Scientific

MK5 Microarray Data

Affected Genes - Ontology Breakdown - Gene Enrichment - Proteome Analysis

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.

MK5 Proteome Analysis - Divided Values

Type II network, divided values. Interestingly most of the proteins in the first 100 positions in this table would occur in the divided ranks table between position 100 and 200, indicating a difference in emphasis between the two simulations but not in the overall function. The fully annotated table, include Ensembl gene identifiers and network values can be found in the supplementary data.

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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 1458 to 1507 of 25824 in total

Interaction Map

: High confidence
Filtered

: 1

Rank	Hugo	description	Value Type	Network Comparison Type	red	green	network_comparison
183	ACADVL	acyl-coa dehydrogenase, very-long-chain specific, mitochondrial precursor (ec 1.3.99.-) (vlcad). [swissprot;acc:p49748]	Squared	Divided	79779.8	108084	1.35478
	ANAPC2	anaphase-promoting complex subunit 2; anaphase-promoting complex 2. [refseq;acc:nm_013366]	Squared	Subtracted	69124.3	54897.4	14226.9
	GSTO1	glutathione transferase omega 1 (ec 2.5.1.18) (gsto 1-1). [swissprot;acc:p78417]	Ranked	Subtracted	227.357	254.15	26.793
	NCBP2	20 kda nuclear cap binding protein (ncbp 20 kda subunit) (cbp20) (ncbp interacting protein 1) (nip1). [swissprot;acc:p52298]	Ranked	Divided	228.306	198.011	1.153
	NEDD9	enhancer of filamentation 1 (hef1) (crk-associated substrate-related protein) (cas-l) (casl) (pp105) (neural precursor cell expressed developmentally down-regulated 9). [swissprot;acc:q14511]	Rooted	Divided	57.4586	66.3336	1.15446
	RGS19	regulator of g-protein signaling 19 (rgs19) (g-alpha interacting protein) (gaip protein). [swissprot;acc:p49795]	Rooted	Subtracted	47.6504	36.9304	10.72
	ZC3H14	nuclear protein ukp68. [refseq;acc:nm_024824]	Measured	Subtracted	4241.57	5810.79	1569.22
184	no value	small glutamine rich protein with tetratricopeptide repeats 2. [refseq;acc:nm_019072]	Squared	Divided	72886.3	98544.5	1.35203
	AIG1	androgen-induced 1; cgi-103 protein; androgen induced protein. [refseq;acc:nm_016108]	Ranked	Subtracted	227.357	254.15	26.793
	ATG4A	cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936]	Rooted	Divided	153.602	133.195	1.15321
	CLEC3B	tetranectin precursor (tn) (plasminogen-kringle 4 binding protein). [swissprot;acc:p05452]	Measured	Subtracted	10804.7	12363.6	1558.9
	OSR1	odd-skipped related 1; odz (odd oz/ten-m) related 1. [refseq;acc:nm_145260]	Ranked	Divided	274.027	237.79	1.15239
	PC	pyruvate carboxylase, mitochondrial precursor (ec 6.4.1.1) (pyruvic carboxylase) (pcb). [swissprot;acc:p11498]	Squared	Subtracted	48127.9	62245.6	14117.7
	RBM15	putative rna-binding protein 15 (rna binding motif protein 15) (one-twenty two protein). [swissprot;acc:q96t37]	Rooted	Subtracted	47.6504	36.9304	10.72
	SYNCRIP	ns1-associated protein 1. [refseq;acc:nm_006372]	Measured	Divided	4069.83	5252.17	1.29051
185	ADIPOR2	adiponectin receptor 2. [refseq;acc:nm_024551]	Ranked	Divided	281.582	246.371	1.14292
	ATP5F1	atp synthase b chain, mitochondrial precursor (ec 3.6.3.14). [swissprot;acc:p24539]	Ranked	Subtracted	227.357	254.15	26.793
	HGS	hepatocyte growth factor-regulated tyrosine kinase substrate; human growth factor-regulated tyrosine kinase substrate. [refseq;acc:nm_004712]	Squared	Subtracted	70830.5	56822	14008.5
	HNRNPR	heterogeneous nuclear ribonucleoprotein r (hnrnp r). [swissprot;acc:o43390]	Measured	Divided	4069.83	5252.17	1.29051
	HS3ST6	c439a6.1 (novel protein similar to heparan sulfate (glucosamine) 3-o- sulfotransferases) (fragment). [sptrembl;acc:q96qi5]	Squared		41502.9	30836.8	1.34589
	MAP1LC3B	microtubule-associated proteins 1a/1b light chain 3b (map1a/map1b lc3 b) (map1a/1b light chain 3 b). [swissprot;acc:q9gzq8]	Rooted		153.578	133.176	1.1532
