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 454 to 503 of 3730 in total

Value Type  : Ranked
Network Comparison Type  : Divided
Interaction Map  : High confidence

Rank	Hugo	description	Filtered	red	green	network_comparison
227	TIGD6	tigger transposable element derived 6. [refseq;acc:nm_030953]	0	12360	11200.2	1.10355
228	SEPSECS	soluble liver antigen/liver pancreas antigen. [refseq;acc:nm_153825]		10303.5	11370.4
	SH2D3C	sh2 domain containing 3c; novel sh2-containing protein 3; sh2 domain-containing 3c; likely ortholog of mouse cas/hef1-associated signal transducer. [refseq;acc:nm_005489]	1	226.411	202.088	1.12036
229	no value	poly (adp-ribose) glycohydrolase. [refseq;acc:nm_003631]	0	10899.4	9878.1	1.10339
	BCAR3	breast cancer antiestrogen resistance 3. [refseq;acc:nm_003567]	1	226.401	202.094	1.12028
230	CSRP1	cysteine-rich protein 1 (crp1) (crp). [swissprot;acc:p21291]		239.35	267.915	1.11934
	TIGD7	tigger transposable element derived 7; jerky (mouse) homolog-like. [refseq;acc:nm_033208]	0	12364.7	11207.7	1.10323
231	SHCBP1	likely ortholog of mouse shc sh2-domain binding protein 1. [refseq;acc:nm_024745]	1	239.336	267.881	1.11927
	TIGD1	tigger transposable element derived 1; jerky (mouse) homolog-like. [refseq;acc:nm_145702]	0	12364.8	11207.9	1.10322
232	CSRP2	smooth muscle cell lim protein (cysteine-rich protein 2) (crp2) (lim-only protein 5). [swissprot;acc:q16527]	1	239.336	267.879	1.11926
	KYNU	kynureninase (ec 3.7.1.3) (l-kynurenine hydrolase). [swissprot;acc:q16719]	0	12394.7	11240.2	1.10271
233	no value	60s acidic ribosomal protein p1. [swissprot;acc:p05386]		9586.97	10560	1.1015
	CSRP3	lim domain protein, cardiac (muscle lim protein) (cysteine-rich protein 3) (crp3). [swissprot;acc:p50461]	1	239.32	267.842	1.11918
234	no value	transcription factor 4 (immunoglobulin transcription factor 2) (itf-2) (sl3-3 enhancer factor 2) (sef-2). [swissprot;acc:p15884]	0	16614	18296	1.10124
	CHRAC1	chromatin accessibility complex protein 1 (chrac-1) (chrac-15) (huchrac15) (dna polymerase epsilon subunit p15). [swissprot;acc:q9nrg0]	1	287.41	256.835	1.11905
235	EEF1AL3	elongation factor 1-alpha 1 (ef-1-alpha-1) (elongation factor 1 a-1) (eef1a-1) (elongation factor tu) (ef-tu). [swissprot;acc:p04720]	0	14554.5	16027.9	1.10123
	PAH	phenylalanine-4-hydroxylase (ec 1.14.16.1) (pah) (phe-4- monooxygenase). [swissprot;acc:p00439]	1	227.357	254.15	1.11785
236	DUS1L	pp3111 protein. [refseq;acc:nm_022156]
	PPP1R2	protein phosphatase inhibitor 2 (ipp-2). [swissprot;acc:p41236]	0	15245.4	16788.5	1.10122
237	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]		9984	9067	1.10114
	STX18	syntaxin 18. [swissprot;acc:q9p2w9]	1	227.357	254.15	1.11785
238	no value	cyclin-dependent kinases regulatory subunit 1 (cks-1) (sid1334) (pnas-16 / pnas-143). [swissprot;acc:p33551]	0	12677.7	13941.7	1.0997
		rd protein. [swissprot;acc:p18615]	1	227.357	254.15	1.11785
239	GSTO1	glutathione transferase omega 1 (ec 2.5.1.18) (gsto 1-1). [swissprot;acc:p78417]
