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	Network Comparison Type	Value Type	Interaction Map	Filtered	red	network_comparison	green

Results: HTML CSV LaTeX

Showing element 3001 to 3050 of 16578 in total

Value Type  : Ranked
Filtered  : 1

Rank	Hugo	description	Network Comparison Type	Interaction Map	red	network_comparison	green
751	no value	u2 small nuclear ribonucleoprotein auxiliary factor 35 kda subunit related-protein 1. [swissprot;acc:q15695]	Divided	High confidence	223.463	1.04974	212.875
	ARPC1A	actin-related protein 2/3 complex subunit 1a (sop2-like protein). [swissprot;acc:q92747]	Subtracted	Low confidence	201.571	5.382	196.189
	CLPX	atp-dependent clp protease atp-binding subunit clpx-like, mitochondrial precursor. [swissprot;acc:o76031]	Divided		202.039	1.02705	196.717
	DNAJB5	dnaj homolog subfamily b member 5 (heat shock protein hsp40-3) (heat shock protein cognate 40) (hsc40) (hsp40-2). [swissprot;acc:o75953]	Subtracted	High confidence	210.946	10.279	221.225
752	DNAJB1	dnaj homolog subfamily b member 1 (heat shock 40 kda protein 1) (heat shock protein 40) (hsp40) (dnaj protein homolog 1) (hdj-1). [swissprot;acc:p25685]
	ERBB3	receptor protein-tyrosine kinase erbb-3 precursor (ec 2.7.1.112) (c-erbb3) (tyrosine kinase-type cell surface receptor her3). [swissprot;acc:p21860]	Divided	Low confidence	211.36	1.02705	205.793
	FBXL11	f-box and leucine-rich repeat protein 11; f-box protein fbl11. [refseq;acc:nm_012308]	Subtracted		202.957	5.38	208.337
	SLU7	step ii splicing factor slu7. [refseq;acc:nm_006425]	Divided	High confidence	223.463	1.04974	212.875
753	ETF1	eukaryotic peptide chain release factor subunit 1 (erf1) (eukaryotic release factor 1) (tb3-1) (c11 protein). [swissprot;acc:p46055]	Subtracted		210.946	10.279	221.225
	LBP	lipopolysaccharide-binding protein precursor (lbp). [swissprot;acc:p18428]	Divided		224.434	1.04968	235.583
	PDCD11	rrp5 protein homolog (programmed cell death protein 11). [swissprot;acc:q14690]	Subtracted	Low confidence	202.639	5.378	197.261
	POLDIP2	dna polymerase delta p38 subunit. [refseq;acc:nm_015584]	Divided		202.039	1.02705	196.717
754	no value	tbc1 domain family, member 8 (with gram domain); vascular rab-gap/tbc-containing. [refseq;acc:nm_007063]	Subtracted		203.545	5.369	198.176
	PRMT1	protein arginine n-methyltransferase 1 (ec 2.1.1.-) (interferon receptor 1-bound protein 4). [swissprot;acc:q99873]	Divided		203.246	1.02704	197.894
	SPCS2	microsomal signal peptidase 25 kda subunit (ec 3.4.-.-) (spase 25 kda subunit) (spc25). [swissprot;acc:q15005]		High confidence	224.434	1.04968	235.583
	VPS52	suppressor of actin mutations 2-like isoform b; dj1033b10.5. [refseq;acc:nm_022553]	Subtracted		210.946	10.279	221.225
755	no value	40s ribosomal protein sa (p40) (34/67 kda laminin receptor) (colon carcinoma laminin-binding protein) (nem/1chd4) (multidrug resistance- associated protein mgr1-ag). [swissprot;acc:p08865]			224.244	10.267	234.511
	EPS8L2	epidermal growth factor receptor pathway substrate 8-like protein 2; eps8-related protein 2; epidermal growth factor receptor pathway substrate 8-related protein 2. [refseq;acc:nm_022772]	Divided	Low confidence	206.435	1.02703	201.001
	PDK4	[pyruvate dehydrogenase [lipoamide]] kinase isozyme 4, mitochondrial precursor (ec 2.7.1.99) (pyruvate dehydrogenase kinase isoform 4). [swissprot;acc:q16654]	Subtracted		203.545	5.369	198.176
	UMPS	uridine 5'-monophosphate synthase (ump synthase) [includes: orotate phosphoribosyltransferase (ec 2.4.2.10) (oprtase); orotidine 5'- phosphate decarboxylase (ec 4.1.1.23) (ompdecase)]. [swissprot;acc:p11172]	Divided	High confidence	224.434	1.04968	235.583
756	CLPTM1	cleft lip and palate associated transmembrane protein 1. [refseq;acc:nm_001294]
	LSM5	u6 snrna-associated sm-like protein lsm5. [swissprot;acc:q9y4y9]		Low confidence	201.703	1.02703	196.395
