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	Hugo	Network Comparison Type	Value Type	Interaction Map	Filtered	red	green	network_comparison

Results: HTML CSV LaTeX

Showing element 630 to 679 of 8289 in total

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

Rank	description	Hugo	Interaction Map	red	green	network_comparison
315	tankyrase 1 (ec 2.4.2.30) (tank1) (tankyrase i) (tnks-1) (trf1- interacting ankyrin-related adp-ribose polymerase). [swissprot;acc:o95271]	TNKS	Low confidence	214.067	205.509	1.04164
316	potassium voltage-gated channel subfamily a member 2 (potassium channel kv1.2) (rbk2) (hbk5) (ngk1) (mk2) (hukiv). [swissprot;acc:p16389]	KCNA2		209.583	201.251	1.0414
	protein translation factor sui1 homolog (sui1iso1). [swissprot;acc:p41567]	EIF1	High confidence	242.694	267.017	1.10022
317	potassium voltage-gated channel subfamily a member 1 (potassium channel kv1.1) (huki) (hbk1). [swissprot;acc:q09470]	KCNA1	Low confidence	209.58	201.251	1.04139
	splicing factor 3b subunit 3 (spliceosome associated protein 130) (sap 130) (sf3b130) (pre-mrna splicing factor sf3b 130 kda subunit). [swissprot;acc:q15393]	no value	High confidence	224.445	204.044	1.09998
318	mitochondrial 60s ribosomal protein l3 (l3mt). [swissprot;acc:p09001]	MRPL3		242.011	266.18	1.09987
	potassium voltage-gated channel subfamily a member 4 (potassium channel kv1.4) (hk1) (hpcn2) (hbk4) (hukii). [swissprot;acc:p22459]	KCNA4	Low confidence	209.579	201.251	1.04138
319	60s ribosomal protein l19. [swissprot;acc:p14118]	RPL19	High confidence	240.73	264.729	1.09969
	heat-shock protein, beta-2 (hspb2) (dmpk-binding protein) (mkbp). [swissprot;acc:q16082]	HSPB2	Low confidence	212.752	204.328	1.04123
320	epithelial-cadherin precursor (e-cadherin) (uvomorulin) (cadherin-1) (cam 120/80). [swissprot;acc:p12830]	CDH1	High confidence	241.892	265.96	1.0995
	phosphorylase b kinase gamma catalytic chain, testis/liver isoform (ec 2.7.1.38) (phk-gamma-t) (phosphorylase kinase gamma subunit 2) (psk-c3). [swissprot;acc:p15735]	PHKG2	Low confidence	217.756	226.722	1.04117
321	c367g8.3 (novel protein similar to rpl23a (60s ribosomal protein l23a)) (60s ribosomal protein l23a like). [sptrembl;acc:q9br02]	no value	High confidence	241.892	265.959	1.09949
	glioma tumor suppressor candidate region gene 2 protein (p60). [swissprot;acc:q9nzm5]	SNORD23	Low confidence	207.402	199.219	1.04108
322	cleavage and polyadenylation specific factor 5, 25 kd subunit; pre-mrna cleavage factor im (25kd); pre-mrna cleavage factor im, 25kd subunit. [refseq;acc:nm_007006]	NUDT21		212.262	203.991	1.04055
	deoxyribonuclease ii beta isoform 1 precursor; deoxyribonuclease ii beta; endonuclease dlad. [refseq;acc:nm_021233]	DNASE2B	High confidence	86.7483	78.8995	1.09948
323	60s ribosomal protein l23a. [swissprot;acc:p29316]	no value		241.884	265.945	1.09947
	integrin beta-1 binding protein 2 (melusin) (mstp015). [swissprot;acc:q9ukp3]	ITGB1BP2	Low confidence	212.262	203.991	1.04055
324	40s ribosomal protein s23. [swissprot;acc:p39028]	RPS23	High confidence	243.944	268.195	1.09941
	rab3 gtpase-activating protein, non-catalytic subunit. [refseq;acc:nm_012414]	RAB3GAP2	Low confidence	212.262	203.991	1.04055
325	28s ribosomal protein s12, mitochondrial precursor (mpr-s12) (mt- rps12). [swissprot;acc:o15235]	MRPS12	High confidence	243.944	268.195	1.09941
	source of immunodominant mhc-associated peptides; homolog of yeast stt3 gene. [refseq;acc:nm_178862]	STT3B	Low confidence	199.905	192.123	1.04051
326	60s ribosomal protein l5. [swissprot;acc:p46777]	RPL5	High confidence	241.899	265.924	1.09932
	dolichyl-diphosphooligosaccharide--protein glycosyltransferase 48 kda subunit precursor (ec 2.4.1.119) (oligosaccharyl transferase 48 kda subunit) (ddost 48 kda subunit). [swissprot;acc:p39656]	DDOST	Low confidence	199.343	191.59	1.04047
