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.

Navigation/Query Panel:
Click on the attribute name to hide/unhide it. The green arrows can be used to shift columns left/right. Exact word match is written as =..., regular expressions can be matched with ~.... To select all values larger or equal than use >.... This would be <... for values smaller or equal than. To select all values within a specific range use [...,...].

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

Results: HTML CSV LaTeX

Showing element 451 to 500 of 29840 in total

Interaction Map

: High confidence

Rank	Value Type	description	Network Comparison Type	Filtered	red	green	network_comparison
29	Measured	potassium voltage-gated channel, shal-related subfamily, member 2; voltage-sensitive potassium channel; voltage-gated potassium channel kv4.2. [refseq;acc:nm_012281]	Divided	0	111.278	434.911	3.90833
	Measured	regulator of chromosome condensation (cell cycle regulatory protein). [swissprot;acc:p18754]	Subtracted		3248.95	2399.76	849.19
	Ranked	ba508n22.1 (hspc025) (fragment). [sptrembl;acc:q9hcw5]			13730.5	8257	5473.5
		guanine nucleotide-binding protein g(z), alpha subunit (g(x) alpha chain) (gz-alpha). [swissprot;acc:p19086]		1	267.139	336.075	68.936
		phenylethanolamine n-methyltransferase (ec 2.1.1.28) (pnmtase) (noradrenaline n-methyltransferase). [swissprot;acc:p11086]	Divided	0	7395	11625	1.57201
		uncharacterized hematopoietic stem/progenitor cells protein mds026. [sptrembl;acc:q9nz48]		1	187.458	243.678	1.29991
	Squared	chromodomain helicase dna binding protein 5. [refseq;acc:nm_015557]		1	143.692	457.521	3.18404
		galectin-4 (lactose-binding lectin 4) (l-36 lactose binding protein) (l36lbp) (antigen ny-co-27). [swissprot;acc:p56470]	Subtracted	0	72128.6	64272.5	7856.1
		melanoma-associated antigen d2 (mage-d2 antigen) (breast cancer associated gene 1 protein) (bcg-1) (11b6) (hepatocellular carcinoma associated protein jcl-1). [swissprot;acc:q9unf1]	Subtracted	1	219048	129762	89286
		potential phospholipid-transporting atpase iia (ec 3.6.1.-). [swissprot;acc:o75110]	Divided	0	5.18438	141.427	27.2794
	Rooted	cyclin h (mo15-associated protein) (p37) (p34). [swissprot;acc:p51946]	Subtracted		11.3774	1.80368	9.57372
		microtubule-associated protein, rp/eb family, member 2; t-cell activation protein, eb1 family; apc-binding protein eb1. [refseq;acc:nm_014268]	Divided		17.7955	7.34614	2.42243
		protein phosphatase 1, regulatory (inhibitor) subunit 14a; 17-kda pkc-potentiated inhibitory protein of pp1. [refseq;acc:nm_033256]	Divided	1	26.0288	43.1914	1.65937
		putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172]	Subtracted	1	210.928	192.165	18.763
30	Measured	cleavage and polyadenylation specificity factor, 160 kda subunit (cpsf 160 kda subunit). [swissprot;acc:q10570]	Subtracted	0	3265.25	4102.97	837.72
		dystrophin. [swissprot;acc:p11532]	Divided	0	427.217	111.739	3.82335
		guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 subunit. [swissprot;acc:p30670]	Divided	1	1834.59	895.633	2.04837
		melanoma-associated antigen f1 (mage-f1 antigen). [swissprot;acc:q9hay2]	Subtracted	1	23693.7	18263	5430.7
	Ranked	beta-carotene dioxygenase 2; putative b,b-carotene-9',10'-dioxygenase. [refseq;acc:nm_031938]	Divided	0	7395	11625	1.57201
		guanine nucleotide-binding protein g(t), alpha-2 subunit (transducin alpha-2 chain). [swissprot;acc:p19087]	Subtracted	1	267.14	336.075	68.935
		lipopolysaccharide-responsive and beige-like anchor protein (cdc4-like protein) (beige-like protein). [swissprot;acc:p50851]	Subtracted	0	13730.5	8257	5473.5
		serine/threonine protein phosphatase 2a, 55 kda regulatory subunit b, alpha isoform (pp2a, subunit b, b-alpha isoform) (pp2a, subunit b, b55-alpha isoform) (pp2a, subunit b, pr55-alpha isoform) (pp2a, subunit b, r2-alpha isoform). [swissprot;acc:q00007]	Divided	1	187.457	243.678	1.29991
