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

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Showing element 1312 to 1361 of 8289 in total

Network Comparison Type  : Divided
Value Type  : Ranked
Filtered  : 1

description	Rank	Hugo	Interaction Map	red	green	network_comparison
ccaat-binding transcription factor subunit b (cbf-b) (nf-y protein chain a) (nf-ya) (caat-box dna binding protein subunit a). [swissprot;acc:p23511]	232	NFYA	Low confidence	214.032	204.284	1.04772
ccaat-box-binding transcription factor (ccaat-binding factor) (cbf). [swissprot;acc:q03701]	408	CEBPZ	High confidence	255.112	234.804	1.08649
	581		Low confidence	205.428	199.293	1.03078
ccr4-not transcription complex, subunit 3; not3 (negative regulator of transcription 3, yeast) homolog. [refseq;acc:nm_014516]	2949	CNOT3		203.908	200.509	1.01695
	3163		High confidence	0.00001	0.00001	1
ccr4-not transcription complex, subunit 4; not4 (negative regulator of transcription 4, yeast) homolog; ccr4-not transcription complex, subunit. [refseq;acc:nm_013316]	1390	CNOT4		218.47	213.875	1.02148
	2422		Low confidence	201.298	197.652	1.01845
ccr4-not transcription complex, subunit 6-like. [refseq;acc:nm_144571]	2958	CNOT6L	High confidence	0.00001	0.00001	1
	4214		Low confidence	196.65	194.692	1.01006
ccr4-not transcription complex, subunit 7 (ccr4-associated factor 1) (caf1) (btg1 binding factor 1). [swissprot;acc:q9uiv1]	1238	no value		202.15	197.664	1.0227
	3226		High confidence	0.00001	0.00001	1
ccr4-not transcription complex, subunit 8 (caf1-like protein) (califp). [swissprot;acc:q9uff9]	1247	CNOT8	Low confidence	202.14	197.663	1.02265
	2890		High confidence	0.00001	0.00001	1
cd109; gov system alloantigens on platelets. [refseq;acc:nm_133493]	1206	CD109	Low confidence	203.629	208.303	1.02295
	2075		High confidence	221.703	223.483	1.00803
cd209 antigen-like; putative type ii membrane protein. [refseq;acc:nm_014257]	418	CLEC4M		233.539	253.197	1.08417
	4590		Low confidence	204.076	202.598	1.0073
cd209 antigen; dendritic cell-specific icam3-grabbing nonintegrin. [refseq;acc:nm_021155]	420	CD209	High confidence	233.539	253.197	1.08417
	4591		Low confidence	204.077	202.6	1.00729
cd82 antigen (inducible membrane protein r2) (c33 antigen) (ia4) (metastasis suppressor kangai 1) (suppressor of tumorigenicity-6). [swissprot;acc:p27701]	427	CD82		197.9	204.85	1.03512
cda02 protein. [refseq;acc:nm_032025]	2349	EIF2A		202.401	198.706	1.0186
cda11 protein. [refseq;acc:nm_032026]	1579	TATDN1	High confidence	213.181	209.732	1.01644
	1794		Low confidence	199.338	195.403	1.02014
cda14. [refseq;acc:nm_016570]	592	ERGIC2		211.525	205.3	1.03032
cdc14 homolog a isoform 1. [refseq;acc:nm_003672]	2473	CDC14A		198.332	194.773	1.01827
cdc14 homolog b isoform 2. [refseq;acc:nm_033331]	2470	CDC14C		198.419	194.857	1.01828
cdc16 homolog; cell division cycle 16; anaphase-promoting complex, subunit 6. [refseq;acc:nm_003903]	2326	CDC16		200.86	197.183	1.01865
cdc42 guanine exchange factor 9; hpem-2 collybistin. [refseq;acc:nm_015185]	1778	ARHGEF9	High confidence	216.878	214.286	1.0121
	1986		Low confidence	202.237	198.364	1.01952
cdc42-binding protein kinase beta; cdc42-binding protein kinase beta (dmpk-like); mrck beta; dmpk-like. [refseq;acc:nm_006035]	2889	no value		202.423	199.021	1.01709
cdc42-interacting protein 4 (thyroid receptor interacting protein 10) (trip-10). [swissprot;acc:q15642]	437	TRIP10	High confidence	209.921	226.459	1.07878
	978		Low confidence	201.137	196.296	1.02466
cdc45-related protein (porc-pi-1). [swissprot;acc:o75419]	3197	CDC45L		200.602	197.434	1.01605
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]	692	CDC5L	High confidence	217.602	206.195	1.05532
	885		Low confidence	202.572	197.533	1.02551
cdc6 homolog; cdc18 (cell division cycle 18, s.pombe, homolog)-like; cdc6-related protein. [refseq;acc:nm_001254]	4841	CDC6		198.263	197.58	1.00346
cdk-activating kinase assembly factor mat1 (ring finger protein mat1) (menage a trois) (cdk7/cyclin h assembly factor) (p36) (p35) (cyclin g1 interacting protein). [swissprot;acc:p51948]	1492	MNAT1		201.276	197.051	1.02144
	3209		High confidence	0.00001	0.00001	1
cdp-diacylglycerol--inositol 3-phosphatidyltransferase (ec 2.7.8.11) (phosphatidylinositol synthase) (ptdins synthase) (pi synthase). [swissprot;acc:o14735]	1536	CDIPT	Low confidence	198.934	194.79	1.02127
	2155		High confidence	200.063	198.71	1.00681
cell adhesion molecule with homology to l1cam precursor; neural cell adhesion molecule; cell adhesion molecule l1-like; l1 cell adhesion molecule 2. [refseq;acc:nm_006614]	2739	CHL1		198.278	198.321	1.00022
	2759		Low confidence	200.289	196.856	1.01744
cell division control protein 2 homolog (ec 2.7.1.-) (p34 protein kinase) (cyclin-dependent kinase 1) (cdk1). [swissprot;acc:p06493]	1585	CDC2	High confidence	168.145	170.888	1.01631
	2035		Low confidence	201.546	197.713	1.01939
cell division cycle 2-like protein kinase 5 (ec 2.7.1.-) (cholinesterase-related cell division controller) (cdc2-related protein kinase 5). [swissprot;acc:q14004]	3984	CDC2L5		202.774	200.388	1.01191
cell division cycle 2-related protein kinase 7 (ec 2.7.1.-) (cdc2- related protein kinase 7) (crkrs). [swissprot;acc:q9nyv4]	4003	CRKRS		202.807	200.463	1.01169
cell division cycle 20; cell division cycle 20, s.cerevisiae homolog. [refseq;acc:nm_001255]	3875	CDC20		197.394	194.891	1.01284
cell division cycle protein 23; anaphase-promoting complex subunit 8. [refseq;acc:nm_004661]	1481	CDC23	High confidence	208.432	204.516	1.01915
	3443		Low confidence	201.288	198.276	1.01519
cell division protein kinase 2 (ec 2.7.1.-) (p33 protein kinase). [swissprot;acc:p24941]	1583	CDK2	High confidence	168.091	170.837	1.01634

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
- Hugo is the HGNC identifier if it exists
- 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.