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

Results: HTML CSV LaTeX

Showing element 1951 to 2000 of 14920 in total

Network Comparison Type  : Divided
Interaction Map  : High confidence

Rank	description	Value Type	Filtered	red	green	network_comparison
244	myosin vb (myosin 5b) (fragment). [swissprot;acc:q9ulv0]	Rooted	1	146.94	167.046	1.13683
	ubiquinone biosynthesis protein coq7 homolog (coenzyme q biosynthesis protein 7 homolog) (timing protein clk-1 homolog). [swissprot;acc:q99807]	Measured		4250.14	5211.25	1.22614
245	1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446]	Squared		8875.01	6768.05	1.31131
	c367g8.3 (novel protein similar to rpl23a (60s ribosomal protein l23a)) (60s ribosomal protein l23a like). [sptrembl;acc:q9br02]	Rooted	0	22.6521	25.1534	1.11042
	cell division protein kinase 3 (ec 2.7.1.-). [swissprot;acc:q00526]	Ranked		11867.6	13019	1.09702
	homer, neuronal immediate early gene, 1b. [refseq;acc:nm_004272]	Measured	1	4251.65	5212.33	1.22595
	keratin associated protein 1.5. [refseq;acc:nm_031957]		0	1225.09	1079.36	1.13502
	myosin vc (myosin 5c). [swissprot;acc:q9nqx4]	Rooted	1	146.94	167.046	1.13683
	ret finger protein 2 (leukemia associated protein 5) (b-cell chronic lymphocytic leukemia tumor suppressor leu5) (putative tumor suppressor rfp2) (tripartite motif protein 13). [swissprot;acc:o60858]	Squared	0	10596.4	8278.87	1.27993
	small nuclear ribonucleoprotein sm d3 (snrnp core protein d3) (sm-d3). [swissprot;acc:p43331]	Ranked	1	226.109	202.333	1.11751
246	eukaryotic translation initiation factor 4 gamma, 3. [refseq;acc:nm_003760]			237.312	212.363	1.11748
	glycogen phosphorylase, brain form (ec 2.4.1.1). [swissprot;acc:p11216]	Squared		8875.01	6768.05	1.31131
	heat shock 70 kda protein 1 (hsp70.1) (hsp70-1/hsp70-2). [swissprot;acc:p08107]		0	7273.2	9308.93	1.27989
	homer, neuronal immediate early gene, 3. [refseq;acc:nm_004838]	Measured	1	4252.66	5213.05	1.22583
	keratin associated protein 4.3 (fragment). [sptrembl;acc:q9byr4]	Ranked	0	10551.6	11573.7	1.09687
	keratin, ultra high-sulfur matrix protein a (uhs keratin a) (uhs kera). [swissprot;acc:p26371]	Measured		1225.09	1079.36	1.13502
	maguk p55 subfamily member 2 (mpp2 protein) (discs, large homolog 2). [swissprot;acc:q14168]	Rooted		12.8935	14.3151	1.11026
	myosin va (myosin 5a) (dilute myosin heavy chain, non-muscle) (myosin heavy chain 12) (myoxin). [swissprot;acc:q9y4i1]		1	146.94	167.046	1.13683
247	acrc protein; putative nuclear protein. [refseq;acc:nm_052957]	Squared	0	20324.3	15893.2	1.2788
	glycogen phosphorylase, liver form (ec 2.4.1.1). [swissprot;acc:p06737]		1	8875.01	6768.05	1.31131
	keratin associated protein 1-3; keratin associated protein 1.3. [refseq;acc:nm_030966]	Measured	0	1225.09	1079.36	1.13502
	keratin associated protein 2-4; keratin associated protein 2.4. [refseq;acc:nm_033184]	Ranked		10551.6	11573.7	1.09687
	neurocalcin delta. [swissprot;acc:p29554]	Rooted		12.8769	11.6055	1.10955
	probable atp-dependent 61 kda nucleolar rna helicase (dead-box protein 21). [swissprot;acc:q9ny93]		1	47.3621	53.8355	1.13668
	rna-binding protein. [refseq;acc:nm_019027]	Ranked		237.302	212.41	1.11719