	PDK3	[pyruvate dehydrogenase [lipoamide]] kinase isozyme 3, mitochondrial precursor (ec 2.7.1.99) (pyruvate dehydrogenase kinase isoform 3). [swissprot;acc:q15120]	Subtracted		203.543	5.367	198.176
	RPS21	40s ribosomal protein s21. [swissprot;acc:p35265]		High confidence	224.244	10.267	234.511
757	BPI	bactericidal permeability-increasing protein precursor (bpi) (cap 57). [swissprot;acc:p17213]	Divided		224.434	1.04968	235.583
	EGFR	epidermal growth factor receptor precursor (ec 2.7.1.112) (receptor protein-tyrosine kinase erbb-1). [swissprot;acc:p00533]		Low confidence	211.344	1.027	205.788
	PRMT8	protein arginine n-methyltransferase 4 (ec 2.1.1.-). [swissprot;acc:q9nr22]	Subtracted		203.233	5.363	197.87
	SERPINB9	cytoplasmic antiproteinase 3 (cap3) (cap-3) (protease inhibitor 9) (serpin b9). [swissprot;acc:p50453]		High confidence	224.244	10.267	234.511
758	no value	maspin precursor (protease inhibitor 5). [swissprot;acc:p36952]
	ERBB2	receptor protein-tyrosine kinase erbb-2 precursor (ec 2.7.1.112) (p185erbb2) (neu proto-oncogene) (c-erbb-2) (tyrosine kinase-type cell surface receptor her2) (mln 19). [swissprot;acc:p04626]	Divided	Low confidence	211.342	1.02699	205.787
	IMMP2L	imp2 inner mitochondrial membrane protease-like; inner mitochondrial membrane peptidase 2 like. [refseq;acc:nm_032549]	Subtracted		198.97	5.361	193.609
	PLTP	phospholipid transfer protein precursor (lipid transfer protein ii). [swissprot;acc:p55058]	Divided	High confidence	224.434	1.04968	235.583
759	ARD1A	n-terminal acetyltransferase complex ard1 subunit homolog (ec 2.3.1.-). [swissprot;acc:p41227]		Low confidence	200.18	1.02697	194.922
	OSTF1	osteoclast stimulating factor 1. [swissprot;acc:q92882]		High confidence	231.809	1.04952	243.289
	SERPINB10	bomapin (protease inhibitor 10) (serpin b10). [swissprot;acc:p48595]	Subtracted		224.244	10.267	234.511
	UBAP2	ubiquitin associated protein 2 isoform 1; ad-012 protein. [refseq;acc:nm_018449]		Low confidence	205.905	5.36	200.545
760	NAT10	upf0202 protein kiaa1709. [swissprot;acc:q9h0a0]	Divided	High confidence	246.055	1.04946	234.458
	SERPINB8	plasminogen activator inhibitor-2 precursor (pai-2) (placental plasminogen activator inhibitor) (monocyte arg-serpin) (urokinase inhibitor). [swissprot;acc:p05120]	Subtracted		224.244	10.267	234.511
	TIMM13	mitochondrial import inner membrane translocase subunit tim13 b. [swissprot;acc:q9y5l4]		Low confidence	203.24	5.357	197.883
	TNPO3	transportin-sr; importin 12. [refseq;acc:nm_012470]	Divided		191.294	1.02697	186.27
761	no value	serpin b11. [swissprot;acc:q96p15]	Subtracted	High confidence	224.244	10.267	234.511
	C16orf80	transcription factor iib. [refseq;acc:nm_013242]		Low confidence	205.668	5.355	200.313
	CBLB	signal transduction protein cbl-b (sh3-binding protein cbl-b). [swissprot;acc:q13191]	Divided	High confidence	213.325	1.0493	203.303
	NKX2-3	homeobox protein nkx-2.3 (homeobox protein nkx-2.3) (homeobox protein nk-2 homolog c). [swissprot;acc:q8tau0]		Low confidence	206.052	1.02695	200.644
762	CBL	cbl e3 ubiquitin protein ligase (ec 6.3.2.-) (signal transduction protein cbl) (proto-oncogene c-cbl). [swissprot;acc:p22681]		High confidence	213.256	1.0493	203.237
	CHD3	chromodomain helicase-dna-binding protein 3 (chd-3) (mi-2 autoantigen 240 kda protein) (mi2-alpha). [swissprot;acc:q12873]		Low confidence	213.926	1.02694	208.315
	PRMT1	protein arginine n-methyltransferase 1 (ec 2.1.1.-) (interferon receptor 1-bound protein 4). [swissprot;acc:q99873]	Subtracted		203.246	5.352	197.894
	SERPINB6	placental thrombin inhibitor (cytoplasmic antiproteinase) (cap) (protease inhibitor 6) (pi-6). [swissprot;acc:p35237]		High confidence	224.244	10.267	234.511
763	no value	cytoplasmic antiproteinase 2 (cap2) (cap-2) (protease inhibitor 8) (serpin b8). [swissprot;acc:p50452]
	CHD5	chromodomain helicase dna binding protein 5. [refseq;acc:nm_015557]	Divided	Low confidence	213.929	1.02693	208.318

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.