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 6456 in total

Value Type  : Measured
Interaction Map  : High confidence
Filtered  : 1

Rank	description	Network Comparison Type	red	green	network_comparison
829	transcription factor cp2; transcription factor cp2, alpha globin. [refseq;acc:nm_005653]	Subtracted	5903.18	6506.32	603.14
830	dihydroorotate dehydrogenase, mitochondrial precursor (ec 1.3.3.1) (dihydroorotate oxidase) (dhodehase) (fragment). [swissprot;acc:q02127]	Divided	5745.61	6354.75	1.10602
	lbp-9. [refseq;acc:nm_014553]	Subtracted	5903.18	6506.32	603.14
831	splicing factor, arginine/serine-rich 3 (pre-mrna splicing factor srp20) (x16 protein). [swissprot;acc:p23152]
	t-cell activation wd repeat protein. [refseq;acc:nm_139281]	Divided	4062.03	4492.48	1.10597
832	guanine nucleotide-binding protein beta subunit-like protein 12.3 (p205) (receptor of activated protein kinase c 1) (rack1) (receptor for activated c kinase). [swissprot;acc:p25388]		4489.72	4965.35	1.10594
	histone deacetylase 2 (hd2). [swissprot;acc:q92769]	Subtracted	5929.48	6531.48	602
833	multiple coagulation factor deficiency 2; neural stem cell derived neuronal survival protein; multiple coagulation factor deficiency protein 2. [refseq;acc:nm_139279]		5929.55	6531.52	601.97
	zuotin related factor-1 (m-phase phosphoprotein 11). [swissprot;acc:q99543]	Divided	4489.72	4965.35	1.10594
834	atp synthase alpha chain, mitochondrial precursor (ec 3.6.3.14). [swissprot;acc:p25705]		5623.18	6218.77	1.10592
	dj153g14.2 (possible ca binding protein similar to nefa) (fragment). [sptrembl;acc:q9ujn8]	Subtracted	5929.55	6531.52	601.97
835	28s ribosomal protein s18a, mitochondrial precursor (mrp-s18-a) (mrps18a) (mrp-s18-3). [swissprot;acc:q9nvs2]	Divided	5623.18	6218.77	1.10592
	histone deacetylase 1 (hd1). [swissprot;acc:q13547]	Subtracted	5929.61	6531.55	601.94
836	atp-dependent rna helicase rok1; atp-dependent rna helicase. [refseq;acc:nm_007010]	Divided	4049	4477.43	1.10581
	ubiquitin-conjugating enzyme e2 n (ec 6.3.2.19) (ubiquitin-protein ligase n) (ubiquitin carrier protein n) (ubc13) (bendless-like ubiquitin conjugating enzyme). [swissprot;acc:q16781]	Subtracted	6229.69	6829.58	599.89
837	cirhin; testis expressed gene 292; cirrhosis, autosomal recessive 1a. [refseq;acc:nm_032830]	Divided	4063.64	4492.98	1.10565
	kinesin family member c3. [refseq;acc:nm_005550]	Subtracted	5995.49	6595.35	599.86
838	glycerol-3-phosphate transporter (g-3-p transporter) (g-3-p permease). [swissprot;acc:p57057]		6520.28	7119.28	599
	pbk1 protein. [sptrembl;acc:o76021]	Divided	4064.23	4493.36	1.10559
839	arginyl-trna synthetase-like; arginine-trna ligase. [refseq;acc:nm_020320]		7093.86	7842.67	1.10556
	proline oxidase, mitochondrial precursor (ec 1.5.3.-) (proline dehydrogenase). [swissprot;acc:o43272]	Subtracted	6520.28	7119.28	599
840	hepatocyte growth factor-regulated tyrosine kinase substrate; human growth factor-regulated tyrosine kinase substrate. [refseq;acc:nm_004712]		10300	9701.33	598.67
	poly (adp-ribose) glycohydrolase. [refseq;acc:nm_003631]	Divided	5786.67	6395.78	1.10526
841	conserved oligomeric golgi complex component 7. [swissprot;acc:p83436]	Subtracted	10300	9701.33	598.67
	mto1 protein homolog (cgi-02). [swissprot;acc:q9y2z2]	Divided	5786.67	6395.78	1.10526
842	atp synthase alpha chain, mitochondrial precursor (ec 3.6.3.14). [swissprot;acc:p25705]	Subtracted	5623.18	6218.77	595.59
	loh1cr12. [refseq;acc:nm_058169]	Divided	5195.48	5741.63	1.10512
843	28s ribosomal protein s18a, mitochondrial precursor (mrp-s18-a) (mrps18a) (mrp-s18-3). [swissprot;acc:q9nvs2]	Subtracted	5623.18	6218.77	595.59
