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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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 Value Type description Network Comparison Type Filtered Interaction Map red green network_comparison
Results: HTML CSV LaTeX Showing element 5808 to 5857 of 12912 in total
Network Comparison Type  : Divided
Filtered  : 1
Interaction Map  : High confidence
Rank
Value Type
description
red
green
network_comparison
1452 Rooted tumor susceptibility gene 101 protein. [swissprot;acc:q99816] 67.0522 69.6575 1.03885
1453 Measured potential phospholipid-transporting atpase iia (ec 3.6.1.-). [swissprot;acc:o75110] 5602.01 6031.05 1.07659
Ranked reticulon 4 (neurite outgrowth inhibitor) (nogo protein) (foocen) (neuroendocrine-specific protein) (nsp) (neuroendocrine specific protein c homolog) (rtn-x) (reticulon 5) (my043 protein). [swissprot;acc:q9nqc3] 207.038 211.13 1.01976
Squared nuclear pore complex protein nup88 (nucleoporin nup88) (88 kda nuclear pore complex protein). [swissprot;acc:q99567] 26952.5 30122.8 1.11763
Rooted sipl protein. [refseq;acc:nm_018269] 66.3152 68.8865 1.03877
1454 Measured ubiquitin-like protein sumo-1 conjugating enzyme (ec 6.3.2.19) (sumo- 1-protein ligase) (ubiquitin carrier protein) (ubiquitin-conjugating enzyme ubce2a) (p18). [swissprot;acc:p50550] 5770.74 6210.65 1.07623
Ranked sin3 associated polypeptide p18 (2hor0202). [swissprot;acc:o00422] 207.024 211.089 1.01964
Squared megf6 (fragment). [sptrembl;acc:o75095] 30407.3 33976.9 1.11739
Rooted lin-7 homolog b; lin-7b protein; likely ortholog of mouse lin-7b; mammalian lin-7 protein 2; likely orholog of mouse lin 7 homolog b (c. elegans). [refseq;acc:nm_022165] 60.3015 62.6383 1.03875
1455 Measured lim protein (similar to rat protein kinase c-binding enigma); enigma homolog. [refseq;acc:nm_006457] 5672.68 6104.68 1.07615
Ranked eh-domain containing protein 1 (testilin) (hpast1). [swissprot;acc:q9h4m9] 207.024 211.085 1.01962
Squared atp-dependent rna helicase rok1; atp-dependent rna helicase. [refseq;acc:nm_007010] 15587.6 17417.4 1.11739
Rooted vesicle-associated membrane protein 2 (vamp-2) (synaptobrevin 2). [swissprot;acc:p19065] 68.657 71.3161 1.03873
1456 Measured e1a binding protein p400; p400 swi2/snf2-related protein; cagh32 protein; trinucleotide repeat containing 12. [refseq;acc:nm_015409] 5672.25 6104.01 1.07612
Ranked eh-domain containing protein 4 (eh domain-containing protein fksg7) (hepatocellular carcinoma-associated protein 10/11). [swissprot;acc:q9h223] 207.024 211.086 1.01962
Squared dna replication licensing factor mcm3 (dna polymerase alpha holoenzyme-associated protein p1) (rlf beta subunit) (p102 protein) (p1-mcm3). [swissprot;acc:p25205] 18356 20509.7 1.11733
Rooted vesicle-associated membrane protein 1 (vamp-1) (synaptobrevin 1). [swissprot;acc:p23763] 68.657 71.3161 1.03873
1457 Measured collagen alpha 5(iv) chain precursor. [swissprot;acc:p29400] 5672.23 6103.98 1.07612
Ranked eh-domain containing protein 2. [swissprot;acc:q9nzn4] 207.024 211.086 1.01962
Squared kelch-like ech-associated protein 1 (cytosolic inhibitor of nrf2). [swissprot;acc:q14145] 18356 20509.7 1.11733
Rooted vesicule-associated membrane protein 4 (vamp-4). [swissprot;acc:o75379] 68.657 71.3161 1.03873
1458 Measured mitochondrial ribosomal protein l24. [refseq;acc:nm_024540] 5672.25 6104.01 1.07612
Ranked eh-domain containing protein 3. [swissprot;acc:q9nzn3] 207.024 211.086 1.01962
Squared putative phosphoglycerate mutase 3 (ec 5.4.2.1) (ec 5.4.2.4) (ec 3.1.3.13). [swissprot;acc:q8n0y7] 25476.6 28464.6 1.11728
