MK5 Microarray Data

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.

Proteome Analysis

Below the proteome analysis is presented. The analysis methods are presented in the paper Propagating Differential Gene Expression in Protein Interaction Networks. If you are interested in the most reliable results choose the

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Rank	Gene	description	Value Type	Network Comparison Type	Interaction Map	Filtered	red	green	network_comparison

Results: HTML CSV LaTeX

Showing element 1658 to 1707 of 12912 in total

Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1

Rank	description	Value Type	red	green	network_comparison
415	katanin p80 subunit b 1; katanin (80 kda); katanin p80 (wd40-containing) subunit b 1. [refseq;acc:nm_005886]	Ranked	232.382	252.166	1.08514
	vav-3 protein. [swissprot;acc:q9ukw4]	Measured	6647.43	7706.18	1.15927
	vinexin (sh3-containing adaptor molecule-1) (scam-1). [swissprot;acc:o60504]	Squared	29160.4	35570.2	1.21981
416	atp synthase b chain, mitochondrial precursor (ec 3.6.3.14). [swissprot;acc:p24539]	Rooted	55.5489	50.535	1.09922
	dna-directed rna polymerase i 135 kda polypeptide (ec 2.7.7.6) (rna polymerase i subunit 2) (rpa135). [swissprot;acc:q9h9y6]	Ranked	240.6	261.041	1.08496
	n-terminal acetyltransferase complex ard1 subunit homolog (ec 2.3.1.-). [swissprot;acc:p41227]	Measured	4509.54	5223.95	1.15842
	prohibitin. [swissprot;acc:p35232]	Squared	22841.8	27856.2	1.21953
417	bag-family molecular chaperone regulator-3 (bcl-2 binding athanogene- 3) (bag-3) (bcl-2-binding protein bis) (docking protein cair-1). [swissprot;acc:o95817]	Measured	4522.71	5233.14	1.15708
	j domain containing protein 1. [swissprot;acc:q9ukb3]	Rooted	55.5489	50.535	1.09922
	repressor of estrogen receptor activity; b-cell associated protein. [refseq;acc:nm_007273]	Squared	22841.8	27856.2	1.21953
	set domain and mariner transposase fusion gene. [refseq;acc:nm_006515]	Ranked	233.539	253.197	1.08417
418	breast carcinoma amplified sequence 2; spliceosome associated protein, amplified in breast cancer. [refseq;acc:nm_005872]	Measured	5493.1	6350.19	1.15603
	cd209 antigen-like; putative type ii membrane protein. [refseq;acc:nm_014257]	Ranked	233.539	253.197	1.08417
	e-1 enzyme. [refseq;acc:nm_021204]	Squared	30903.8	37638.1	1.21791
	sorting nexin 13 (rgs domain- and phox domain-containing protein) (rgs-px1). [swissprot;acc:q9y5w8]	Rooted	55.5489	50.535	1.09922
419	apolipoprotein a-i binding protein; apoa-i binding protein. [refseq;acc:nm_144772]	Squared	24832.1	30242.8	1.21789
	ba127l20.1 (novel glutathione-s-transferase). [sptrembl;acc:q9h4y5]	Rooted	55.5489	50.535	1.09922
	cdc5-like; cdc5 (cell division cycle 5, s. pombe, homolog)-like; cell division cycle 5, s. pombe, homolog-like; cdc5-related protein. [refseq;acc:nm_001253]	Measured	5493.1	6350.19	1.15603
	low affinity immunoglobulin epsilon fc receptor (lymphocyte ige receptor) (fc-epsilon-rii) (cd23) (blast-2) (immunoglobulin e-binding factor). [swissprot;acc:p06734]	Ranked	233.539	253.197	1.08417
420	60s ribosomal protein l24 (l30). [swissprot;acc:p38663]	Squared	30924.3	37652.3	1.21756
	cd209 antigen; dendritic cell-specific icam3-grabbing nonintegrin. [refseq;acc:nm_021155]	Ranked	233.539	253.197	1.08417
	dna polymerase epsilon, catalytic subunit a (ec 2.7.7.7) (dna polymerase ii subunit a). [swissprot;acc:q07864]	Rooted	51.7959	56.9253	1.09903
