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

Results: HTML CSV LaTeX

Showing element 375 to 424 of 6456 in total

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

Rank	Hugo	description	Network Comparison Type	red	green	network_comparison
188	GSTO2	ba127l20.1 (novel glutathione-s-transferase). [sptrembl;acc:q9h4y5]	Subtracted	227.357	254.15	26.793
	PRMT1	protein arginine n-methyltransferase 1 (ec 2.1.1.-) (interferon receptor 1-bound protein 4). [swissprot;acc:q99873]	Divided	226.582	198.444	1.14179
189	PCYT1A	cholinephosphate cytidylyltransferase a (ec 2.7.7.15) (phosphorylcholine transferase a) (ctp:phosphocholine cytidylyltransferase a) (ct a) (cct a) (cct-alpha). [swissprot;acc:p49585]	Subtracted	241.373	267.352	25.979
	PRMT8	protein arginine n-methyltransferase 4 (ec 2.1.1.-). [swissprot;acc:q9nr22]	Divided	226.582	198.444	1.14179
190	FLAD1	fad synthetase. [refseq;acc:nm_025207]	Subtracted	241.373	267.352	25.979
	SNRP70	u1 small nuclear ribonucleoprotein 70 kda (u1 snrnp 70 kda) (snrnp70) (u1-70k). [swissprot;acc:p08621]	Divided	226.582	198.444	1.14179
191	no value	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]	Subtracted	241.373	267.352	25.979
		filamin a (alpha-filamin) (filamin 1) (endothelial actin-binding protein) (abp-280) (nonmuscle filamin). [swissprot;acc:p21333]	Divided	226.582	198.444	1.14179
192	LGTN	ligatin (hepatocellular carcinoma-associated antigen 56). [swissprot;acc:p41214]	Subtracted	241.373	267.352	25.979
	MSI2	musashi 2 isoform a. [refseq;acc:nm_138962]	Divided	227.491	199.458	1.14055
193	MSI1	musashi 1. [refseq;acc:nm_002442]
	PAPSS1	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]	Subtracted	241.373	267.352	25.979
194	POR	nadph-cytochrome p450 reductase (ec 1.6.2.4) (cpr) (p450r). [swissprot;acc:p16435]
	ZC3H14	nuclear protein ukp68. [refseq;acc:nm_024824]	Divided	227.491	199.458	1.14055
195	PCYT1B	cholinephosphate cytidylyltransferase b (ec 2.7.7.15) (phosphorylcholine transferase b) (ctp:phosphocholine cytidylyltransferase b) (ct b) (cct b) (cct-beta). [swissprot;acc:q9y5k3]	Subtracted	241.373	267.352	25.979
	PRPF40B	huntingtin interacting protein c. [refseq;acc:nm_012272]	Divided	227.971	200.417	1.13748
196	no value	hpaii tiny fragments locus 9c. [refseq;acc:nm_022727]	Subtracted	272.781	246.892	25.889
	FOXP4	forkhead box p4; fork head-related protein like a; winged-helix repressor foxp4. [refseq;acc:nm_138457]	Divided	263.215	231.407	1.13745
197	FOXP1	forkhead box protein p1 (hspc215). [swissprot;acc:q9h334]
	SNORA7A	60s ribosomal protein l32. [swissprot;acc:p02433]	Subtracted	241.13	266.969	25.839
198	no value	40s ribosomal protein s29. [swissprot;acc:p30054]		241.849	267.642	25.793
	FOXP3	forkhead box protein p3 (zinc finger protein jm2) (scurfin). [swissprot;acc:q9bzs1]	Divided	263.191	231.394	1.13741
199	EGFL8	palmitoyl-protein thioesterase 2 precursor (ec 3.1.2.22) (palmitoyl- protein hydrolase 2) (ppt-2) (g14). [swissprot;acc:q9umr5]		242.735	276.059	1.13729
	RPS11	40s ribosomal protein s11. [swissprot;acc:p04643]	Subtracted	241.399	267.088	25.689
200	no value	60s ribosomal protein l17 (l23). [swissprot;acc:p18621]		241.808	267.335	25.527
	EGFL7	egf-like-domain, multiple 7; neu1 protein. [refseq;acc:nm_016215]	Divided	242.718	276.018	1.1372