	wiskott-aldrich syndrome protein (wasp). [swissprot;acc:p42768]	Measured		6416.68	7865.15	1.22574
248	apobec-1 complementation factor isoform 1; apobec-1 stimulating protein; apo-b rna editing protein. [refseq;acc:nm_014576]	Ranked		237.302	212.41	1.11719
	dna mismatch repair protein mlh1 (mutl protein homolog 1). [swissprot;acc:p40692]	Rooted	0	30.7397	27.7265	1.10868
	keratin associated protein 1.5. [refseq;acc:nm_031957]	Ranked		10551.6	11573.7	1.09687
	keratin associated protein 4-10; keratin associated protein 4.10. [refseq;acc:nm_033060]	Measured		1225.09	1079.37	1.135
	myosin xv (unconventional myosin-15). [swissprot;acc:q9ukn7]	Squared	1	8875.01	6768.05	1.31131
	proto-oncogene c-crk (p38) (adapter molecule crk). [swissprot;acc:p46108]	Measured		6417.18	7859.6	1.22477
	u6 snrna-associated sm-like protein lsm5. [swissprot;acc:q9y4y9]	Rooted		56.0466	63.4808	1.13264
	ubiquitin-like protein smt3b (sentrin 2) (hsmt3). [swissprot;acc:p55855]	Squared	0	42556.5	33335.4	1.27662
249	fructose-1,6-bisphosphatase isozyme 2 (ec 3.1.3.11) (d-fructose-1,6- bisphosphate 1-phosphohydrolase) (fbpase). [swissprot;acc:o00757]			35446.2	27772	1.27633
	glycogen phosphorylase, muscle form (ec 2.4.1.1) (myophosphorylase). [swissprot;acc:p11217]		1	8875.01	6768.05	1.31131
	hepatitis c virus core-binding protein 6; cervical cancer oncogene 3. [refseq;acc:nm_023934]	Rooted	0	23.5797	26.096	1.10671
	keratin associated protein 4-14; keratin associated protein 4.14. [refseq;acc:nm_033059]	Measured		1225.08	1079.37	1.135
	keratin, ultra high-sulfur matrix protein a (uhs keratin a) (uhs kera). [swissprot;acc:p26371]	Ranked		10551.6	11573.7	1.09687
	ns1-associated protein 1. [refseq;acc:nm_006372]		1	237.302	212.41	1.11719
	transcription factor iiib 90 kda subunit (tfiiib90) (htfiiib90) (b- related factor 1) (hbrf) (tata box-binding protein-associated factor, rna polymerase iii, subunit 2) (taf3b2). [swissprot;acc:q92994]	Rooted		55.5965	62.9349	1.13199
	tyrosine-protein kinase abl2 (ec 2.7.1.112) (tyrosine kinase arg). [swissprot;acc:p42684]	Measured		6417.18	7859.59	1.22477
250	c-terminal binding protein 2 (ctbp2). [swissprot;acc:p56545]	Squared		69201.8	53013.4	1.30536
	dc11 protein. [refseq;acc:nm_020186]	Rooted	0	23.5797	26.096	1.10671
	disks large-associated protein 2 (dap-2) (sap90/psd-95-associated protein 2) (sapap2) (psd-95/sap90 binding protein 2) (fragment). [swissprot;acc:q9p1a6]	Squared		504.762	643.571	1.275
	heterogeneous nuclear ribonucleoprotein r (hnrnp r). [swissprot;acc:o43390]	Ranked	1	237.302	212.41	1.11719
	keratin associated protein 1-3; keratin associated protein 1.3. [refseq;acc:nm_030966]		0	10551.6	11573.7	1.09687
	keratin associated protein 4.9 (fragment). [sptrembl;acc:q9byq8]	Measured		1225.08	1079.37	1.135
	nucleolar protein family a, member 1; gar1 protein. [refseq;acc:nm_018983]	Rooted	1	55.5965	62.9349	1.13199
	proto-oncogene tyrosine-protein kinase src (ec 2.7.1.112) (p60-src) (c-src). [swissprot;acc:p12931]	Measured		6417.18	7859.6	1.22477

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
- 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.