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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Gene Rank Network Comparison Type description Value Type Interaction Map Filtered green network_comparison red
Results: HTML CSV LaTeX Showing element 451 to 500 of 6456 in total
Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1
Rank
Network Comparison Type
description
green
network_comparison
red
226 Divided cartilage oligomeric matrix protein precursor (comp). [swissprot;acc:p49747] 269.238 1.12187 239.991
Subtracted protein transport protein sec61 alpha subunit isoform 1 (sec61 alpha- 1). [swissprot;acc:p38378] 266.673 24.52 242.153
227 Divided thrombospondin 3 precursor. [swissprot;acc:p49746] 269.234 1.12186 239.99
Subtracted methionine aminopeptidase 1 (ec 3.4.11.18) (metap 1) (map 1) (peptidase m 1). [swissprot;acc:p53582] 268.604 24.478 244.126
228 Divided sh2 domain containing 3c; novel sh2-containing protein 3; sh2 domain-containing 3c; likely ortholog of mouse cas/hef1-associated signal transducer. [refseq;acc:nm_005489] 202.088 1.12036 226.411
Subtracted methionine aminopeptidase 2 (ec 3.4.11.18) (metap 2) (peptidase m 2) (initiation factor 2 associated 67 kda glycoprotein) (p67) (p67eif2). [swissprot;acc:p50579] 268.604 24.478 244.126
229 Divided breast cancer antiestrogen resistance 3. [refseq;acc:nm_003567] 202.094 1.12028 226.401
Subtracted 60s ribosomal protein l3-like. [swissprot;acc:q92901] 266.663 24.468 242.195
230 Divided cysteine-rich protein 1 (crp1) (crp). [swissprot;acc:p21291] 267.915 1.11934 239.35
Subtracted protein translation factor sui1 homolog (sui1iso1). [swissprot;acc:p41567] 267.017 24.323 242.694
231 Divided likely ortholog of mouse shc sh2-domain binding protein 1. [refseq;acc:nm_024745] 267.881 1.11927 239.336
Subtracted sh2 domain containing 3c; novel sh2-containing protein 3; sh2 domain-containing 3c; likely ortholog of mouse cas/hef1-associated signal transducer. [refseq;acc:nm_005489] 202.088 24.323 226.411
232 Divided smooth muscle cell lim protein (cysteine-rich protein 2) (crp2) (lim-only protein 5). [swissprot;acc:q16527] 267.879 1.11926 239.336
Subtracted breast cancer antiestrogen resistance 3. [refseq;acc:nm_003567] 202.094 24.307 226.401
233 Divided lim domain protein, cardiac (muscle lim protein) (cysteine-rich protein 3) (crp3). [swissprot;acc:p50461] 267.842 1.11918 239.32
Subtracted 60s ribosomal protein l7. [swissprot;acc:p18124] 259.984 24.257 235.727
234 Divided chromatin accessibility complex protein 1 (chrac-1) (chrac-15) (huchrac15) (dna polymerase epsilon subunit p15). [swissprot;acc:q9nrg0] 256.835 1.11905 287.41
Subtracted 40s ribosomal protein s23. [swissprot;acc:p39028] 268.195 24.251 243.944
235 Divided phenylalanine-4-hydroxylase (ec 1.14.16.1) (pah) (phe-4- monooxygenase). [swissprot;acc:p00439] 254.15 1.11785 227.357
Subtracted 28s ribosomal protein s12, mitochondrial precursor (mpr-s12) (mt- rps12). [swissprot;acc:o15235] 268.195 24.251 243.944
236 Divided pp3111 protein. [refseq;acc:nm_022156] 254.15 1.11785 227.357
