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	Value Type	Network Comparison Type	Interaction Map	Filtered	red	green	network_comparison

Results: HTML CSV LaTeX

Showing element 373 to 422 of 6456 in total

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

Rank	description	Hugo	Network Comparison Type	red	green	network_comparison
187	rev1-like; rev1 protein; rev1 (yeast homolog)- like. [refseq;acc:nm_016316]	REV1	Divided	226.582	198.444	1.14179
	sorting nexin 13 (rgs domain- and phox domain-containing protein) (rgs-px1). [swissprot;acc:q9y5w8]	SNX13	Subtracted	227.357	254.15	26.793
188	ba127l20.1 (novel glutathione-s-transferase). [sptrembl;acc:q9h4y5]	GSTO2
	protein arginine n-methyltransferase 1 (ec 2.1.1.-) (interferon receptor 1-bound protein 4). [swissprot;acc:q99873]	PRMT1	Divided	226.582	198.444	1.14179
189	cholinephosphate cytidylyltransferase a (ec 2.7.7.15) (phosphorylcholine transferase a) (ctp:phosphocholine cytidylyltransferase a) (ct a) (cct a) (cct-alpha). [swissprot;acc:p49585]	PCYT1A	Subtracted	241.373	267.352	25.979
	protein arginine n-methyltransferase 4 (ec 2.1.1.-). [swissprot;acc:q9nr22]	PRMT8	Divided	226.582	198.444	1.14179
190	fad synthetase. [refseq;acc:nm_025207]	FLAD1	Subtracted	241.373	267.352	25.979
	u1 small nuclear ribonucleoprotein 70 kda (u1 snrnp 70 kda) (snrnp70) (u1-70k). [swissprot;acc:p08621]	SNRP70	Divided	226.582	198.444	1.14179
191	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]	no value	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	ligatin (hepatocellular carcinoma-associated antigen 56). [swissprot;acc:p41214]	LGTN	Subtracted	241.373	267.352	25.979
	musashi 2 isoform a. [refseq;acc:nm_138962]	MSI2	Divided	227.491	199.458	1.14055
193	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]	PAPSS1	Subtracted	241.373	267.352	25.979
	musashi 1. [refseq;acc:nm_002442]	MSI1	Divided	227.491	199.458	1.14055
194	nadph-cytochrome p450 reductase (ec 1.6.2.4) (cpr) (p450r). [swissprot;acc:p16435]	POR	Subtracted	241.373	267.352	25.979
	nuclear protein ukp68. [refseq;acc:nm_024824]	ZC3H14	Divided	227.491	199.458	1.14055
195	cholinephosphate cytidylyltransferase b (ec 2.7.7.15) (phosphorylcholine transferase b) (ctp:phosphocholine cytidylyltransferase b) (ct b) (cct b) (cct-beta). [swissprot;acc:q9y5k3]	PCYT1B	Subtracted	241.373	267.352	25.979
	huntingtin interacting protein c. [refseq;acc:nm_012272]	PRPF40B	Divided	227.971	200.417	1.13748
196	forkhead box p4; fork head-related protein like a; winged-helix repressor foxp4. [refseq;acc:nm_138457]	FOXP4		263.215	231.407	1.13745
	hpaii tiny fragments locus 9c. [refseq;acc:nm_022727]	no value	Subtracted	272.781	246.892	25.889
197	60s ribosomal protein l32. [swissprot;acc:p02433]	SNORA7A		241.13	266.969	25.839
	forkhead box protein p1 (hspc215). [swissprot;acc:q9h334]	FOXP1	Divided	263.215	231.407	1.13745
198	40s ribosomal protein s29. [swissprot;acc:p30054]	no value	Subtracted	241.849	267.642	25.793
	forkhead box protein p3 (zinc finger protein jm2) (scurfin). [swissprot;acc:q9bzs1]	FOXP3	Divided	263.191	231.394	1.13741
199	40s ribosomal protein s11. [swissprot;acc:p04643]	RPS11	Subtracted	241.399	267.088	25.689
	palmitoyl-protein thioesterase 2 precursor (ec 3.1.2.22) (palmitoyl- protein hydrolase 2) (ppt-2) (g14). [swissprot;acc:q9umr5]	EGFL8	Divided	242.735	276.059	1.13729
200	60s ribosomal protein l17 (l23). [swissprot;acc:p18621]	no value	Subtracted	241.808	267.335	25.527
	egf-like-domain, multiple 7; neu1 protein. [refseq;acc:nm_016215]	EGFL7	Divided	242.718	276.018	1.1372
201	60s ribosomal protein l11. [swissprot;acc:p39026]	RPL11	Subtracted	241.828	267.346	25.518
	splicing factor 4 isoform b; rna-binding protein. [refseq;acc:nm_021164]	SF4	Divided	240.133	211.382	1.13601
202	40s ribosomal protein s4, y isoform 2. [swissprot;acc:q8td47]	RPS4Y2	Subtracted	240.758	266.079	25.321
	short transient receptor potential channel 4 (trpc4) (trp-related protein 4) (htrp-4) (htrp4). [swissprot;acc:q9ubn4]	TRPC4	Divided	201.478	228.784	1.13553
203	40s ribosomal protein s4, x isoform (single copy abundant mrna protein) (scr10). [swissprot;acc:p12750]	no value	Subtracted	240.758	266.078	25.32
	ebp50-pdz interactor of 64 kda (epi64 protein). [swissprot;acc:q9bxi6]	TBC1D10A	Divided	201.515	228.752	1.13516
204	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]	CAPN2	Subtracted	268.632	243.588	25.044
	short transient receptor potential channel 5 (trpc5) (htrp-5) (htrp5). [swissprot;acc:q9ul62]	TRPC5	Divided	201.515	228.752	1.13516
205	calpain 1, large [catalytic] subunit (ec 3.4.22.17) (calcium-activated neutral proteinase) (canp) (mu-type) (mucanp) (micromolar-calpain). [swissprot;acc:p07384]	CAPN1	Subtracted	268.635	243.592	25.043
	luc7-like 2; cgi-74 protein; cgi-59 protein. [refseq;acc:nm_016019]	LUC7L2	Divided	228.1	200.968	1.13501
206	40s ribosomal protein s15a. [swissprot;acc:p39027]	RPS15A	Subtracted	241.411	266.414	25.003
	luc7-like; sarcoplasmic reticulum protein luc7b1. [refseq;acc:nm_018032]	LUC7L	Divided	228.085	201.006	1.13472
207	eukaryotic translation initiation factor 4 gamma, 3. [refseq;acc:nm_003760]	EIF4G3	Subtracted	237.312	212.363	24.949
	presenilin 2 (ps-2) (stm-2) (e5-1) (ad3lp) (ad5). [swissprot;acc:p49810]	PSEN2	Divided	285.684	252.234	1.13261
208	60s ribosomal protein l23 (l17). [swissprot;acc:p23131]	no value	Subtracted	240.782	265.717	24.935
	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]	SKP1A	Divided	285.684	252.234	1.13261
209	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]	BCCIP	Subtracted	240.782	265.717	24.935
	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]	FBXW7	Divided	285.684	252.234	1.13261
210	cullin homolog 2 (cul-2). [swissprot;acc:q13617]	CUL2
	rna-binding protein. [refseq;acc:nm_019027]	no value	Subtracted	237.302	212.41	24.892
211	apobec-1 complementation factor isoform 1; apobec-1 stimulating protein; apo-b rna editing protein. [refseq;acc:nm_014576]
	presenilin 1 (ps-1) (s182 protein). [swissprot;acc:p49768]	PSEN1	Divided	285.684	252.234	1.13261

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.