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 description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 743 to 792 of 6456 in total
Value Type  : Measured
Interaction Map  : High confidence
Filtered  : 1
Rank
description
Network Comparison Type
red
green
network_comparison
372 probable serine protease htra4 precursor (ec 3.4.21.-). [swissprot;acc:p83105] Divided 5067 5926.17 1.16956
squamous cell carcinoma antigen recognized by t cells 1; u4/u6.u5 tri-snrnp-associated 110 kda protein; ige autoantigen; sart1(259) protein; sart1(800) protein. [refseq;acc:nm_005146] Subtracted 4909.79 5878.79 969
373 probable serine protease htra3 precursor (ec 3.4.21.-). [swissprot;acc:p83110] Divided 5066.99 5926.1 1.16955
u6 snrna-associated sm-like protein lsm6 (sm protein f). [swissprot;acc:q9y4y8] Subtracted 4682.88 5646.19 963.31
374 homer, neuronal immediate early gene, 2; homer homolog 3 (drosophila). [refseq;acc:nm_004839] 4246.95 5208.98 962.03
serine protease htra1 precursor (ec 3.4.21.-) (l56). [swissprot;acc:q92743] Divided 5066.93 5925.38 1.16942
375 u6 snrna-associated sm-like protein lsm1 (small nuclear ribonuclear casm) (cancer-associated sm-like). [swissprot;acc:o15116] 4700.42 5492.63 1.16854
ubiquinone biosynthesis protein coq7 homolog (coenzyme q biosynthesis protein 7 homolog) (timing protein clk-1 homolog). [swissprot;acc:q99807] Subtracted 4250.14 5211.25 961.11
376 44050 protein. [refseq;acc:nm_178832] Divided 17385.9 14889.2 1.16769
homer, neuronal immediate early gene, 1b. [refseq;acc:nm_004272] Subtracted 4251.65 5212.33 960.68
377 homer, neuronal immediate early gene, 3. [refseq;acc:nm_004838] 4252.66 5213.05 960.39
nuclear inhibitor of protein phosphatase-1 (nipp-1) (protein phosphatase 1, regulatory inhibitor subunit 8) [includes: activator of rna decay (ec 3.1.4.-) (ard-1)]. [swissprot;acc:q12972] Divided 17385.9 14889.2 1.16769
378 hira-interacting protein 5 (cgi-33). [swissprot;acc:q9ums0] 12471.7 14561.7 1.16758
vinexin (sh3-containing adaptor molecule-1) (scam-1). [swissprot;acc:o60504] Subtracted 6272.91 7226.06 953.15
379 ribonucleoside-diphosphate reductase m2 chain (ec 1.17.4.1) (ribonucleotide reductase small chain). [swissprot;acc:p31350] Divided 6704.44 7811.45 1.16512
signal recognition particle 9 kda protein (srp9). [swissprot;acc:p49458] Subtracted 4244.95 5193.42 948.47
380 acyl-coa dehydrogenase, very-long-chain specific, mitochondrial precursor (ec 1.3.99.-) (vlcad). [swissprot;acc:p49748] Divided 12998.5 15138.2 1.16461
nucleotide-binding protein 1 (nbp 1). [swissprot;acc:p53384] Subtracted 4641.09 5588.75 947.66
381 multisynthetase complex auxiliary component p43 [contains: endothelial-monocyte activating polypeptide ii (emap-ii) (small inducible cytokine subfamily e member 1)]. [swissprot;acc:q12904] Divided 5246.01 6109.31 1.16456
nucleotide binding protein 2 (nbp 2). [swissprot;acc:q9y5y2] Subtracted 4641.09 5588.75 947.66
382 parkinson disease (autosomal recessive, juvenile) 2, parkin isoform 1; parkin. [refseq;acc:nm_004562] Divided 4533.74 5279.4 1.16447
son protein (son3) (negative regulatory element-binding protein) (nre- binding protein) (dbp-5) (bax antagonist selected in saccharomyces 1) (bass1) (protein c21orf50). [swissprot;acc:p18583] Subtracted 2397.19 3343.62 946.43
383 hepatoma-derived growth factor-related protein 2. [refseq;acc:nm_032631] Divided 4533.74 5279.4 1.16447
