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 Value Type Rank description Interaction Map Filtered Network Comparison Type green red network_comparison
Results: HTML CSV LaTeX Showing element 951 to 1000 of 38536 in total
Value Type  : Measured
Network Comparison Type  : Divided
Rank
description
Interaction Map
Filtered
green
red
network_comparison
238 protein phosphatase 1, regulatory subunit 7; sds22. [refseq;acc:nm_002712] High confidence 1 22440.4 27642.5 1.23182
zinc finger protein 415. [refseq;acc:nm_018355] Low confidence 0 1969.15 2352.12 1.19448
239 carboxypeptidase b precursor. [refseq;acc:nm_020361] High confidence 1 6265.8 7711.38 1.23071
dna fragmentation factor 40 kda subunit (ec 3.-.-.-) (dff-40) (caspase-activated deoxyribonuclease) (caspase-activated dnase) (cad) (caspase-activated nuclease) (cpan). [swissprot;acc:o76075] Low confidence 6872.38 6456.05 1.06449
guanine nucleotide-binding protein g(q), alpha subunit. [swissprot;acc:p50148] High confidence 0 434.366 382.142 1.13666
zinc finger protein 35 (zinc finger protein hf.10). [swissprot;acc:p13682] Low confidence 1969.29 2352.27 1.19448
240 mast cell carboxypeptidase a precursor (ec 3.4.17.1) (mc-cpa) (carboxypeptidase a3). [swissprot;acc:p15088] High confidence 1 6265.79 7711.36 1.23071
putative eukaryotic translation initiation factor 1a (eif-1a) (eif- 4c). [swissprot;acc:o75642] 0 1676.18 1475.83 1.13575
small nuclear ribonucleoprotein sm d1 (snrnp core protein d1) (sm-d1) (sm-d autoantigen). [swissprot;acc:p13641] Low confidence 1 8163.95 7671.08 1.06425
zinc finger protein 10 (zinc finger protein kox1) (fragment). [swissprot;acc:p21506] 0 1969.19 2352.16 1.19448
241 glucosamine-6-phosphate isomerase. [refseq;acc:nm_138335] 1 4311.52 4585.58 1.06356
keratin associated protein 9.2. [refseq;acc:nm_031961] High confidence 0 1079.01 1225.47 1.13574
plasma carboxypeptidase b2 isoform a preproprotein; carboxypeptidase u; thrombin-activatable fibrinolysis inhibitor; carboxypeptidase b-like protein; thrombin-activable fibrinolysis inhibitor. [refseq;acc:nm_001872] 1 6265.76 7711.31 1.23071
zinc finger protein 225. [swissprot;acc:q9uk10] Low confidence 0 1969.19 2352.16 1.19448
242 glucosamine-6-phosphate isomerase (ec 3.5.99.6) (glucosamine-6- phosphate deaminase) (gnpda) (glcn6p deaminase) (oscillin). [swissprot;acc:p46926] 1 4311.52 4585.58 1.06356
max protein. [swissprot;acc:p25912] High confidence 5704.87 4640.26 1.22943
splicing factor 3b subunit 3 (spliceosome associated protein 130) (sap 130) (sf3b130) (pre-mrna splicing factor sf3b 130 kda subunit). [swissprot;acc:q15393] 0 642.343 729.216 1.13524
zinc finger protein 256 (bone marrow zinc finger 3) (bmzf-3). [swissprot;acc:q9y2p7] Low confidence 1969.19 2352.16 1.19448
243 dead (asp-glu-ala-asp) box polypeptide 39 isoform 1; nuclear rna helicase, decd variant of dead box family. [refseq;acc:nm_005804] 1 8133.69 7648.9 1.06338
homer, neuronal immediate early gene, 2; homer homolog 3 (drosophila). [refseq;acc:nm_004839] High confidence 5208.98 4246.95 1.22652
keratin associated protein 4.3 (fragment). [sptrembl;acc:q9byr4] 0 1079.36 1225.09 1.13502
zinc finger protein 214 (bwscr2 associated zinc-finger protein 1) (baz 1). [swissprot;acc:q9ul59] Low confidence 1969.19 2352.16 1.19448
244 dj54b20.2 (novel krab box containing c2h2 type zinc finger protein) (fragment). [sptrembl;acc:q96qh9] 1969.25 2352.23
