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 358 to 407 of 6456 in total

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

Rank	Hugo	description	Network Comparison Type	red	green	network_comparison
179	PAH	phenylalanine-4-hydroxylase (ec 1.14.16.1) (pah) (phe-4- monooxygenase). [swissprot;acc:p00439]	Subtracted	227.357	254.15	26.793
180	DUS1L	pp3111 protein. [refseq;acc:nm_022156]
	TARDBP	tar dna-binding protein-43 (tdp-43). [swissprot;acc:q13148]	Divided	256.228	298.438	1.16474
181	B9D1	b9 protein; likely ortholog of mouse endothelial precursor protein b9. [refseq;acc:nm_015681]		229.818	267.265	1.16294
	STX18	syntaxin 18. [swissprot;acc:q9p2w9]	Subtracted	227.357	254.15	26.793
182	no value	rd protein. [swissprot;acc:p18615]
	HAT1	histone acetyltransferase type b catalytic subunit (ec 2.3.1.48). [swissprot;acc:o14929]	Divided	277.546	240.461	1.15422
183	GSTO1	glutathione transferase omega 1 (ec 2.5.1.18) (gsto 1-1). [swissprot;acc:p78417]	Subtracted	227.357	254.15	26.793
	NCBP2	20 kda nuclear cap binding protein (ncbp 20 kda subunit) (cbp20) (ncbp interacting protein 1) (nip1). [swissprot;acc:p52298]	Divided	228.306	198.011	1.153
184	AIG1	androgen-induced 1; cgi-103 protein; androgen induced protein. [refseq;acc:nm_016108]	Subtracted	227.357	254.15	26.793
	OSR1	odd-skipped related 1; odz (odd oz/ten-m) related 1. [refseq;acc:nm_145260]	Divided	274.027	237.79	1.15239
185	ADIPOR2	adiponectin receptor 2. [refseq;acc:nm_024551]		281.582	246.371	1.14292
	ATP5F1	atp synthase b chain, mitochondrial precursor (ec 3.6.3.14). [swissprot;acc:p24539]	Subtracted	227.357	254.15	26.793
186	DNAJC12	j domain containing protein 1. [swissprot;acc:q9ukb3]
	FLNB	filamin b, beta (actin binding protein 278); beta filamin; filamin 1 (actin-binding protein-280)-like; filamin b, beta (actin-binding protein-278); filamin b, beta. [refseq;acc:nm_001457]	Divided	226.582	198.444	1.14179
187	REV1	rev1-like; rev1 protein; rev1 (yeast homolog)- like. [refseq;acc:nm_016316]
	SNX13	sorting nexin 13 (rgs domain- and phox domain-containing protein) (rgs-px1). [swissprot;acc:q9y5w8]	Subtracted	227.357	254.15	26.793
188	GSTO2	ba127l20.1 (novel glutathione-s-transferase). [sptrembl;acc:q9h4y5]
	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

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.