	PPP2R1B	serine/threonine protein phosphatase 2a, 65 kda regulatory subunit a, beta isoform (pp2a, subunit a, pr65-beta isoform) (pp2a, subunit a, r1-beta isoform). [swissprot;acc:p30154]	Measured	Subtracted	4599.26	3058.57	1540.69
	RGS20	regulator of g-protein signaling 20 (rgs20) (regulator of gz- selective protein signaling 1) (gz-selective gtpase-activating protein) (g(z)gap). [swissprot;acc:o76081]	Rooted		47.6504	36.9304	10.72
186	COG7	conserved oligomeric golgi complex component 7. [swissprot;acc:p83436]	Squared		70830.5	56822	14008.5
	DNAJC12	j domain containing protein 1. [swissprot;acc:q9ukb3]	Ranked		227.357	254.15	26.793
	EIF4G1	eukaryotic translation initiation factor 4 gamma (eif-4-gamma) (eif- 4g) (eif4g) (p220). [swissprot;acc:q04637]	Measured	Divided	4071.1	5251.75	1.29001
	FLNB	filamin b, beta (actin binding protein 278); beta filamin; filamin 1 (actin-binding protein-280)-like; filamin b, beta (actin-binding protein-278); filamin b, beta. [refseq;acc:nm_001457]	Measured	Subtracted	4366.44	5899.76	1533.32
	FLNB		Ranked	Divided	226.582	198.444	1.14179
	HS3ST3A1	heparan sulfate d-glucosaminyl 3-o-sulfotransferase 3a1; heparin-glucosamine 3-o-sulfotransferase. [refseq;acc:nm_006042]	Squared	Divided	41502.9	30836.8	1.34589
	LBX1	transcription factor lbx1. [swissprot;acc:p52954]	Rooted	Subtracted	47.6504	36.9304	10.72
	MAP1LC3A	microtubule-associated proteins 1a/1b light chain 3a (map1a/map1b lc3 a) (map1a/1b light chain 3 a). [swissprot;acc:q9h492]		Divided	153.578	133.176	1.1532
187	ATG4B	cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326]		Divided	153.548	133.153	1.15317
	GPSM2	mosaic protein lgn. [swissprot;acc:p81274]		Subtracted	47.6504	36.9304	10.72
	HS3ST3B1	heparan sulfate d-glucosaminyl 3-o-sulfotransferase 3b1. [refseq;acc:nm_006041]	Squared	Divided	41502.9	30836.8	1.34589
	NONO	54 kda nuclear rna- and dna-binding protein (p54(nrb)) (p54nrb) (55 kda nuclear protein) (nmt55) (non-pou domain-containing octamer- binding protein) (dna-binding p52/p100 complex, 52 kda subunit). [swissprot;acc:q15233]	Squared	Subtracted	71383	57399.3	13983.7
	REV1	rev1-like; rev1 protein; rev1 (yeast homolog)- like. [refseq;acc:nm_016316]	Measured	Subtracted	4366.44	5899.76	1533.32
	REV1		Ranked	Divided	226.582	198.444	1.14179
	SNRPD3	small nuclear ribonucleoprotein sm d3 (snrnp core protein d3) (sm-d3). [swissprot;acc:p43331]	Measured	Divided	4569.48	5885.79	1.28807
	SNX13	sorting nexin 13 (rgs domain- and phox domain-containing protein) (rgs-px1). [swissprot;acc:q9y5w8]	Ranked	Subtracted	227.357	254.15	26.793
188	E2F1	transcription factor e2f1 (e2f-1) (retinoblastoma binding protein 3) (rbbp-3) (prb-binding protein e2f-1) (pbr3) (retinoblastoma-associated protein 1) (rbap-1). [swissprot;acc:q01094]	Rooted	Divided	46.0352	53.0192	1.15171
	GSTO2	ba127l20.1 (novel glutathione-s-transferase). [sptrembl;acc:q9h4y5]	Ranked	Subtracted	227.357	254.15	26.793
	HS3ST2	heparan sulfate d-glucosaminyl 3-o-sulfotransferase 2; heparin-glucosamine 3-o-sulfotransferase. [refseq;acc:nm_006043]	Squared	Divided	41502.9	30836.8	1.34589
	PRMT1	protein arginine n-methyltransferase 1 (ec 2.1.1.-) (interferon receptor 1-bound protein 4). [swissprot;acc:q99873]	Measured	Subtracted	4366.44	5899.76	1533.32
	PRMT1		Ranked	Divided	226.582	198.444	1.14179
	PSPC1	paraspeckle protein 1. [refseq;acc:nm_018282]	Squared	Subtracted	71360.3	57385.8	13974.5
	RGS17	regulator of g-protein signaling 17 (rgs17). [swissprot;acc:q9ugc6]	Rooted	Subtracted	47.6504	36.9304	10.72
	STT3B	source of immunodominant mhc-associated peptides; homolog of yeast stt3 gene. [refseq;acc:nm_178862]	Measured	Divided	4571.89	5864.86	1.28281
189	DCPS	mrna decapping enzyme; histidine triad protein member 5; heat shock-like protein 1. [refseq;acc:nm_014026]	Squared		41502.9	30836.8	1.34589
	E2F2	transcription factor e2f2 (e2f-2). [swissprot;acc:q14209]	Rooted		46.0352	53.0192	1.15171
	GNAO1	guanine nucleotide-binding protein g(o), alpha subunit 1. [swissprot;acc:p09471]	Rooted	Subtracted	47.6504	36.9304	10.72

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.

- http://analysis.yellowcouch.org/