	unr protein. [swissprot;acc:o75534]	Divided	5195.48	5741.63	1.10512
844	atp-dependent rna helicase mgc2835; atp-dependent rna helicase; apoptosis related protein apr-5; dead box helicase 97 kda. [refseq;acc:nm_024072]	Subtracted	3641.89	4236.95	595.06
	preimplantation protein 3; likely ortholog of preimplantation protein 3. [refseq;acc:nm_015387]	Divided	6276.97	6934.8	1.1048
845	dnaj homolog subfamily b member 11 precursor (er-associated dnaj protein 3) (erj3) (er-associated hsp40 co-chaperone) (hdj9) (pwp1- interacting protein 4). [swissprot;acc:q9ubs4]
	mitotic spindle assembly checkpoint protein mad2b (mad2-like 2) (hrev7). [swissprot;acc:q9ui95]	Subtracted	5797.88	6391.75	593.87
846	biotin--protein ligase (ec 6.3.4.-) (biotin apo-protein ligase) [includes: biotin--[methylmalonyl-coa-carboxyltransferase] ligase (ec 6.3.4.9); biotin--[propionyl-coa-carboxylase [atp-hydrolyzing]] ligase (ec 6.3.4.10) (holocarboxylase synthetase) (hcs); biotin--[methylcrotonoyl-coa-carboxylase] ligase (ec 6.3.4.11); biotin--[acetyl-coa-carboxylase] ligase (ec 6.3.4.15)]. [swissprot;acc:p50747]	Divided	5607.43	6194.98	1.10478
	mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]	Subtracted	5797.88	6391.75	593.87
847	cytoplasmic protein nck2 (nck adaptor protein 2) (sh2/sh3 adaptor protein nck-beta) (nck-2). [swissprot;acc:o43639]	Divided	6776.85	7485.55	1.10458
	nuclear pore complex protein nup88 (nucleoporin nup88) (88 kda nuclear pore complex protein). [swissprot;acc:q99567]	Subtracted	5797.88	6391.75	593.87
848	phosphatidate cytidylyltransferase 1 (ec 2.7.7.41) (cdp-diglyceride synthetase 1) (cdp-diglyceride pyrophosphorylase 1) (cdp- diacylglycerol synthase 1) (cds 1) (ctp:phosphatidate cytidylyltransferase 1) (cdp-dag synthase 1) (cdp-dg synthetase 1). [swissprot;acc:q92903]		6441.56	7034.86	593.3
	wd-repeat protein bing4. [swissprot;acc:o15213]	Divided	4066.56	4491.65	1.10453
849	dna damage binding protein 1 (damage-specific dna binding protein 1) (ddb p127 subunit) (ddba) (uv-damaged dna-binding protein 1) (uv-ddb 1) (xeroderma pigmentosum group e complementing protein) (xpce) (x- associated protein 1) (xap-1). [swissprot;acc:q16531]		6194.15	6839.37	1.10417
	solute carrier family 13, member 4 (na+/sulfate cotransporter sut-1). [swissprot;acc:q9ukg4]	Subtracted	6439.63	7032.19	592.56
850	propionyl-coa carboxylase beta chain, mitochondrial precursor (ec 6.4.1.3) (pccase beta subunit) (propanoyl-coa:carbon dioxide ligase beta subunit). [swissprot;acc:p05166]	Divided	6194.15	6839.37	1.10417
	solute carrier family 13, member 3 (sodium-dependent high-affinity dicarboxylate transporter 2) (na(+)/dicarboxylate cotransporter 3) (nadc-3) (hnadc3). [swissprot;acc:q8wwt9]	Subtracted	6439.66	7032.22	592.56
851	casein kinase ii, alpha chain (ck ii) (ec 2.7.1.37). [swissprot;acc:p19138]	Divided	4307.12	4755.03	1.10399
	solute carrier family 13, member 1 (renal sodium/sulfate cotransporter) (na(+)/sulfate cotransporter) (hnasi-1). [swissprot;acc:q9bzw2]	Subtracted	6439.63	7032.19	592.56
852	casein kinase ii, alpha' chain (ck ii) (ec 2.7.1.37). [swissprot;acc:p19784]	Divided	4307.12	4755.03	1.10399
	solute carrier family 13, member 2 (renal sodium/dicarboxylate cotransporter) (na(+)/dicarboxylate cotransporter 1) (nadc-1). [swissprot;acc:q13183]	Subtracted	6439.66	7032.22	592.56
853	apoptosis antagonizing transcription factor. [refseq;acc:nm_012138]	Divided	4078.45	4502.32	1.10393
	secretory carrier-associated membrane protein 1. [swissprot;acc:o15126]	Subtracted	6439.35	7031.8	592.45
854	secretory carrier-associated membrane protein 2. [swissprot;acc:o15127]		6439.3	7031.73	592.43

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.