	Squared	cyclin-dependent kinase 2-associated protein 1 (cdk2-associated protein 1) (putative oral cancer suppressor) (deleted in oral cancer- 1) (doc-1). [swissprot;acc:o14519]		1	143.692	457.521	3.18404
		potassium voltage-gated channel, shal-related subfamily, member 2; voltage-sensitive potassium channel; voltage-gated potassium channel kv4.2. [refseq;acc:nm_012281]		0	6.25494	141.944	22.6931
		segment polarity protein dishevelled homolog dvl-1 (dishevelled-1) (dsh homolog 1). [swissprot;acc:o14640]	Subtracted	0	23310.5	31089.6	7779.1
		trophinin. [swissprot;acc:q12816]		1	219048	129762	89286
	Rooted	cyclic-amp-dependent transcription factor atf-3 (activating transcription factor 3). [swissprot;acc:p18847]		1	60.8022	79.5099	18.7077
		homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]		0	0	9.43398	9.43398
		microfibril-associated glycoprotein 4 precursor. [swissprot;acc:p55083]	Divided	1	26.0288	43.1914	1.65937
		ptd016 protein. [refseq;acc:nm_016125]		0	5.47723	12.5698	2.29492
31	Measured	dok-like protein. [refseq;acc:nm_024872]		0	35	0.00001	3500000
		guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-10 subunit. [swissprot;acc:p50151]		1	1834.63	895.697	2.04827
		melanoma antigen, family b, 6. [refseq;acc:nm_173523]	Subtracted	1	23693.7	18263	5430.7
		spectrin alpha chain, brain (spectrin, non-erythroid alpha chain) (alpha-ii spectrin) (fodrin alpha chain). [swissprot;acc:q13813]		0	1833	2637	804
	Ranked	guanine nucleotide-binding protein g(t), alpha-1 subunit (transducin alpha-1 chain). [swissprot;acc:p11488]		1	267.14	336.075	68.935
		leucine rich repeat (in flii) interacting protein 1. [refseq;acc:nm_004735]	Divided	0	8082.33	5266.67	1.53462
		potential phospholipid-transporting atpase iia (ec 3.6.1.-). [swissprot;acc:o75110]	Subtracted	0	11627	6248	5379
		serine/threonine protein phosphatase 2a, 55 kda regulatory subunit b, beta isoform (pp2a, subunit b, b-beta isoform) (pp2a, subunit b, b55- beta isoform) (pp2a, subunit b, pr55-beta isoform) (pp2a, subunit b, r2-beta isoform). [swissprot;acc:q00005]	Divided	1	187.458	243.677	1.2999
	Squared	28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5]	Subtracted		106226	192141	85915
		beta-arrestin 2 (arrestin, beta 2). [swissprot;acc:p32121]	Divided		9924.76	25146.6	2.53372
		fatty acid desaturase 1; linoleoyl-coa desaturase (delta-6-desaturase)-like 1; delta-5 desaturase; delta-5 fatty acid desaturase. [refseq;acc:nm_013402]	Divided	0	5.54059	103.726	18.7211
		fructose-1,6-bisphosphatase isozyme 2 (ec 3.1.3.11) (d-fructose-1,6- bisphosphate 1-phosphohydrolase) (fbpase). [swissprot;acc:o00757]	Subtracted		35446.2	27772	7674.2
	Rooted	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]	Subtracted		0	9.43398	9.43398
		potential phospholipid-transporting atpase iia (ec 3.6.1.-). [swissprot;acc:o75110]	Divided		12.1655	27.8029	2.28539
		protein cgi-126 (protein hspc155). [swissprot;acc:q9y3c8]	Subtracted	1	40.0958	58.7986	18.7028
		protein phosphatase 1, regulatory subunit 14d; pkc-dependent pp1 inhibitory protein. [refseq;acc:nm_017726]	Divided	1	26.0288	43.1914	1.65937
32	Measured	cell division protein kinase 8 (ec 2.7.1.-) (protein kinase k35). [swissprot;acc:p49336]		0	598	184	3.25
		guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 like subunit. [swissprot;acc:q9y3k8]		1	1834.73	895.893	2.04793
		melanoma-associated antigen 4 (mage-4 antigen) (mage-x2) (mage-41). [swissprot;acc:p43358]	Subtracted	1	23693.7	18263	5430.7
		mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [swissprot;acc:q14849]	Subtracted	0	859	58	801

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.

- http://analysis.yellowcouch.org/