327	bet3 homolog. [swissprot;acc:o43617]	TRAPPC3		197.221	189.574	1.04034
	dna-directed rna polymerase ii largest subunit (ec 2.7.7.6) (rpb1). [swissprot;acc:p24928]	POLR2A	High confidence	243.817	267.962	1.09903
328	atp-dependent rna helicase ddx24 (dead-box protein 24). [swissprot;acc:q9gzr7]	DDX24		258.437	235.183	1.09888
	splicing factor 3b subunit 2 (spliceosome associated protein 145) (sap 145) (sf3b150) (pre-mrna splicing factor sf3b 145 kda subunit). [swissprot;acc:q13435]	SF3B2	Low confidence	203.162	195.289	1.04031
329	exocyst complex component exo70. [swissprot;acc:q9upt5]	EXOC7		204.124	212.339	1.04025
	neurogenic differentiation factor 2 (neurod2). [swissprot;acc:q15784]	NEUROD2	High confidence	312	284	1.09859
330	chromodomain helicase-dna-binding protein 3 (chd-3) (mi-2 autoantigen 240 kda protein) (mi2-alpha). [swissprot;acc:q12873]	CHD3
	senescence marker protein-30 (smp-30) (regucalcin) (rc). [swissprot;acc:q15493]	RGN	Low confidence	221.437	212.889	1.04015
331	doc-1 related protein (doc-1r). [swissprot;acc:o75956]	CDK2AP2	High confidence	312	284	1.09859
	udp-glucose 4-epimerase (ec 5.1.3.2) (galactowaldenase) (udp- galactose 4-epimerase). [swissprot;acc:q14376]	GALE	Low confidence	200.249	192.535	1.04007
332	dynein intermediate chain 1, cytosolic (dh ic-1) (cytoplasmic dynein intermediate chain 1). [swissprot;acc:o14576]	DYNC1I1		209.495	201.474	1.03981
	neurogenic differentiation factor 6 (neurod6) (my051 protein). [swissprot;acc:q96nk8]	NEUROD6	High confidence	312	284	1.09859
333	neurogenic differentiation factor 1 (neurod1) (neurod). [swissprot;acc:q13562]	NEUROD1
	protein c20orf43 (hspc164/hspc169) (ad-007) (cda05). [swissprot;acc:q9by42]	C20orf43	Low confidence	200.482	208.446	1.03972
334	coiled-coil protein bicd2; homolog of drosophila bicaudal d. [refseq;acc:nm_015250]	BICD2		202.616	194.878	1.03971
	neurogenic differentiation factor 4 (neurod4). [swissprot;acc:q9hd90]	NEUROD4	High confidence	312	284	1.09859
335	bicaudal d homolog 1; bicaudal-d, drosophila, homolog of, 1. [refseq;acc:nm_001714]	BICD1	Low confidence	202.616	194.878	1.03971
	chromodomain helicase dna binding protein 5. [refseq;acc:nm_015557]	CHD5	High confidence	312	284	1.09859
336	cyclin-dependent kinase 2-associated protein 1 (cdk2-associated protein 1) (putative oral cancer suppressor) (deleted in oral cancer- 1) (doc-1). [swissprot;acc:o14519]	CDK2AP1
	tuftelin-interacting protein 11 (hspc006). [swissprot;acc:q9ubb9]	TFIP11	Low confidence	202.616	194.878	1.03971
337	60s ribosomal protein l12. [swissprot;acc:p30050]	no value	High confidence	243.583	267.527	1.0983
	serine/threonine-protein kinase kkialre (ec 2.7.1.-) (cyclin-dependent kinase-like 1). [swissprot;acc:q00532]	CDKL1	Low confidence	201.873	194.181	1.03961
338	60s ribosomal protein l12 like protein. [sptrembl;acc:o60886]	no value	High confidence	243.583	267.528	1.0983
	spliceosomal u5 snrnp-specific 15 kda protein (dim1 protein homolog) (thioredoxin-like u5 snrnp protein u5-15kd). [swissprot;acc:o14834]	TXNL4A	Low confidence	202.572	194.86	1.03958
339	dj999l4.1 (novel protein similar to ribosomal protein l12 (rpl12)). [sptrembl;acc:q9nq02]	no value	High confidence	243.583	267.527	1.0983
	geranylgeranyl pyrophosphate synthetase (ggpp synthetase) (ggppsase) (geranylgeranyl diphosphate synthase) [includes: dimethylallyltransferase (ec 2.5.1.1); geranyltranstransferase (ec 2.5.1.10); farnesyltranstransferase (ec 2.5.1.29)]. [swissprot;acc:o95749]	GGPS1	Low confidence	209.518	201.554	1.03951
340	blocked early in transport 1 homolog (s. cerevisiae) like; golgi snare 15 kda protein. [refseq;acc:nm_016526]	BET1L		201.827	194.178	1.03939

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.