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 3058 to 3107 of 8289 in total

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

Rank	Hugo	description	Interaction Map	red	green	network_comparison
1529	KLF16	transcription factor bteb4 (basic transcription element binding- protein 4) (bte-binding protein 4) (krueppel-like factor 16) (novel sp1-like zinc finger transcription factor 2) (transcription factor nslp2). [swissprot;acc:q9bxk1]	Low confidence	204.197	199.94	1.02129
1530	DRG2	developmentally regulated gtp-binding protein 2 (drg 2). [swissprot;acc:p55039]		202.231	198.015
	MLLT4	af-6 protein. [swissprot;acc:p55196]	High confidence	218.733	214.98	1.01746
1531	CRIM1	cysteine-rich motor neuron 1; cysteine-rich repeat-containing protein s52 precursor. [refseq;acc:nm_016441]		217.025	213.304	1.01744
	GPT	alanine aminotransferase (ec 2.6.1.2) (glutamic--pyruvic transaminase) (gpt) (glutamic--alanine transaminase). [swissprot;acc:p24298]	Low confidence	195.485	191.412	1.02128
1532	PPIL4	peptidylprolyl isomerase-like 4; cyclophilin-type peptidyl-prolyl cis-trans isomerase; ppiase; serologically defined breast cancer antigen ny-br-18. [refseq;acc:nm_139126]		203.549	199.307
	RBM10	rna-binding protein 10 (rna binding motif protein 10) (dxs8237e). [swissprot;acc:p98175]	High confidence	228.419	232.376	1.01732
1533	CYCS	cytochrome c. [swissprot;acc:p00001]
	ZNF259	zinc-finger protein zpr1 (zinc finger protein 259). [swissprot;acc:o75312]	Low confidence	203.346	199.108	1.02128
1534	CAB39L	mo25-like protein. [swissprot;acc:q9h9s4]		200.515	196.337
	HS6ST2	heparan sulfate 6-o-sulfotransferase 2. [refseq;acc:nm_147174]	High confidence	228.419	232.376	1.01732
1535	CHEK2	serine/threonine-protein kinase chk2 (ec 2.7.1.-) (cds1). [swissprot;acc:o96017]	Low confidence	200.266	196.095	1.02127
	HS6ST1	heparan sulfate 6-o-sulfotransferase; heparan-sulfate 6-sulfotransferase. [refseq;acc:nm_004807]	High confidence	228.419	232.376	1.01732
1536	CDIPT	cdp-diacylglycerol--inositol 3-phosphatidyltransferase (ec 2.7.8.11) (phosphatidylinositol synthase) (ptdins synthase) (pi synthase). [swissprot;acc:o14735]	Low confidence	198.934	194.79	1.02127
	FA2H	fatty acid hydroxylase domain containing 1. [refseq;acc:nm_024306]	High confidence	228.419	232.376	1.01732
1537	DDX3Y	dead-box protein 3, y-chromosomal. [swissprot;acc:o15523]	Low confidence	200.879	196.696	1.02127
	WBP11	ww domain binding protein 11; npw38-binding protein npwbp; sh3 domain-binding protein snp70. [refseq;acc:nm_016312]	High confidence	228.419	232.376	1.01732
1538	CAB39	mo25 protein (cgi-66). [swissprot;acc:q9y376]	Low confidence	200.517	196.343	1.02126
	ELAC2	elac homolog 2; putative prostate cancer susceptibility protein; elac (e. coli) homolog 2. [refseq;acc:nm_018127]	High confidence	228.419	232.376	1.01732
1539	no value	dead-box protein 3 (helicase-like protein 2) (hlp2) (dead-box, x isoform). [swissprot;acc:o00571]	Low confidence	200.878	196.696	1.02126
	RBM5	rna-binding protein 5 (rna binding motif protein 5) (putative tumor suppressor luca15) (g15 protein). [swissprot;acc:p52756]	High confidence	228.419	232.376	1.01732
1540	ATG5	autophagy protein 5-like (apg5-like) (apoptosis-specific protein). [swissprot;acc:q9h1y0]		240.077	236.015	1.01721
	GFPT2	glucosamine--fructose-6-phosphate aminotransferase [isomerizing] 2 (ec 2.6.1.16) (hexosephosphate aminotransferase 2) (d-fructose-6- phosphate amidotransferase 2) (gfat 2) (gfat2). [swissprot;acc:o94808]	Low confidence	201.26	197.072	1.02125
1541	MTHFD1	c-1-tetrahydrofolate synthase, cytoplasmic (c1-thf synthase) [includes: methylenetetrahydrofolate dehydrogenase (ec 1.5.1.5); methenyltetrahydrofolate cyclohydrolase (ec 3.5.4.9); formyltetrahydrofolate synthetase (ec 6.3.4.3)]. [swissprot;acc:p11586]		203.321	199.093	1.02124
	MYB	myb proto-oncogene protein (c-myb). [swissprot;acc:p10242]	High confidence	222.672	218.92	1.01714
