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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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 [...,...].

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

Results: HTML CSV LaTeX

Showing element 1164 to 1213 of 14920 in total

Network Comparison Type

: Divided
Interaction Map

: High confidence

Rank	description	Value Type	Filtered	red	green	network_comparison
146	formin binding protein 3; fas-ligand associated factor 1; huntingtin-interacting protein a; ny-ren-6 antigen. [refseq;acc:nm_017892]	Rooted	0	13.9593	11.8643	1.17658
	huntingtin interacting protein c. [refseq;acc:nm_012272]	Rooted	1	55.0737	66.0298	1.19894
	kv channel interacting protein 2 isoform 4; a-type potassium channel modulatory protein 2; cardiac voltage gated potassium channel modulatory subunit. [refseq;acc:nm_173193]	Ranked		265.632	319.531	1.20291
	ras-related gtp binding a; ras-related gtp-binding protein. [refseq;acc:nm_006570]	Squared		103496	146848	1.41888
	ubiquitin activating enzyme e1-like protein. [refseq;acc:nm_006395]	Squared	0	8.15919	4.74982	1.71779
147	60s ribosomal protein l7. [swissprot;acc:p18124]	Ranked		11080.3	9505.89	1.16562
	atp-dependent dna helicase ii, 70 kda subunit (lupus ku autoantigen protein p70) (ku70) (70 kda subunit of ku antigen) (thyroid-lupus autoantigen) (tlaa) (ctc box binding factor 75 kda subunit) (ctcbf) (ctc75). [swissprot;acc:p12956]	Rooted		21.8452	18.5801	1.17573
	cytochrome p450 4f11 (ec 1.14.14.1) (cypivf11). [swissprot;acc:q9hbi6]	Measured		292.152	378.206	1.29455
	forkhead box p4; fork head-related protein like a; winged-helix repressor foxp4. [refseq;acc:nm_138457]	Rooted	1	42.0574	50.4237	1.19893
	nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]	Ranked	1	50.7983	42.3003	1.2009
	presenilin-like protein 1 (ec 3.4.99.-) (sppl2b protein). [swissprot;acc:q8tct7]	Squared	0	180.799	307.058	1.69834
	putative breast adenocarcinoma marker (32kd). [refseq;acc:nm_014453]	Measured	1	11068	8508.5	1.30082
	ras-related gtp binding c; rag c protein. [refseq;acc:nm_022157]	Squared		103496	146848	1.41888
148	associated molecule with the sh3 domain of stam. [refseq;acc:nm_006463]	Measured		11068	8508.5	1.30082
	cylindromatosis (turban tumor syndrome); cylindromatosis 1, turban tumor syndrome. [refseq;acc:nm_015247]	Squared	0	699.353	414.113	1.6888
	cytochrome p450 4f8 (ec 1.14.14.1) (cypivf8). [swissprot;acc:p98187]	Measured		293.178	379.474	1.29435
	forkhead box protein g1c (forkhead-related protein fkhl3) (hfk3) (fragment). [swissprot;acc:q14488]	Rooted		8.52047	10.0173	1.17567
	forkhead box protein p1 (hspc215). [swissprot;acc:q9h334]	Rooted	1	42.0577	50.424	1.19892
	ras-related gtp binding b short isoform; gtp-binding protein ragb. [refseq;acc:nm_006064]	Squared		103496	146848	1.41888
	sad1/unc-84 protein-like 1. [swissprot;acc:o94901]	Ranked		296.677	247.559	1.19841
	spectrin beta chain, brain 4 (spectrin, non-erythroid beta chain 4) (beta-v spectrin) (bspecv). [swissprot;acc:q9nrc6]	Ranked	0	6755.71	7863.63	1.164
149	anillin, actin binding protein (scraps homolog, drosophila); anillin (drosophila scraps homolog), actin binding protein. [refseq;acc:nm_018685]	Squared	1	103496	146848	1.41888
	atlastin; guanylate-binding protein 3. [refseq;acc:nm_015915]	Ranked	1	142	170	1.19718
	block 23. [sptrembl;acc:q8nhw5]	Ranked	0	11469.3	13334.8	1.16265