keratin associated protein 2-4; keratin associated protein 2.4. [refseq;acc:nm_033184] High confidence 1079.36 1225.09 1.13502
protein phosphatase 1, regulatory (inhibitor) subunit 12b isoform a; myosin phosphatase regulatory subunit; myosin phosphatase, target subunit 2. [refseq;acc:nm_002481] Low confidence 1 9314.48 8759.92 1.06331
ubiquinone biosynthesis protein coq7 homolog (coenzyme q biosynthesis protein 7 homolog) (timing protein clk-1 homolog). [swissprot;acc:q99807] High confidence 5211.25 4250.14 1.22614
245 homer, neuronal immediate early gene, 1b. [refseq;acc:nm_004272] 5212.33 4251.65 1.22595
keratin associated protein 1.5. [refseq;acc:nm_031957] 0 1079.36 1225.09 1.13502
tumor protein p73-like; tumor protein 63 kda with strong homology to p53; tumor protein p63. [refseq;acc:nm_003722] Low confidence 1 9047.26 8509.99 1.06313
zinc finger protein 165 (ld65). [swissprot;acc:p49910] 0 1969.19 2352.16 1.19448
246 ba526d8.4 (novel krab box containing c2h2 type zinc finger protein) (fragment). [sptrembl;acc:q9h559] 1969.25 2352.23
homer, neuronal immediate early gene, 3. [refseq;acc:nm_004838] High confidence 1 5213.05 4252.66 1.22583
keratin, ultra high-sulfur matrix protein a (uhs keratin a) (uhs kera). [swissprot;acc:p26371] 0 1079.36 1225.09 1.13502
tumor protein p73 (p53-like transcription factor) (p53-related protein). [swissprot;acc:o15350] Low confidence 1 9046.87 8509.76 1.06312
247 cellular tumor antigen p53 (tumor suppressor p53) (phosphoprotein p53) (antigen ny-co-13). [swissprot;acc:p04637] 9046.45 8509.51 1.0631
dj153g14.3 (novel c2h2 type zinc finger protein) (fragment). [sptrembl;acc:q9ujn7] 0 1969.11 2352.07 1.19448
keratin associated protein 1-3; keratin associated protein 1.3. [refseq;acc:nm_030966] High confidence 1079.36 1225.09 1.13502
wiskott-aldrich syndrome protein (wasp). [swissprot;acc:p42768] 1 7865.15 6416.68 1.22574
248 keratin associated protein 4-10; keratin associated protein 4.10. [refseq;acc:nm_033060] 0 1079.37 1225.09 1.135
proto-oncogene c-crk (p38) (adapter molecule crk). [swissprot;acc:p46108] 1 7859.6 6417.18 1.22477
rabaptin, rab gtpase binding effector protein 1; rabaptin-5; neurocrescin. [refseq;acc:nm_004703] Low confidence 8095.68 7615.71 1.06302
zinc finger protein 264. [swissprot;acc:o43296] 0 1969.15 2352.12 1.19448
249 apg3p; pc3-96 protein. [refseq;acc:nm_022488] 1 9924.56 10547.4 1.06276
keratin associated protein 4-14; keratin associated protein 4.14. [refseq;acc:nm_033059] High confidence 0 1079.37 1225.08 1.135
tyrosine-protein kinase abl2 (ec 2.7.1.112) (tyrosine kinase arg). [swissprot;acc:p42684] 1 7859.59 6417.18 1.22477
zinc finger protein 228. [swissprot;acc:q9uju3] Low confidence 0 1969.25 2352.23 1.19448
250 keratin associated protein 4.9 (fragment). [sptrembl;acc:q9byq8] High confidence 1079.37 1225.08 1.135
large neutral amino acids transporter small subunit 2 (l-type amino acid transporter 2) (hlat2). [swissprot;acc:q9uhi5] Low confidence 1 7412.76 6975.98 1.06261
proto-oncogene tyrosine-protein kinase src (ec 2.7.1.112) (p60-src) (c-src). [swissprot;acc:p12931] High confidence 7859.6 6417.18 1.22477
zinc finger protein 224. [swissprot;acc:q9nzl3] Low confidence 0 1969.49 2352.49 1.19447

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/