	hypoxanthine-guanine phosphoribosyltransferase (ec 2.4.2.8) (hgprt) (hgprtase). [swissprot;acc:p00492]	Measured	10235.2	11830.8	1.15589
421	c367g8.3 (novel protein similar to rpl23a (60s ribosomal protein l23a)) (60s ribosomal protein l23a like). [sptrembl;acc:q9br02]	Rooted	50.4666	45.9317	1.09873
	cbl e3 ubiquitin protein ligase (ec 6.3.2.-) (signal transduction protein cbl) (proto-oncogene c-cbl). [swissprot;acc:p22681]	Squared	36933	44953.6	1.21717
	tuftelin-interacting protein 11 (hspc006). [swissprot;acc:q9ubb9]	Ranked	223.202	205.9	1.08403
	vav-2 protein. [swissprot;acc:p52735]	Measured	6660.02	7697.78	1.15582
422	60s ribosomal protein l5. [swissprot;acc:p46777]	Rooted	50.4641	45.9293	1.09873
	dna mismatch repair protein mlh3 (mutl protein homolog 3). [swissprot;acc:q9uhc1]	Squared	25860	31475.4	1.21715
	nuclear rna export factor 5 (tap-like protein 1) (tapl-1). [swissprot;acc:q9h1b4]	Measured	5206.9	6010.04	1.15425
	ras-related protein rab-37. [swissprot;acc:q96ax2]	Ranked	240.287	260.193	1.08284
423	epithelial-cadherin precursor (e-cadherin) (uvomorulin) (cadherin-1) (cam 120/80). [swissprot;acc:p12830]	Rooted	50.4663	45.9313	1.09873
	nuclear rna export factor 3 (tap-like protein 3) (tapl-3). [swissprot;acc:q9h4d5]	Measured	5207.03	6010.1	1.15423
	ras-related protein rab-26. [swissprot;acc:q9ulw5]	Ranked	240.287	260.193	1.08284
	signal transduction protein cbl-b (sh3-binding protein cbl-b). [swissprot;acc:q13191]	Squared	36735.7	44689.6	1.21652
424	60s ribosomal protein l23a. [swissprot;acc:p29316]	Rooted	50.4703	45.9373	1.09868
	dna-directed rna polymerase ii 33 kda polypeptide (ec 2.7.7.6) (rpb3) (rna polymerase ii subunit 3) (rpb33) (rpb31). [swissprot;acc:p19387]	Ranked	240.287	260.193	1.08284
	mitochondrial processing peptidase alpha subunit, mitochondrial precursor (ec 3.4.24.64) (alpha-mpp) (p-55) (ha1523). [swissprot;acc:q10713]	Squared	20259.5	24635.7	1.21601
	nuclear rna export factor 1 (tip associating protein) (tip-associated protein) (mrna export factor tap). [swissprot;acc:q9ubu9]	Measured	5207.78	6010.45	1.15413
425	40s ribosomal protein s20. [swissprot;acc:p17075]	Rooted	50.0161	45.5318	1.09849
	max protein. [swissprot;acc:p25912]	Ranked	227.828	210.561	1.082
	mitochondrial processing peptidase beta subunit, mitochondrial precursor (ec 3.4.24.64) (beta-mpp) (p-52). [swissprot;acc:o75439]	Squared	20258.6	24634.7	1.21601
	saccharomyces cerevisiae nip7p homolog. [refseq;acc:nm_016101]	Measured	3729.02	4301.58	1.15354
426	dynactin 4. [refseq;acc:nm_032486]	Ranked	233.142	252.253	1.08197
	n-terminal acetyltransferase complex ard1 subunit homolog (ec 2.3.1.-). [swissprot;acc:p41227]	Rooted	55.1073	60.5285	1.09838
	pef protein with a long n-terminal hydrophobic domain (peflin). [refseq;acc:nm_012392]	Measured	5942.49	6853.15	1.15325
	ubiquinol-cytochrome c reductase complex core protein i, mitochondrial precursor (ec 1.10.2.2). [swissprot;acc:p31930]	Squared	20267.8	24644.8	1.21596
427	dna-directed rna polymerase ii 23 kda polypeptide (ec 2.7.7.6) (rpb25) (xap4) (rpb5) (rpabc1). [swissprot;acc:p19388]	Ranked	239.977	259.525	1.08146
	neuronal acetylcholine receptor protein, alpha-7 chain precursor. [swissprot;acc:p36544]	Rooted	54.4927	49.6125	1.09837
	pms1 protein homolog 2 (dna mismatch repair protein pms2). [swissprot;acc:p54278]	Squared	25380.3	30835.9	1.21495

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.