:p02489] 219.589 208.895 1.05119
palmitoyl-protein thioesterase 2 precursor (ec 3.1.2.22) (palmitoyl- protein hydrolase 2) (ppt-2) (g14). [swissprot;acc:q9umr5] High confidence 242.735 276.059 1.13729
200 alpha crystallin b chain (alpha(b)-crystallin) (rosenthal fiber component). [swissprot;acc:p02511] Low confidence 219.543 208.868 1.05111
egf-like-domain, multiple 7; neu1 protein. [refseq;acc:nm_016215] High confidence 242.718 276.018 1.1372

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/