Rooted cdp-diacylglycerol--inositol 3-phosphatidyltransferase (ec 2.7.8.11) (phosphatidylinositol synthase) (ptdins synthase) (pi synthase). [swissprot;acc:o14735] 68.657 71.3161 1.03873
1459 Measured 65 kda yes-associated protein (yap65). [swissprot;acc:p46937] 5672.25 6104.01 1.07612
Ranked importin-alpha re-exporter (chromosome segregation 1-like protein) (cellular apoptosis susceptibility protein). [swissprot;acc:p55060] 192.336 188.637 1.01961
Squared phosphoglycerate mutase 1 (ec 5.4.2.1) (ec 5.4.2.4) (ec 3.1.3.13) (phosphoglycerate mutase isozyme b) (pgam-b) (bpg-dependent pgam 1). [swissprot;acc:p18669] 25476.6 28464.6 1.11728
Rooted adp-ribosylation factor gtpase activating protein 1 (adp-ribosylation factor 1 gtpase activating protein) (arf1 gap) (arf1-directed gtpase- activating protein) (gap protein). [swissprot;acc:q8n6t3] 68.657 71.3161 1.03873
1460 Measured p29ing4; candidate tumor suppressor p33 ing1 homolog. [refseq;acc:nm_016162] 5696.65 6130.26 1.07612
Ranked thyroid receptor interacting protein 12 (trip12). [swissprot;acc:q14669] 205.817 209.851 1.0196
Squared phosphoglycerate mutase 2 (ec 5.4.2.1) (ec 5.4.2.4) (ec 3.1.3.13) (phosphoglycerate mutase isozyme m) (pgam-m) (bpg-dependent pgam 2) (muscle-specific phosphoglycerate mutase). [swissprot;acc:p15259] 25476.6 28464.6 1.11728
Rooted vesicle-associated membrane protein 3 (vamp-3) (synaptobrevin 3) (cellubrevin) (ceb). [swissprot;acc:q15836] 68.657 71.3161 1.03873
1461 Measured 9 kda protein. [swissprot;acc:p13994] 5672.25 6104.01 1.07612
Ranked reticulon 1 (neuroendocrine-specific protein). [swissprot;acc:q16799] 207.019 211.077 1.0196
Squared splicing factor 3a subunit 3 (spliceosome associated protein 61) (sap 61) (sf3a60). [swissprot;acc:q12874] 22440.4 25069.1 1.11714
Rooted receptor protein-tyrosine kinase erbb-4 precursor (ec 2.7.1.112) (p180erbb4) (tyrosine kinase-type cell surface receptor her4). [swissprot;acc:q15303] 60.3015 62.6331 1.03867
1462 Measured transcriptional co-activator with pdz-binding motif (taz). [refseq;acc:nm_015472] 5672.24 6103.99 1.07612
Ranked dihydrolipoamide succinyltransferase component of 2-oxoglutarate dehydrogenase complex, mitochondrial precursor (ec 2.3.1.61) (e2) (e2k). [swissprot;acc:p36957] 205.817 209.851 1.0196
Squared splicing factor 3 subunit 1 (spliceosome associated protein 114) (sap 114) (sf3a120). [swissprot;acc:q15459] 22440.4 25069.1 1.11714
Rooted suppressor of var1, 3-like 1. [refseq;acc:nm_003171] 65.2132 67.7352 1.03867
1463 Measured collagen alpha 3(iv) chain precursor (goodpasture antigen). [swissprot;acc:q01955] 5672.2 6103.92 1.07611
Ranked pnas-18. [sptrembl;acc:q9bzu3] 161.056 164.211 1.01959
Squared translation initiation factor eif-2b beta subunit (eif-2b gdp-gtp exchange factor) (s20i15) (s20iii15). [swissprot;acc:p49770] 23320.4 26051 1.11709
Rooted 2-hydroxyphytanoyl-coa lyase (ec 4.1.-.-) (2-hpcl) (hspc279). [swissprot;acc:q9uj83] 60.3015 62.6331 1.03867
1464 Measured zasp protein (fragment). [sptrembl;acc:q9y4z3] 5671.93 6103.49 1.07609
Ranked poly (adp-ribose) glycohydrolase. [refseq;acc:nm_003631] 217.351 213.18 1.01957
Squared wd-repeat protein 3. [swissprot;acc:q9unx4] 15590.3 17415.6 1.11708
Rooted bag-family molecular chaperone regulator-1 (bcl-2 binding athanogene- 1) (bag-1) (glucocorticoid receptor-associated protein rap46). [swissprot;acc:q99933] 65.2132 67.7352 1.03867
1465 Measured glycerol-3-phosphate dehydrogenase [nad+], cytoplasmic (ec 1.1.1.8) (gpd-c) (gpdh-c). [swissprot;acc:p21695] 5686.74 6119.36 1.07608

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/