1542	TMLHE	trimethyllysine dioxygenase, mitochondrial precursor (ec 1.14.11.8) (epsilon-trimethyllysine 2-oxoglutarate dioxygenase) (tml-alpha- ketoglutarate dioxygenase) (tml hydroxylase) (tml dioxygenase) (tmld). [swissprot;acc:q9nvh6]		213.546	209.965	1.01706
	VAV2	vav-2 protein. [swissprot;acc:p52735]	Low confidence	200.389	196.224	1.02123
1543	ERAL1	gtp-binding protein era homolog (hera) (fragment). [swissprot;acc:o75616]	High confidence	213.546	209.965	1.01706
	HOXB6	homeobox protein hox-b6 (hox-2b) (hox-2.2) (hu-2). [swissprot;acc:p17509]	Low confidence	203.129	198.906	1.02123
1544	NR2E1	orphan nuclear receptor nr2e1 (nuclear receptor tlx) (tailless homolog) (tll) (htll). [swissprot;acc:q9y466]	High confidence	219.762	216.081	1.01704
	PACRG	park2 co-regulated; parkin co-regulated gene protein. [refseq;acc:nm_152410]	Low confidence	203.124	198.907	1.0212
1545	ATP6V1H	vacuolar atp synthase subunit h (ec 3.6.3.14) (v-atpase h subunit) (vacuolar proton pump h subunit) (v-atpase 50/57 kda subunits) (vacuolar proton pump subunit sfd) (cgi-11). [swissprot;acc:q9ui12]		199.511	195.372	1.02119
	NR2C1	orphan nuclear receptor tr2. [swissprot;acc:p13056]	High confidence	219.76	216.083	1.01702
1546	no value	glucosamine--fructose-6-phosphate aminotransferase [isomerizing] 1 (ec 2.6.1.16) (hexosephosphate aminotransferase 1) (d-fructose-6- phosphate amidotransferase 1) (gfat 1) (gfat1). [swissprot;acc:q06210]	Low confidence	201.261	197.087	1.02118
	ASS1	argininosuccinate synthase (ec 6.3.4.5) (citrulline--aspartate ligase). [swissprot;acc:p00966]	High confidence	217.769	221.474	1.01701
1547	ATP6V1G1	vacuolar atp synthase subunit g 1 (ec 3.6.3.14) (v-atpase g subunit 1) (vacuolar proton pump g subunit 1) (v-atpase 13 kda subunit 1) (vacuolar atp synthase subunit m16). [swissprot;acc:o75348]	Low confidence	202.348	198.152	1.02118
	MYBL2	myb-related protein b (b-myb). [swissprot;acc:p10244]	High confidence	222.541	218.823	1.01699
1548	MYBL1	myb-related protein a (a-myb). [swissprot;acc:p10243]		222.512	218.802	1.01696
	UBE4B	ubiquitin conjugation factor e4 b (ubiquitin-fusion degradation protein 2) (homozygously deleted in neuroblastoma-1). [swissprot;acc:o95155]	Low confidence	202.493	198.294	1.02118
1549	ADD2	beta adducin (erythrocyte adducin beta subunit). [swissprot;acc:p35612]		205.847	201.577
	DCTN2	dynactin complex 50 kda subunit (50 kda dynein-associated polypeptide) (dynamitin) (dctn-50) (dynactin 2). [swissprot;acc:q13561]	High confidence	225.159	221.424	1.01687
1550	no value	ras-related protein rab-6c (rab6-like protein wth3). [swissprot;acc:q9h0n0]	Low confidence	200.571	196.413	1.02117
	SLC25A6	adp,atp carrier protein, liver isoform t2 (adp/atp translocase 3) (adenine nucleotide translocator 3) (ant 3). [swissprot;acc:p12236]	High confidence	225.159	221.424	1.01687
1551	SLC25A4	adp,atp carrier protein, heart/skeletal muscle isoform t1 (adp/atp translocase 1) (adenine nucleotide translocator 1) (ant 1). [swissprot;acc:p12235]
	ZNHIT3	thyroid receptor interacting protein 3 (trip-3) (fragment). [swissprot;acc:q15649]	Low confidence	201.491	197.313	1.02117
1552	HOXA6	homeobox protein hox-a6 (hox-1b). [swissprot;acc:p31267]		203.119	198.908
	SLC25A5	adp,atp carrier protein, fibroblast isoform (adp/atp translocase 2) (adenine nucleotide translocator 2) (ant 2). [swissprot;acc:p05141]	High confidence	225.159	221.424	1.01687
1553	ABCD1	adrenoleukodystrophy protein (aldp). [swissprot;acc:p33897]	Low confidence	202.418	206.704	1.02117
	AHCY	adenosylhomocysteinase (ec 3.3.1.1) (s-adenosyl-l-homocysteine hydrolase) (adohcyase). [swissprot;acc:p23526]	High confidence	215.389	211.833	1.01679
1554	CTBP1	c-terminal binding protein 1 (ctbp1). [swissprot;acc:q13363]		196.215	193.018	1.01656

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.