Subtracted histone acetyltransferase type b subunit 2 (retinoblastoma binding protein p46) (retinoblastoma-binding protein 7) (rbbp-7). [swissprot;acc:q16576] 228.42 24.224 252.644
237 Divided syntaxin 18. [swissprot;acc:q9p2w9] 254.15 1.11785 227.357
Subtracted mitochondrial 60s ribosomal protein l3 (l3mt). [swissprot;acc:p09001] 266.18 24.169 242.011
238 Divided rd protein. [swissprot;acc:p18615] 254.15 1.11785 227.357
Subtracted metastasis-associated protein mta1. [swissprot;acc:q13330] 228.356 24.156 252.512
239 Divided glutathione transferase omega 1 (ec 2.5.1.18) (gsto 1-1). [swissprot;acc:p78417] 254.15 1.11785 227.357
Subtracted dna-directed rna polymerase ii largest subunit (ec 2.7.7.6) (rpb1). [swissprot;acc:p24928] 267.962 24.145 243.817
240 Divided androgen-induced 1; cgi-103 protein; androgen induced protein. [refseq;acc:nm_016108] 254.15 1.11785 227.357
Subtracted 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 24.093 252.39
241 Divided atp synthase b chain, mitochondrial precursor (ec 3.6.3.14). [swissprot;acc:p24539] 254.15 1.11785 227.357
Subtracted epithelial-cadherin precursor (e-cadherin) (uvomorulin) (cadherin-1) (cam 120/80). [swissprot;acc:p12830] 265.96 24.068 241.892
242 Divided j domain containing protein 1. [swissprot;acc:q9ukb3] 254.15 1.11785 227.357
Subtracted c367g8.3 (novel protein similar to rpl23a (60s ribosomal protein l23a)) (60s ribosomal protein l23a like). [sptrembl;acc:q9br02] 265.959 24.067 241.892
243 Divided sorting nexin 13 (rgs domain- and phox domain-containing protein) (rgs-px1). [swissprot;acc:q9y5w8] 254.15 1.11785 227.357
Subtracted 60s ribosomal protein l23a. [swissprot;acc:p29316] 265.945 24.061 241.884
244 Divided ba127l20.1 (novel glutathione-s-transferase). [sptrembl;acc:q9h4y5] 254.15 1.11785 227.357
Subtracted 60s ribosomal protein l5. [swissprot;acc:p46777] 265.924 24.025 241.899
245 Divided small nuclear ribonucleoprotein sm d3 (snrnp core protein d3) (sm-d3). [swissprot;acc:p43331] 202.333 1.11751 226.109
Subtracted 60s ribosomal protein l19. [swissprot;acc:p14118] 264.729 23.999 240.73
246 Divided eukaryotic translation initiation factor 4 gamma, 3. [refseq;acc:nm_003760] 212.363 1.11748 237.312
Subtracted 60s ribosomal protein l12 like protein. [sptrembl;acc:o60886] 267.528 23.945 243.583
247 Divided rna-binding protein. [refseq;acc:nm_019027] 212.41 1.11719 237.302
Subtracted 60s ribosomal protein l12. [swissprot;acc:p30050] 267.527 23.944 243.583
248 Divided apobec-1 complementation factor isoform 1; apobec-1 stimulating protein; apo-b rna editing protein. [refseq;acc:nm_014576] 212.41 1.11719 237.302
Subtracted dj999l4.1 (novel protein similar to ribosomal protein l12 (rpl12)). [sptrembl;acc:q9nq02] 267.527 23.944 243.583
249 Divided ns1-associated protein 1. [refseq;acc:nm_006372] 212.41 1.11719 237.302
Subtracted small nuclear ribonucleoprotein sm d3 (snrnp core protein d3) (sm-d3). [swissprot;acc:p43331] 202.333 23.776 226.109
250 Divided heterogeneous nuclear ribonucleoprotein r (hnrnp r). [swissprot;acc:o43390] 212.41 1.11719 237.302
Subtracted pallidin; pallid (mouse) homolog, pallidin. [refseq;acc:nm_012388] 186.95 23.743 210.693

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/