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 1075 to 1124 of 7460 in total

Value Type  : Ranked
Interaction Map  : High confidence

Rank	description	Network Comparison Type	Filtered	red	green	network_comparison
269	ischemia/reperfusion inducible protein. [refseq;acc:nm_024640]	Divided	0	12463.5	11482.6	1.08542
	mto1 protein homolog (cgi-02). [swissprot;acc:q9y2z2]	Subtracted		8907.41	9795.36	887.95
270	40s ribosomal protein s3. [swissprot;acc:p23396]		1	241.612	265.119	23.507
	associated molecule with the sh3 domain of stam (amsh) like protein. [refseq;acc:nm_020799]		0	11644	10763.4	880.6
	ethanolamine-phosphate cytidylyltransferase (ec 2.7.7.14) (phosphorylethanolamine transferase) (ctp:phosphoethanolamine cytidylyltransferase). [swissprot;acc:q99447]	Divided		10735.1	9891.37	1.0853
	fad synthetase. [refseq;acc:nm_025207]		1	241.373	267.352	1.10763
271	bifunctional 3'-phosphoadenosine 5'-phosphosulfate synthethase 2 (paps synthethase 2) (papss 2) (sulfurylase kinase 2) (sk2) (sk 2) [includes: sulfate adenylyltransferase (ec 2.7.7.4) (sulfate adenylate transferase) (sat) (atp-sulfurylase); adenylylsulfate kinase (ec 2.7.1.25) (adenylylsulfate 3'-phosphotransferase) (aps kinase) (adenosine-5'-phosphosulfate 3'-phosphotransferase) (3'- phosphoadenosine-5'-phosphosulfate synthetase)]. [swissprot;acc:o95340]
	cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936]	Subtracted	0	5781.93	6660.63	878.7
	myosin light chain 1, embryonic muscle/atrial isoform (pro1957). [swissprot;acc:p12829]	Divided		10735.1	9891.37	1.0853
	protein transport protein sec61 gamma subunit. [swissprot;acc:p38384]	Subtracted	1	243.072	266.559	23.487
272	fos-related antigen 2. [swissprot;acc:p15408]		0	7091.75	6217.28	874.47
	ligatin (hepatocellular carcinoma-associated antigen 56). [swissprot;acc:p41214]	Divided	1	241.373	267.352	1.10763
	mitochondrial ribosomal protein l17; lyst-interacting protein lip2. [refseq;acc:nm_022061]	Subtracted		242.83	266.248	23.418
	sterol regulatory element binding protein-2 (srebp-2) (sterol regulatory element-binding transcription factor 2). [swissprot;acc:q12772]	Divided	0	7163.55	7759.61	1.08321
273	bifunctional 3'-phosphoadenosine 5'-phosphosulfate synthethase 1 (paps synthethase 1) (papss 1) (sulfurylase kinase 1) (sk1) (sk 1) [includes: sulfate adenylyltransferase (ec 2.7.7.4) (sulfate adenylate transferase) (sat) (atp-sulfurylase); adenylylsulfate kinase (ec 2.7.1.25) (adenylylsulfate 3'-phosphotransferase) (aps kinase) (adenosine-5'-phosphosulfate 3'-phosphotransferase) (3'- phosphoadenosine-5'-phosphosulfate synthetase)]. [swissprot;acc:o43252]		1	241.373	267.352	1.10763
	disks large-associated protein 2 (dap-2) (sap90/psd-95-associated protein 2) (sapap2) (psd-95/sap90 binding protein 2) (fragment). [swissprot;acc:q9p1a6]	Subtracted	0	10432.4	11298.4	866
	dna-directed rna polymerase ii 140 kda polypeptide (ec 2.7.7.6) (rna polymerase ii subunit 2) (rpb2). [swissprot;acc:p30876]		1	243.208	266.617	23.409
	wiskott-aldrich syndrome protein family member 3 (wasp-family protein member 3) (verprolin homology domain-containing protein 3). [swissprot;acc:q9upy6]	Divided	0	12748.1	11770.9	1.08302
274	40s ribosomal protein sa (p40) (34/67 kda laminin receptor) (colon carcinoma laminin-binding protein) (nem/1chd4) (multidrug resistance- associated protein mgr1-ag). [swissprot;acc:p08865]	Subtracted		11977.8	12842.5	864.7
	60s ribosomal protein l36, mitochondrial precursor (l36mt) (brca1- interacting protein 1). [swissprot;acc:q9p0j6]		1	242.744	266.07	23.326
