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 Network Comparison Type Hugo description Value Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 2501 to 2550 of 8289 in total
Network Comparison Type  : Divided
Value Type  : Ranked
Filtered  : 1
Rank
Hugo
description
Interaction Map
red
green
network_comparison
1251 ILK integrin-linked protein kinase 1 (ec 2.7.1.-) (ilk-1) (59 kda serine/threonine protein kinase) (p59ilk). [swissprot;acc:q13418] High confidence 219.354 224.7 1.02437
ZIC2 zinc finger protein zic 2 (zinc finger protein of the cerebellum 2). [swissprot;acc:o95409] Low confidence 204.937 200.402 1.02263
1252 ELAVL2 elav-like protein 2 (hu-antigen b) (hub) (elav-like neuronal protein 1) (nervous system-specific rna binding protein hel-n1). [swissprot;acc:q12926] 202.261 197.788 1.02262
STARD4 star-related lipid transfer protein 4 (stard4) (start domain- containing protein 4). [swissprot;acc:q96dr4] High confidence 219.354 224.7 1.02437
1253 RSU1 ras suppressor protein 1 (rsu-1) (rsp-1). [swissprot;acc:q15404]
STX18 syntaxin 18. [swissprot;acc:q9p2w9] Low confidence 204.026 199.515 1.02261
1254 AIG1 androgen-induced 1; cgi-103 protein; androgen induced protein. [refseq;acc:nm_016108]
G3BP1 ras-gtpase-activating protein binding protein 1 (gap sh3-domain binding protein 1) (g3bp-1). [swissprot;acc:q13283] High confidence 219.354 224.7 1.02437
1255 G3BP2 ras-gtpase-activating protein binding protein 2 (gap sh3-domain binding protein 2) (g3bp-2). [swissprot;acc:q9un86]
PBLD mawd binding protein (unknown protein 32 from 2d-page of liver tissue). [swissprot;acc:p30039] Low confidence 185.205 181.112 1.0226
1256 no value keratin associated protein 1-3; keratin associated protein 1.3. [refseq;acc:nm_030966] High confidence 219.354 224.699 1.02437
ACVR1B serine/threonine-protein kinase receptor r2 precursor (ec 2.7.1.37) (skr2) (activin receptor-like kinase 4) (alk-4) (actr-ib). [swissprot;acc:p36896] Low confidence 204.05 199.543 1.02259
1257 ACVR1C activin a receptor, type ic; activin receptor-like kinase 7. [refseq;acc:nm_145259]
ESPNP espin. [refseq;acc:nm_031475] High confidence 219.354 224.7 1.02437
1258 CYP2D6 cytochrome p450 2d6 (ec 1.14.14.1) (cypiid6) (p450-db1) (debrisoquine 4-hydroxylase). [swissprot;acc:p10635]
TGFBR1 tgf-beta receptor type i precursor (ec 2.7.1.37) (tgfr-1) (tgf-beta type i receptor) (serine/threonine-protein kinase receptor r4) (skr4) (activin receptor-like kinase 5) (alk-5). [swissprot;acc:p36897] Low confidence 204.05 199.545 1.02258
1259 PIGZ smp3 mannosyltransferase. [refseq;acc:nm_025163] 202.715 198.24 1.02257
PLEKHC1 pleckstrin homology domain containing, family c (with ferm domain) member 1; mitogen inducible 2; kindlin 2. [refseq;acc:nm_006832] High confidence 219.354 224.7 1.02437
1260 COX10 protoheme ix farnesyltransferase, mitochondrial precursor (ec 2.5.1.-) (heme o synthase). [swissprot;acc:q12887] Low confidence 199.952 195.538 1.02257
LIMS2 lim and senescent cell antigen-like domains 2; ilk-binding protein. [refseq;acc:nm_017980] High confidence 219.354 224.7 1.02437
1261 no value succinate dehydrogenase [ubiquinone] cytochrome b small subunit, mitochondrial precursor (cybs) (succinate-ubiquinone reductase membrane anchor subunit) (qps2) (cii-4) (succinate dehydrogenase complex subunit d) (succinate-ubiquinone oxidoreductase cytochrome b small subunit). [swissprot;acc:o14521] Low confidence 203.503 199.013 1.02256
DRD4 d(4) dopamine receptor (d(2c) dopamine receptor). [swissprot;acc:p21917] High confidence 219.354 224.7 1.02437
1262 KATNB1 katanin p80 subunit b 1; katanin (80 kda); katanin p80 (wd40-containing) subunit b 1. [refseq;acc:nm_005886] Low confidence 203.846 199.351 1.02255
KRTAP9-8 keratin associated protein 9.2. [refseq;acc:nm_031961] High confidence 219.353 224.678 1.02428
1263 MAPK11 mitogen-activated protein kinase 12 (ec 2.7.1.37) (extracellular signal-regulated kinase 6) (erk-6) (erk5) (stress-activated protein kinase-3) (mitogen-activated protein kinase p38 gamma) (map kinase p38 gamma). [swissprot;acc:p53778] 171.231 167.177 1.02425