signal recognition particle 9 kda protein (srp9). [swissprot;acc:p49458] Subtracted 4247.36 5192.61 945.25
384 cgi-142; hepatoma-derived growth factor 2. [refseq;acc:nm_016073] Divided 4533.74 5279.4 1.16447
histidyl-trna synthetase homolog (ec 6.1.1.21) (histidine--trna ligase homolog) (hisrs). [swissprot;acc:p49590] Subtracted 8061.05 9002.33 941.28
385 histidyl-trna synthetase (ec 6.1.1.21) (histidine--trna ligase) (hisrs). [swissprot;acc:p12081] 8056.09 8996.46 940.37
pc4 and sfrs1 interacting protein 2; pc4 and sfrs1 interacting protein 1; transcriptional coactivator p52/p75. [refseq;acc:nm_033222] Divided 4533.74 5279.4 1.16447
386 60s ribosomal protein l8. [swissprot;acc:p25120]
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-7 subunit. [swissprot;acc:o60262] Subtracted 1833.01 892.67 940.34
387 guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-12 subunit. [swissprot;acc:q9ubi6]
hepatoma-derived growth factor (hdgf) (high-mobility group protein 1- like 2) (hmg-1l2). [swissprot;acc:p51858] Divided 4533.74 5279.4 1.16447
388 pwwp domain containing 1; hdgf (hepatoma-derived growth factor) like. [refseq;acc:nm_138574]
swi/snf-related, matrix-associated, actin-dependent regulator of chromatin subfamily f member 1 (swi-snf complex protein p270) (b120). [swissprot;acc:o14497] Subtracted 6252.58 7192.88 940.3
389 probable atp-dependent rna helicase p54 (oncogene rck) (dead-box protein 6). [swissprot;acc:p26196] Divided 4533.74 5279.4 1.16447
programmed cell death protein 6 (probable calcium-binding protein alg- 2). [swissprot;acc:o75340] Subtracted 6252.58 7192.88 940.3
390 brg1-binding protein eld/osa1; eld (eyelid)/osa protein. [refseq;acc:nm_020732] 6252.27 7192.51 940.24
rw1 protein (fragment). [swissprot;acc:q92545] Divided 4533.74 5279.4 1.16447
391 sorcin (22 kda protein) (cp-22) (v19). [swissprot;acc:p30626] Subtracted 6251.99 7192.17 940.18
tar dna-binding protein-43 (tdp-43). [swissprot;acc:q13148] Divided 3658.76 3144.39 1.16358
392 atp-dependent rna helicase mgc2835; atp-dependent rna helicase; apoptosis related protein apr-5; dead box helicase 97 kda. [refseq;acc:nm_024072] 3641.89 4236.95 1.16339
calcium-dependent protease, small subunit (calpain regulatory subunit) (calcium-activated neutral proteinase) (canp). [swissprot;acc:p04632] Subtracted 6251.91 7192.08 940.17
393 eukaryotic translation initiation factor 4e (eif-4e) (eif4e) (mrna cap-binding protein) (eif-4f 25 kda subunit). [swissprot;acc:p06730] Divided 4490.28 5222.25 1.16301
grancalcin. [swissprot;acc:p28676] Subtracted 6251.96 7192.13 940.17
394 bai1-associated protein 3; bai-associated protein 3. [refseq;acc:nm_003933] Divided 4490.28 5222.25 1.16301
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-4 subunit. [swissprot;acc:p50150] Subtracted 1834.33 895.134 939.196
395 guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-3 subunit. [swissprot;acc:p29798] 1834.36 895.194 939.166
splicing factor 4 isoform b; rna-binding protein. [refseq;acc:nm_021164] Divided 4532.73 5269.33 1.16251
396 guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-8 subunit (gamma-9). [swissprot;acc:q9uk08] Subtracted 1834.52 895.507 939.013
ribonucleotide reductase m2 b (tp53 inducible); p53-inducible ribonucleotide reductase small subunit 2 homolog. [refseq;acc:nm_015713] Divided 6563.65 7627.29 1.16205

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/