	disks large-associated protein 2 (dap-2) (sap90/psd-95-associated protein 2) (sapap2) (psd-95/sap90 binding protein 2) (fragment). [swissprot;acc:q9p1a6]	Divided	0	10432.4	11298.4	1.08301
	nadph-cytochrome p450 reductase (ec 1.6.2.4) (cpr) (p450r). [swissprot;acc:p16435]		1	241.373	267.352	1.10763
275	40s ribosomal protein s5. [swissprot;acc:p46782]	Subtracted		242.473	265.756	23.283
	cholinephosphate cytidylyltransferase b (ec 2.7.7.15) (phosphorylcholine transferase b) (ctp:phosphocholine cytidylyltransferase b) (ct b) (cct b) (cct-beta). [swissprot;acc:q9y5k3]	Divided		241.373	267.352	1.10763
	cleavage and polyadenylation specificity factor, 160 kda subunit (cpsf 160 kda subunit). [swissprot;acc:q10570]		0	10783	11674.1	1.08264
	signal-induced proliferation-associated 1-like 1. [refseq;acc:nm_015556]	Subtracted		15977.3	15115.5	861.8
276	60s ribosomal protein l32. [swissprot;acc:p02433]	Divided	1	241.13	266.969	1.10716
	60s ribosomal protein l9. [swissprot;acc:p32969]		0	10741.6	9922.33	1.08257
	atp-dependent rna helicase ddx24 (dead-box protein 24). [swissprot;acc:q9gzr7]	Subtracted	1	258.437	235.183	23.254
	dyskerin (nucleolar protein nap57) (cbf5 homolog). [swissprot;acc:o60832]		0	12228.2	11367.3	860.9
277	4-aminobutyrate aminotransferase, mitochondrial precursor (ec 2.6.1.19) (gamma-amino-n-butyrate transaminase) (gaba transaminase) (gaba aminotransferase) (gaba-at) (gaba-t). [swissprot;acc:p80404]			18849.7	19704.7	855
	40s ribosomal protein s29. [swissprot;acc:p30054]	Divided	1	241.849	267.642	1.10665
	60s ribosomal protein l17 (l23). [swissprot;acc:p18621]		0	11096.8	10251.6	1.08245
	60s ribosomal protein l4 (l1). [swissprot;acc:p36578]	Subtracted	1	239.277	262.434	23.157
278	40s ribosomal protein s11. [swissprot;acc:p04643]	Divided		241.399	267.088	1.10642
	associated molecule with the sh3 domain of stam (amsh) like protein. [refseq;acc:nm_020799]		0	11644	10763.4	1.08181
	lifeguard; kiaa0950 protein. [refseq;acc:nm_012306]	Subtracted		11107.1	11959.2	852.1
	myelin gene expression factor 2. [refseq;acc:nm_016132]		1	235.383	258.476	23.093
279	anaphase promoting complex subunit 11 (hepatocellular carcinoma associated ring finger protein) (hspc214). [swissprot;acc:q9nyg5]	Divided	0	10614.2	9812.39	1.08171
	histone acetyltransferase type b subunit 2 (retinoblastoma binding protein p46) (retinoblastoma-binding protein 7) (rbbp-7). [swissprot;acc:q16576]		1	252.644	228.42	1.10605
	probable glutamyl-trna(gln) amidotransferase subunit b, mitochondrial precursor (ec 6.3.5.-) (glu-adt subunit b) (cytochrome oxidase assembly factor pet112 homolog). [swissprot;acc:o75879]	Subtracted	0	7621.99	8473.85	851.86
	trna pseudouridine synthase a (ec 4.2.1.70) (pseudouridylate synthase i) (pseudouridine synthase i) (uracil hydrolyase). [swissprot;acc:q9y606]		1	242.66	265.715	23.055
280	crooked neck-like protein 1 (crooked neck homolog) (hcrn) (cgi-201) (mstp021). [swissprot;acc:q9bzj0]	Divided	0	10620.1	11471.2	1.08014
		Subtracted				851.1
	metastasis-associated protein mta1. [swissprot;acc:q13330]	Divided	1	252.512	228.356	1.10578
	transcription factor dp-2 (e2f dimerization partner 2). [swissprot;acc:q14188]	Subtracted		267.208	244.168	23.04
281	60s ribosomal protein l12, mitochondrial precursor (l12mt) (5c5-2). [swissprot;acc:p52815]			242.159	265.104	22.945
	60s ribosomal protein l17 (l23). [swissprot;acc:p18621]	Divided		241.808	267.335	1.10557
		Subtracted	0	11096.8	10251.6	845.2
	phospholipid scramblase 3 (pl scramblase 3) (ca(2+)-dependent phospholipid scramblase 3). [swissprot;acc:q9nry6]	Divided		12522.7	13514.5	1.0792

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.