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

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Showing element 1258 to 1307 of 16578 in total

Value Type  : Ranked
Filtered  : 1

Rank	description	Hugo	Network Comparison Type	Interaction Map	red	green	network_comparison
315	melanoma-associated antigen c1 (mage-c1 antigen) (cancer-testis antigen ct7). [swissprot;acc:o60732]	MAGEC1	Subtracted	High confidence	88.2482	110.265	22.0168
	methionine aminopeptidase 2 (ec 3.4.11.18) (metap 2) (peptidase m 2) (initiation factor 2 associated 67 kda glycoprotein) (p67) (p67eif2). [swissprot;acc:p50579]	METAP2	Divided		244.126	268.604	1.10027
	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	melanoma-associated antigen 12 (mage-12 antigen) (mage12f). [swissprot;acc:p43365]	MAGEA4	Subtracted	High confidence	88.2482	110.265	22.0168
	potassium voltage-gated channel subfamily a member 2 (potassium channel kv1.2) (rbk2) (hbk5) (ngk1) (mk2) (hukiv). [swissprot;acc:p16389]	KCNA2	Divided	Low confidence	209.583	201.251	1.0414
	protein translation factor sui1 homolog (sui1iso1). [swissprot;acc:p41567]	EIF1		High confidence	242.694	267.017	1.10022
	u2 small nuclear ribonucleoprotein a' (u2 snrnp-a'). [swissprot;acc:p09661]	SNRPA1	Subtracted	Low confidence	202.051	193.937	8.114
317	melanoma-associated antigen 1 (mage-1 antigen) (antigen mz2-e). [swissprot;acc:p43355]	no value		High confidence	88.2482	110.265	22.0168
	microsomal signal peptidase 18 kda subunit (ec 3.4.-.-) (spase 18 kda subunit) (spc18) (endopeptidase sp18). [swissprot;acc:p21378]			Low confidence	200.213	192.103	8.11
	potassium voltage-gated channel subfamily a member 1 (potassium channel kv1.1) (huki) (hbk1). [swissprot;acc:q09470]	KCNA1	Divided		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	ba395l14.12 (novel protein similar to small nuclear ribonucleoprotein polypeptide a' (snrpa1)). [sptrembl;acc:q9nu36]		Subtracted	Low confidence	202.05	193.94	8.11
	melanoma-associated antigen 10 (mage-10 antigen). [swissprot;acc:p43363]	MAGEA10		High confidence	88.2482	110.265	22.0168
	mitochondrial 60s ribosomal protein l3 (l3mt). [swissprot;acc:p09001]	MRPL3	Divided		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
	melanoma-associated antigen b1 (mage-b1 antigen) (mage-xp antigen) (dss-ahc critical interval mage superfamily 10) (dam10). [swissprot;acc:p43366]	MAGEB4	Subtracted	High confidence	88.2482	110.265	22.0168
	mitochondrial ribosomal protein l44. [refseq;acc:nm_022915]	MRPL44		Low confidence	216.283	208.173	8.11
320	epithelial-cadherin precursor (e-cadherin) (uvomorulin) (cadherin-1) (cam 120/80). [swissprot;acc:p12830]	CDH1	Divided	High confidence	241.892	265.96	1.0995
	melanoma-associated antigen d2 (mage-d2 antigen) (breast cancer associated gene 1 protein) (bcg-1) (11b6) (hepatocellular carcinoma associated protein jcl-1). [swissprot;acc:q9unf1]	MAGED2	Subtracted		88.2482	110.265	22.0168
	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	Divided	Low confidence	217.756	226.722	1.04117
	splicing factor 3b subunit 1 (spliceosome associated protein 155) (sap 155) (sf3b155) (pre-mrna splicing factor sf3b 155 kda subunit). [swissprot;acc:o75533]	SF3B1	Subtracted		202.057	193.952	8.105
321	c367g8.3 (novel protein similar to rpl23a (60s ribosomal protein l23a)) (60s ribosomal protein l23a like). [sptrembl;acc:q9br02]	no value	Divided	High confidence	241.892	265.959	1.09949
	dynein intermediate chain 1, cytosolic (dh ic-1) (cytoplasmic dynein intermediate chain 1). [swissprot;acc:o14576]	DYNC1I1	Subtracted	Low confidence	209.495	201.474	8.021
	glioma tumor suppressor candidate region gene 2 protein (p60). [swissprot;acc:q9nzm5]	SNORD23	Divided		207.402	199.219	1.04108
	trophinin. [swissprot;acc:q12816]	TRO	Subtracted	High confidence	88.2482	110.265	22.0168
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	Divided	Low confidence	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
	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	Subtracted	Low confidence	209.518	201.554	7.964
	ribonucleoside-diphosphate reductase m2 chain (ec 1.17.4.1) (ribonucleotide reductase small chain). [swissprot;acc:p31350]	RRM2		High confidence	231.969	210.064	21.905
323	40s ribosomal protein s14 (pro2640). [swissprot;acc:p06366]	RPS14			242.238	264.11	21.872
	60s ribosomal protein l23a. [swissprot;acc:p29316]	no value	Divided		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
	protein c20orf43 (hspc164/hspc169) (ad-007) (cda05). [swissprot;acc:q9by42]	C20orf43	Subtracted		200.482	208.446	7.964
324	40s ribosomal protein s18 (ke-3) (ke3). [swissprot;acc:p25232]	no value		High confidence	242.238	264.11	21.872
	40s ribosomal protein s23. [swissprot;acc:p39028]	RPS23	Divided		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
	spry domain-containing socs box protein ssb-4. [refseq;acc:nm_080862]	SPSB4	Subtracted		219.655	211.763	7.892
325	28s ribosomal protein s12, mitochondrial precursor (mpr-s12) (mt- rps12). [swissprot;acc:o15235]	MRPS12	Divided	High confidence	243.944	268.195	1.09941
	60s ribosomal protein l13, mitochondrial (l13mt). [swissprot;acc:q9byd1]	MRPL13	Subtracted		241.828	263.62	21.792
	fragile x mental retardation 2 protein (protein fmr-2) (fmr2p) (ox19 protein) (fragile x e mental retardation syndrome protein). [swissprot;acc:p51816]	AFF2		Low confidence	219.599	211.723	7.876
	source of immunodominant mhc-associated peptides; homolog of yeast stt3 gene. [refseq;acc:nm_178862]	STT3B	Divided		199.905	192.123	1.04051
326	40s ribosomal protein s16. [swissprot;acc:p17008]	RPS16	Subtracted	High confidence	241.828	263.62	21.792
	60s ribosomal protein l5. [swissprot;acc:p46777]	RPL5	Divided		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
	laf-4 protein (lymphoid nuclear protein related to af4). [swissprot;acc:p51826]	AFF3	Subtracted		219.598	211.722	7.876
327	60s ribosomal protein l13a (23 kda highly basic protein). [swissprot;acc:p40429]	RPL13A		High confidence	241.83	263.615	21.785
	all1 fused gene from 5q31. [refseq;acc:nm_014423]	AFF4		Low confidence	219.598	211.722	7.876
	bet3 homolog. [swissprot;acc:o43617]	TRAPPC3	Divided		197.221	189.574	1.04034

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.