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

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Showing element 6691 to 6740 of 16578 in total

Value Type  : Ranked
Filtered  : 1

Rank	Network Comparison Type	Hugo	description	Interaction Map	red	green	network_comparison
1673	Subtracted	CNDP2	cytosolic nonspecific dipeptidase (glutamate carboxypeptidase-like protein 1). [swissprot;acc:q96kp4]	Low confidence	199.862	195.806	4.056
		PPP4C	serine/threonine protein phosphatase 4 (ec 3.1.3.16) (pp4) (protein phosphatase x) (pp-x). [swissprot;acc:p33172]	High confidence	223.846	220.847	2.999
1674	Divided	LCP1	l-plastin (lymphocyte cytosolic protein 1) (lcp-1) (lc64p). [swissprot;acc:p13796]	Low confidence	201.629	197.553	1.02063
		SIP1	survival of motor neuron protein-interacting protein 1 (smn- interacting protein 1) (component of gems 2) (gemin2). [swissprot;acc:o14893]	High confidence	228.496	231.729	1.01415
	Subtracted	IGBP1	immunoglobulin-binding protein 1 (cd79a-binding protein 1) (b cell signal transduction molecule alpha 4) (alpha 4 protein). [swissprot;acc:p78318]		223.846	220.847	2.999
		PRKAA1	5'-amp-activated protein kinase, catalytic alpha-1 chain (ec 2.7.1.-) (ampk alpha-1 chain). [swissprot;acc:q13131]	Low confidence	200.836	196.78	4.056
1675	Divided	DDX20	probable atp-dependent rna helicase ddx20 (dead-box protein 20) (dead- box protein dp 103) (component of gems 3) (gemin3). [swissprot;acc:q9uhi6]	High confidence	228.496	231.729	1.01415
		PLS1	i-plastin (intestine-specific plastin). [swissprot;acc:q14651]	Low confidence	201.629	197.553	1.02063
	Subtracted	CLK1	protein kinase clk1 (ec 2.7.1.-) (clk). [swissprot;acc:p49759]		201.754	197.698	4.056
		IMPDH2	inosine-5'-monophosphate dehydrogenase 2 (ec 1.1.1.205) (imp dehydrogenase 2) (impdh-ii) (impd 2). [swissprot;acc:p12268]	High confidence	218.937	215.971	2.966
1676	Divided	no value	placental protein 11 precursor (ec 3.4.21.-) (pp11). [swissprot;acc:p21128]	Low confidence	200.947	196.885	1.02063
		TNPO1	importin beta-2 subunit (karyopherin beta-2 subunit) (transportin) (m9 region interaction protein) (mip). [swissprot;acc:q92973]	High confidence	218.691	215.645	1.01413
	Subtracted	GMPS	gmp synthase [glutamine-hydrolyzing] (ec 6.3.5.2) (glutamine amidotransferase) (gmp synthetase). [swissprot;acc:p49915]		218.937	215.971	2.966
		PRKAA2	5'-amp-activated protein kinase, catalytic alpha-2 chain (ec 2.7.1.-) (ampk alpha-2 chain). [swissprot;acc:p54646]	Low confidence	200.826	196.771	4.055
1677	Divided	GSTP1	glutathione s-transferase p (ec 2.5.1.18) (gst class-pi) (gstp1-1). [swissprot;acc:p09211]	High confidence	218.654	221.732	1.01408
		TSC22D1	regulatory protein tsc-22 (tgfb stimulated clone 22 homolog). [swissprot;acc:q15714]	Low confidence	200.947	196.885	1.02063
	Subtracted	no value	ribose-phosphate pyrophosphokinase iii (ec 2.7.6.1) (phosphoribosyl pyrophosphate synthetase iii) (prs-iii). [swissprot;acc:p21108]		199.898	195.843	4.055
		IMPDH1	inosine-5'-monophosphate dehydrogenase 1 (ec 1.1.1.205) (imp dehydrogenase 1) (impdh-i) (impd 1). [swissprot;acc:p20839]	High confidence	218.937	215.971	2.966
1678	Divided	PLS3	t-plastin. [swissprot;acc:p13797]	Low confidence	201.628	197.552	1.02063
		SRPK3	serine/threonine protein kinase 23 (ec 2.7.1.37) (muscle-specific serine kinase 1) (mssk-1). [swissprot;acc:q9upe1]	High confidence	216.899	213.889	1.01407
	Subtracted	PRPS2	ribose-phosphate pyrophosphokinase ii (ec 2.7.6.1) (phosphoribosyl pyrophosphate synthetase ii) (ppribp) (prs-ii). [swissprot;acc:p11908]	Low confidence	199.898	195.844	4.054
		RBM9	rna-binding protein 9 (rna binding motif protein 9) (hexaribonucleotide binding protein 2) (repressor of tamoxifen transcriptional activity). [swissprot;acc:o43251]	High confidence	218.515	215.551	2.964
1679	Divided	GTPBP2	gtp binding protein 2. [refseq;acc:nm_019096]		216.899	213.889	1.01407
		PLA2G3	group iii secretory phospholipase a2 precursor (ec 3.1.1.4) (phosphatidylcholine 2-acylhydrolase giii) (giii spla2). [swissprot;acc:q9nz20]	Low confidence	200.947	196.885	1.02063