201	RPL11	60s ribosomal protein l11. [swissprot;acc:p39026]	Subtracted	241.828	267.346	25.518
	SF4	splicing factor 4 isoform b; rna-binding protein. [refseq;acc:nm_021164]	Divided	240.133	211.382	1.13601
202	RPS4Y2	40s ribosomal protein s4, y isoform 2. [swissprot;acc:q8td47]	Subtracted	240.758	266.079	25.321
	TRPC4	short transient receptor potential channel 4 (trpc4) (trp-related protein 4) (htrp-4) (htrp4). [swissprot;acc:q9ubn4]	Divided	201.478	228.784	1.13553
203	no value	40s ribosomal protein s4, x isoform (single copy abundant mrna protein) (scr10). [swissprot;acc:p12750]	Subtracted	240.758	266.078	25.32
	TBC1D10A	ebp50-pdz interactor of 64 kda (epi64 protein). [swissprot;acc:q9bxi6]	Divided	201.515	228.752	1.13516
204	CAPN2	calpain 2, large [catalytic] subunit precursor (ec 3.4.22.17) (calcium-activated neutral proteinase) (canp) (m-type) (m-calpain) (millimolar-calpain) (calpain large polypeptide l2). [swissprot;acc:p17655]	Subtracted	268.632	243.588	25.044
	TRPC5	short transient receptor potential channel 5 (trpc5) (htrp-5) (htrp5). [swissprot;acc:q9ul62]	Divided	201.515	228.752	1.13516
205	CAPN1	calpain 1, large [catalytic] subunit (ec 3.4.22.17) (calcium-activated neutral proteinase) (canp) (mu-type) (mucanp) (micromolar-calpain). [swissprot;acc:p07384]	Subtracted	268.635	243.592	25.043
	LUC7L2	luc7-like 2; cgi-74 protein; cgi-59 protein. [refseq;acc:nm_016019]	Divided	228.1	200.968	1.13501
206	LUC7L	luc7-like; sarcoplasmic reticulum protein luc7b1. [refseq;acc:nm_018032]		228.085	201.006	1.13472
	RPS15A	40s ribosomal protein s15a. [swissprot;acc:p39027]	Subtracted	241.411	266.414	25.003
207	EIF4G3	eukaryotic translation initiation factor 4 gamma, 3. [refseq;acc:nm_003760]		237.312	212.363	24.949
	PSEN2	presenilin 2 (ps-2) (stm-2) (e5-1) (ad3lp) (ad5). [swissprot;acc:p49810]	Divided	285.684	252.234	1.13261
208	no value	60s ribosomal protein l23 (l17). [swissprot;acc:p23131]	Subtracted	240.782	265.717	24.935
	SKP1A	s-phase kinase-associated protein 1a (cyclin a/cdk2-associated protein p19) (p19a) (p19skp1) (rna polymerase ii elongation factor-like protein) (organ of corti protein 2) (ocp-ii protein) (ocp-2) (transcription elongation factor b) (siii). [swissprot;acc:p34991]	Divided	285.684	252.234	1.13261
209	BCCIP	brca2 and cdkn1a-interacting protein isoform bccipalpha; brca2 and cdkn1a-interacting protein; cdk inhibitor p21 binding protein; bccipalpha; bccipbeta; tok-1alpha; tok-1beta. [refseq;acc:nm_016567]	Subtracted	240.782	265.717	24.935
	FBXW7	f-box protein fbw7 isoform 2; archipelago, drosophila, homolog of; f-box protein fbw7; f-box protein sel-10; homolog of c elegans sel-10. [refseq;acc:nm_018315]	Divided	285.684	252.234	1.13261
210	no value	rna-binding protein. [refseq;acc:nm_019027]	Subtracted	237.302	212.41	24.892
	CUL2	cullin homolog 2 (cul-2). [swissprot;acc:q13617]	Divided	285.684	252.234	1.13261
211	no value	apobec-1 complementation factor isoform 1; apobec-1 stimulating protein; apo-b rna editing protein. [refseq;acc:nm_014576]	Subtracted	237.302	212.41	24.892
	PSEN1	presenilin 1 (ps-1) (s182 protein). [swissprot;acc:p49768]	Divided	285.684	252.234	1.13261
212	CUL1	cullin homolog 1 (cul-1). [swissprot;acc:q13616]
	SYNCRIP	ns1-associated protein 1. [refseq;acc:nm_006372]	Subtracted	237.302	212.41	24.892

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.