SNW1 nuclear protein skip (ski-interacting protein) (snw1 protein) (nuclear receptor coactivator ncoa-62). [swissprot;acc:q13573] Low confidence 196.724 192.389 1.02253
1264 RAB11B ras-related protein rab-11b (gtp-binding protein ypt3). [swissprot;acc:q15907] 203.934 199.445 1.02251
SPHK1 sphingosine kinase 1 (ec 2.7.1.-) (sk 1) (spk 1). [swissprot;acc:q9nya1] High confidence 171.231 167.177 1.02425
1265 DAGLB kccr13l. [refseq;acc:nm_139179] Low confidence 203.303 198.827 1.02251
DPAGT1 udp-n-acetylglucosamine--dolichyl-phosphate n- acetylglucosaminephosphotransferase (ec 2.7.8.15) (gpt) (g1pt) (n-acetylglucosamine-1-phosphate transferase) (glcnac-1-p transferase). [swissprot;acc:q9h3h5] High confidence 171.231 167.177 1.02425
1266 DLC1 rho-gtpase-activating protein 7 (rho-type gtpase-activating protein 7) (deleted in liver cancer 1 protein) (dlc-1) (hp protein) (star-related lipid transfer protein 12) (stard12) (start domain-containing protein 12). [swissprot;acc:q96qb1]
FDXR nadph:adrenodoxin oxidoreductase, mitochondrial precursor (ec 1.18.1.2) (adrenodoxin reductase) (ar) (ferredoxin-nadp(+) reductase). [swissprot;acc:p22570] Low confidence 201.264 196.834 1.02251
1267 HIST1H2BA testis-specific histone h2b; h2b histone family, member u, (testis-specific). [refseq;acc:nm_170610] 203.672 199.189
MAPKAPK2 map kinase-activated protein kinase 2 (ec 2.7.1.-) (mapk-activated protein kinase 2) (mapkap kinase 2) (mapkapk-2). [swissprot;acc:p49137] High confidence 171.231 167.177 1.02425
1268 CHRNA6 neuronal acetylcholine receptor protein, alpha-6 chain precursor. [swissprot;acc:q15825]
HARS2 histidyl-trna synthetase homolog (ec 6.1.1.21) (histidine--trna ligase homolog) (hisrs). [swissprot;acc:p49590] Low confidence 192.905 188.658 1.02251
1269 no value ectonucleoside triphosphate diphosphohydrolase 6 (ec 3.6.1.6) (ntpdase6) (cd39 antigen-like 2). [swissprot;acc:o75354] 196.818 192.485
ISCU nitrogen fixation cluster-like. [refseq;acc:nm_014301] High confidence 171.231 167.177 1.02425
1270 CYP2D6 cytochrome p450 2d6 (ec 1.14.14.1) (cypiid6) (p450-db1) (debrisoquine 4-hydroxylase). [swissprot;acc:p10635] Low confidence 201.858 197.415 1.02251
STARD13 star-related lipid transfer protein 13 (stard13) (start domain- containing protein 13) (46h23.2). [swissprot;acc:q9y3m8] High confidence 171.231 167.177 1.02425
1271 HARS histidyl-trna synthetase (ec 6.1.1.21) (histidine--trna ligase) (hisrs). [swissprot;acc:p12081] Low confidence 192.956 188.71 1.0225
STARD8 star-related lipid transfer protein 8 (stard8) (start domain- containing protein 8). [swissprot;acc:q92502] High confidence 171.231 167.177 1.02425
1272 CHRNA2 neuronal acetylcholine receptor protein, alpha-2 chain precursor. [swissprot;acc:q15822]
UGCG ceramide glucosyltransferase (ec 2.4.1.80) (glucosylceramide synthase) (gcs) (udp-glucose:n-acylsphingosine d-glucosyltransferase) (glct-1). [swissprot;acc:q16739] Low confidence 192.933 188.687 1.0225
1273 MAPKAPK3 mitogen-activated protein kinase-activated protein kinase 3; mapkap kinase 3. [refseq;acc:nm_004635] High confidence 171.231 167.177 1.02425
PTPN2 protein-tyrosine phosphatase, non-receptor type 2 (ec 3.1.3.48) (t- cell protein-tyrosine phosphatase) (tcptp). [swissprot;acc:p17706] Low confidence 200.744 196.329 1.02249
1274 CRY1 cryptochrome 1 (photolyase-like). [refseq;acc:nm_004075] 193.539 189.282
MAPK14 mitogen-activated protein kinase 14 (ec 2.7.1.37) (mitogen-activated protein kinase p38alpha) (map kinase p38alpha) (cytokine suppressive anti-inflammatory drug binding protein) (csaid binding protein) (csbp) (max-interacting protein 2) (map kinase mxi2) (sapk2a). [swissprot;acc:q16539] High confidence 171.231 167.177 1.02425
1275 CHRNA4 neuronal acetylcholine receptor protein, alpha-4 chain precursor. [swissprot;acc:p43681]
HIST2H2BA histone h2b.q (h2b/q) (h2b-gl105). [swissprot;acc:q16778] Low confidence 203.671 199.194 1.02248

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
- Hugo is the HGNC identifier if it exists
- 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/