	Subtracted	CSNK1D	casein kinase i, delta isoform (ec 2.7.1.-) (cki-delta) (ckid). [swissprot;acc:p48730]	High confidence	227.125	224.164	2.961
		KIF4A	chromosome-associated kinesin kif4a (chromokinesin). [swissprot;acc:o95239]	Low confidence	201.131	197.077	4.054
1680	Divided	CREBL1	cyclic-amp-dependent transcription factor atf-6 beta (activating transcription factor 6 beta) (atf6-beta) (camp responsive element binding protein-like 1) (camp response element binding protein-related protein) (creb-rp) (g13 protein). [swissprot;acc:q99941]	High confidence	216.899	213.889	1.01407
		NCK2	cytoplasmic protein nck2 (nck adaptor protein 2) (sh2/sh3 adaptor protein nck-beta) (nck-2). [swissprot;acc:o43639]	Low confidence	200.124	196.081	1.02062
	Subtracted	ATP5D	atp synthase delta chain, mitochondrial precursor (ec 3.6.3.14). [swissprot;acc:p30049]	High confidence	215.345	212.386	2.959
		BCAS2	breast carcinoma amplified sequence 2; spliceosome associated protein, amplified in breast cancer. [refseq;acc:nm_005872]	Low confidence	202.346	198.294	4.052
1681	Divided	FAM50B	dna segment on chromosome 6(unique) 2654 expressed sequence; dna segment on chromosome x (unique) 2654 expressed sequence. [refseq;acc:nm_012135]	High confidence	216.899	213.889	1.01407
		PRKAA2	5'-amp-activated protein kinase, catalytic alpha-2 chain (ec 2.7.1.-) (ampk alpha-2 chain). [swissprot;acc:p54646]	Low confidence	200.826	196.771	1.02061
	Subtracted	BECN1	beclin 1 (coiled-coil myosin-like bcl2-interacting protein) (protein gt197). [swissprot;acc:q14457]	High confidence	202.358	199.408	2.95
		CLK4	protein serine threonine kinase clk4. [refseq;acc:nm_020666]	Low confidence	201.747	197.695	4.052
1682	Divided	CNDP1	glutamate carboxypeptidase-like protein 2 precursor. [swissprot;acc:q96kn2]		199.393	195.367	1.02061
		SRPK2	sfrs protein kinase 2 isoform b. [refseq;acc:nm_182691]	High confidence	216.899	213.889	1.01407
	Subtracted	PSAT1	phosphoserine aminotransferase (ec 2.6.1.52) (psat). [swissprot;acc:q9y617]	Low confidence	189.82	185.769	4.051
		PSMC5	26s protease regulatory subunit 8 (proteasome subunit p45) (thyroid hormone receptor interacting protein 1) (trip1) (msug1 protein) (tat-binding protein homolog 10) (tbp10) (p45/sug). [swissprot;acc:p47210]	High confidence	202.358	199.408	2.95
1683	Divided	ATF6	cyclic-amp-dependent transcription factor atf-6 alpha (activating transcription factor 6 alpha) (atf6-alpha). [swissprot;acc:p18850]		216.899	213.889	1.01407
		PRKAA1	5'-amp-activated protein kinase, catalytic alpha-1 chain (ec 2.7.1.-) (ampk alpha-1 chain). [swissprot;acc:q13131]	Low confidence	200.836	196.78	1.02061
	Subtracted	BUB1B	mitotic checkpoint serine/threonine-protein kinase bub1 beta (ec 2.7.1.-) (hbubr1) (mad3/bub1-related protein kinase) (mitotic checkpoint kinase mad3l). [swissprot;acc:o60566]	High confidence	221.283	218.334	2.949
		CCNB2	g2/mitotic-specific cyclin b2. [swissprot;acc:o95067]	Low confidence	201.688	197.642	4.046
1684	Divided	PRAF2	jm4 protein. [refseq;acc:nm_007213]		203.43	199.322	1.02061
		SRPK1	sfrs protein kinase 1; sr protein kinase 1. [refseq;acc:nm_003137]	High confidence	216.899	213.889	1.01407
	Subtracted	NMT2	glycylpeptide n-tetradecanoyltransferase 2 (ec 2.3.1.97) (peptide n- myristoyltransferase 2) (myristoyl-coa:protein n-myristoyltransferase 2) (nmt 2) (type ii n-myristoyltransferase). [swissprot;acc:o60551]	Low confidence	200.606	196.56	4.046
		PNPO	pyridoxine 5'-phosphate oxidase. [refseq;acc:nm_018129]	High confidence	221.283	218.334	2.949
1685	Divided	FAM50A	xap-5 protein (hxc-26 protein). [swissprot;acc:q14320]		216.899	213.889	1.01407
		ZNF622	zinc finger-like protein 9. [refseq;acc:nm_033414]	Low confidence	202.494	198.406	1.0206
	Subtracted	no value	dok-like protein. [refseq;acc:nm_024872]		203.479	199.434	4.045
		EIF5B	translation initiation factor if-2. [swissprot;acc:o60841]	High confidence	217.263	214.315	2.948

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.