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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Value Type Rank Gene Network Comparison Type Interaction Map green description red network_comparison Filtered
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
green
description
red
network_comparison
226 Divided 269.238 cartilage oligomeric matrix protein precursor (comp). [swissprot;acc:p49747] 239.991 1.12187
Subtracted 266.673 protein transport protein sec61 alpha subunit isoform 1 (sec61 alpha- 1). [swissprot;acc:p38378] 242.153 24.52
227 Divided 269.234 thrombospondin 3 precursor. [swissprot;acc:p49746] 239.99 1.12186
Subtracted 268.604 methionine aminopeptidase 1 (ec 3.4.11.18) (metap 1) (map 1) (peptidase m 1). [swissprot;acc:p53582] 244.126 24.478
228 Divided 202.088 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] 226.411 1.12036
Subtracted 268.604 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] 244.126 24.478
229 Divided 202.094 breast cancer antiestrogen resistance 3. [refseq;acc:nm_003567] 226.401 1.12028
Subtracted 266.663 60s ribosomal protein l3-like. [swissprot;acc:q92901] 242.195 24.468
230 Divided 267.915 cysteine-rich protein 1 (crp1) (crp). [swissprot;acc:p21291] 239.35 1.11934
Subtracted 267.017 protein translation factor sui1 homolog (sui1iso1). [swissprot;acc:p41567] 242.694 24.323
231 Divided 267.881 likely ortholog of mouse shc sh2-domain binding protein 1. [refseq;acc:nm_024745] 239.336 1.11927
Subtracted 202.088 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] 226.411 24.323
232 Divided 267.879 smooth muscle cell lim protein (cysteine-rich protein 2) (crp2) (lim-only protein 5). [swissprot;acc:q16527] 239.336 1.11926
Subtracted 202.094 breast cancer antiestrogen resistance 3. [refseq;acc:nm_003567] 226.401 24.307
233 Divided 267.842 lim domain protein, cardiac (muscle lim protein) (cysteine-rich protein 3) (crp3). [swissprot;acc:p50461] 239.32 1.11918
Subtracted 259.984 60s ribosomal protein l7. [swissprot;acc:p18124] 235.727 24.257
234 Divided 256.835 chromatin accessibility complex protein 1 (chrac-1) (chrac-15) (huchrac15) (dna polymerase epsilon subunit p15). [swissprot;acc:q9nrg0] 287.41 1.11905
Subtracted 268.195 40s ribosomal protein s23. [swissprot;acc:p39028] 243.944 24.251
235 Divided 254.15 phenylalanine-4-hydroxylase (ec 1.14.16.1) (pah) (phe-4- monooxygenase). [swissprot;acc:p00439] 227.357 1.11785
Subtracted 268.195 28s ribosomal protein s12, mitochondrial precursor (mpr-s12) (mt- rps12). [swissprot;acc:o15235] 243.944 24.251
236 Divided 254.15 pp3111 protein. [refseq;acc:nm_022156] 227.357 1.11785
Subtracted 228.42 histone acetyltransferase type b subunit 2 (retinoblastoma binding protein p46) (retinoblastoma-binding protein 7) (rbbp-7). [swissprot;acc:q16576] 252.644 24.224
237 Divided 254.15 syntaxin 18. [swissprot;acc:q9p2w9] 227.357 1.11785
Subtracted 266.18 mitochondrial 60s ribosomal protein l3 (l3mt). [swissprot;acc:p09001] 242.011 24.169
238 Divided 254.15 rd protein. [swissprot;acc:p18615] 227.357 1.11785
Subtracted 228.356 metastasis-associated protein mta1. [swissprot;acc:q13330] 252.512 24.156
239 Divided 254.15 glutathione transferase omega 1 (ec 2.5.1.18) (gsto 1-1). [swissprot;acc:p78417] 227.357 1.11785
Subtracted 267.962 dna-directed rna polymerase ii largest subunit (ec 2.7.7.6) (rpb1). [swissprot;acc:p24928] 243.817 24.145
240 Divided 254.15 androgen-induced 1; cgi-103 protein; androgen induced protein. [refseq;acc:nm_016108] 227.357 1.11785
Subtracted 228.297 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] 252.39 24.093
241 Divided 254.15 atp synthase b chain, mitochondrial precursor (ec 3.6.3.14). [swissprot;acc:p24539] 227.357 1.11785
Subtracted 265.96 epithelial-cadherin precursor (e-cadherin) (uvomorulin) (cadherin-1) (cam 120/80). [swissprot;acc:p12830] 241.892 24.068
242 Divided 254.15 j domain containing protein 1. [swissprot;acc:q9ukb3] 227.357 1.11785
Subtracted 265.959 c367g8.3 (novel protein similar to rpl23a (60s ribosomal protein l23a)) (60s ribosomal protein l23a like). [sptrembl;acc:q9br02] 241.892 24.067
243 Divided 254.15 sorting nexin 13 (rgs domain- and phox domain-containing protein) (rgs-px1). [swissprot;acc:q9y5w8] 227.357 1.11785
Subtracted 265.945 60s ribosomal protein l23a. [swissprot;acc:p29316] 241.884 24.061
244 Divided 254.15 ba127l20.1 (novel glutathione-s-transferase). [sptrembl;acc:q9h4y5] 227.357 1.11785
Subtracted 265.924 60s ribosomal protein l5. [swissprot;acc:p46777] 241.899 24.025
245 Divided 202.333 small nuclear ribonucleoprotein sm d3 (snrnp core protein d3) (sm-d3). [swissprot;acc:p43331] 226.109 1.11751
Subtracted 264.729 60s ribosomal protein l19. [swissprot;acc:p14118] 240.73 23.999
246 Divided 212.363 eukaryotic translation initiation factor 4 gamma, 3. [refseq;acc:nm_003760] 237.312 1.11748
Subtracted 267.528 60s ribosomal protein l12 like protein. [sptrembl;acc:o60886] 243.583 23.945
247 Divided 212.41 rna-binding protein. [refseq;acc:nm_019027] 237.302 1.11719
Subtracted 267.527 60s ribosomal protein l12. [swissprot;acc:p30050] 243.583 23.944
248 Divided 212.41 apobec-1 complementation factor isoform 1; apobec-1 stimulating protein; apo-b rna editing protein. [refseq;acc:nm_014576] 237.302 1.11719
Subtracted 267.527 dj999l4.1 (novel protein similar to ribosomal protein l12 (rpl12)). [sptrembl;acc:q9nq02] 243.583 23.944
249 Divided 212.41 ns1-associated protein 1. [refseq;acc:nm_006372] 237.302 1.11719
Subtracted 202.333 small nuclear ribonucleoprotein sm d3 (snrnp core protein d3) (sm-d3). [swissprot;acc:p43331] 226.109 23.776
250 Divided 212.41 heterogeneous nuclear ribonucleoprotein r (hnrnp r). [swissprot;acc:o43390] 237.302 1.11719
Subtracted 186.95 pallidin; pallid (mouse) homolog, pallidin. [refseq;acc:nm_012388] 210.693 23.743

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/