	cytochrome p450 4f2 (ec 1.14.13.30) (cypivf2) (leukotriene-b4 omega- hydroxylase) (leukotriene-b4 20-monooxygenase) (cytochrome p450- ltb-omega). [swissprot;acc:p78329]	Measured	0	293.178	379.474	1.29435
	forkhead box protein p3 (zinc finger protein jm2) (scurfin). [swissprot;acc:q9bzs1]	Rooted	1	42.0684	50.4323	1.19882
	interleukin-1 receptor-associated kinase 4; interleukin-1 receptor associated kinase 4. [refseq;acc:nm_016123]	Rooted	0	8.52047	10.0173	1.17567
	neuroendocrine differentiation factor; comparative gene identification transcript 149. [refseq;acc:nm_016079]	Measured	1	11068	8508.5	1.30082
	putative rna-binding protein 15 (rna binding motif protein 15) (one-twenty two protein). [swissprot;acc:q96t37]	Squared	0	8.27669	4.90793	1.68639
150	estrogen-related receptor gamma (estrogen receptor related protein 3) (err gamma-2). [swissprot;acc:o75454]	Squared		274.947	163.071	1.68606
	metaxin 1. [swissprot;acc:q13505]	Measured		933.395	723.368	1.29035
	myosin vb (myosin 5b) (fragment). [swissprot;acc:q9ulv0]	Ranked	1	55	46	1.19565
	pre-mrna cleavage complex ii protein clp1. [swissprot;acc:q92989]	Squared		121200	85473.4	1.41799
	protein hspc134 (protein cda04). [swissprot;acc:q9by43]	Measured		11068	8508.5	1.30082
	putative nucleoside diphosphate kinase (ec 2.7.4.6) (ndk) (ndp kinase). [swissprot;acc:o60361]	Rooted	0	26.8649	22.8761	1.17437
	serine/threonine protein phosphatase 2a, catalytic subunit, alpha isoform (ec 3.1.3.16) (pp2a-alpha) (replication protein c) (rp-c). [swissprot;acc:p05323]	Rooted	1	63.5827	53.0856	1.19774
	zinc finger protein-like 1; zinc-finger protein in men1 region. [refseq;acc:nm_006782]	Ranked	0	8730	7516	1.16152
151	chromatin accessibility complex protein 1 (chrac-1) (chrac-15) (huchrac15) (dna polymerase epsilon subunit p15). [swissprot;acc:q9nrg0]	Rooted	1	38.8223	46.4975	1.1977
	cleavage and polyadenylation specificity factor, 160 kda subunit (cpsf 160 kda subunit). [swissprot;acc:q10570]	Squared	0	25050	42114.6	1.68122
	deoxyribonuclease ii beta isoform 1 precursor; deoxyribonuclease ii beta; endonuclease dlad. [refseq;acc:nm_021233]	Squared	1	250303	354894	1.41786
	myosin vc (myosin 5c). [swissprot;acc:q9nqx4]	Ranked		55	46	1.19565
	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]	Measured		4578.09	5939.91	1.29746
	t-complex protein 1, zeta subunit (tcp-1-zeta) (cct-zeta) (cct-zeta-1) (tcp20) (htr3). [swissprot;acc:p40227]	Rooted	0	16.3248	19.168	1.17416
	u2 small nuclear ribonucleoprotein auxiliary factor 35 kda subunit related-protein 1. [swissprot;acc:q15695]	Ranked		7502.08	6461.83	1.16098
	udp-glucuronosyltransferase 2b17 precursor, microsomal (ec 2.4.1.17) (udpgt) (c19-steroid specific udp-glucuronosyltransferase). [swissprot;acc:o75795]	Measured		2230.13	1729.7	1.28932
152	40s ribosomal protein s26. [swissprot;acc:p02383]	Squared		8.80383	5.24885	1.67729
	huntingtin-interacting protein hypa/fbp11 (fragment). [sptrembl;acc:o75404]	Rooted		13.8773	11.824	1.17366
	luc7-like 2; cgi-74 protein; cgi-59 protein. [refseq;acc:nm_016019]	Rooted	1	55.2859	65.9288	1.19251
	melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [refseq;acc:nm_030801]	Measured		23693.7	18263	1.29736
	myosin va (myosin 5a) (dilute myosin heavy chain, non-muscle) (myosin heavy chain 12) (myoxin). [swissprot;acc:q9y4i1]	Ranked		55	46	1.19565

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/