	MTO1	mto1 protein homolog (cgi-02). [swissprot;acc:q9y2z2]	0	8907.41	9795.36	1.09969
240	no value	methyltransferase like 2. [refseq;acc:nm_018396]		17946	16326	1.09923
	AIG1	androgen-induced 1; cgi-103 protein; androgen induced protein. [refseq;acc:nm_016108]	1	227.357	254.15	1.11785
241	no value	secreted modular calcium-binding protein 1. [refseq;acc:nm_022137]	0	14003.7	12743.3	1.09891
	ATP5F1	atp synthase b chain, mitochondrial precursor (ec 3.6.3.14). [swissprot;acc:p24539]	1	227.357	254.15	1.11785
242	DNAJC12	j domain containing protein 1. [swissprot;acc:q9ukb3]
	GBE1	1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446]	0	15260.6	13895.8	1.09822
243	PABPC3	polyadenylate-binding protein 3 (poly(a)-binding protein 3) (pabp 3) (testis-specific poly(a)-binding protein). [swissprot;acc:q9h361]		1251	1373	1.09752
	SNX13	sorting nexin 13 (rgs domain- and phox domain-containing protein) (rgs-px1). [swissprot;acc:q9y5w8]	1	227.357	254.15	1.11785
244	GSTO2	ba127l20.1 (novel glutathione-s-transferase). [sptrembl;acc:q9h4y5]
	KRTAP9-8	keratin associated protein 9.2. [refseq;acc:nm_031961]	0	10551.1	11579.9	1.09751
245	CDK3	cell division protein kinase 3 (ec 2.7.1.-). [swissprot;acc:q00526]		11867.6	13019	1.09702
	SNRPD3	small nuclear ribonucleoprotein sm d3 (snrnp core protein d3) (sm-d3). [swissprot;acc:p43331]	1	226.109	202.333	1.11751
246	no value	keratin associated protein 4.3 (fragment). [sptrembl;acc:q9byr4]	0	10551.6	11573.7	1.09687
	EIF4G3	eukaryotic translation initiation factor 4 gamma, 3. [refseq;acc:nm_003760]	1	237.312	212.363	1.11748
247	no value	keratin associated protein 2-4; keratin associated protein 2.4. [refseq;acc:nm_033184]	0	10551.6	11573.7	1.09687
		rna-binding protein. [refseq;acc:nm_019027]	1	237.302	212.41	1.11719
248		apobec-1 complementation factor isoform 1; apobec-1 stimulating protein; apo-b rna editing protein. [refseq;acc:nm_014576]
		keratin associated protein 1.5. [refseq;acc:nm_031957]	0	10551.6	11573.7	1.09687
249		keratin, ultra high-sulfur matrix protein a (uhs keratin a) (uhs kera). [swissprot;acc:p26371]
	SYNCRIP	ns1-associated protein 1. [refseq;acc:nm_006372]	1	237.302	212.41	1.11719
250	no value	keratin associated protein 1-3; keratin associated protein 1.3. [refseq;acc:nm_030966]	0	10551.6	11573.7	1.09687
	HNRNPR	heterogeneous nuclear ribonucleoprotein r (hnrnp r). [swissprot;acc:o43390]	1	237.302	212.41	1.11719
251	no value	keratin associated protein 4-10; keratin associated protein 4.10. [refseq;acc:nm_033060]	0	10551.6	11573.6	1.09686
	SLC15A1	oligopeptide transporter, small intestine isoform (peptide transporter 1) (intestinal h+/peptide cotransporter) (solute carrier family 15, member 1). [swissprot;acc:p46059]	1	186.172	166.661	1.11707
252	no value	keratin associated protein 4-14; keratin associated protein 4.14. [refseq;acc:nm_033059]	0	10551.6	11573.5	1.09685

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.