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.

MK5 Proteome Analysis

Table 3: Type II network, divided ranks. This table presents the output of the simulation of a type-II network in which we relied on the high confidence interactions and micro-array results. The output of the micro-array was then ranked and these ranks used as input into the network simulation. After performing two such simulations (one for the MK5 off and one for the MK5 on microarray output), we divided the ranks and sorted the results accordingly. The output of this technique is a collection of proteins that cluster naturally together.

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 [...,...].

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

Results: HTML CSV LaTeX

Showing element 51 to 100 of 29840 in total

Filtered  : 0
Value Type  : Measured
Interaction Map  : High confidence

Rank	network_comparison	description	green	Network Comparison Type	red
26	4.3268	fatty acid desaturase 1; linoleoyl-coa desaturase (delta-6-desaturase)-like 1; delta-5 desaturase; delta-5 fatty acid desaturase. [refseq;acc:nm_013402]	662	Divided	153
	902.5	ribosomal protein s6 kinase-like 1. [refseq;acc:nm_031464]	2063	Subtracted	2965.5
27	4.10072	phenylethanolamine n-methyltransferase (ec 2.1.1.28) (pnmtase) (noradrenaline n-methyltransferase). [swissprot;acc:p11086]	139	Divided	570
	894	baculoviral iap repeat-containing protein 5 (apoptosis inhibitor survivin) (apoptosis inhibitor 4). [swissprot;acc:o15392]	13463.1	Subtracted	14357.1
28	4.10072	beta-carotene dioxygenase 2; putative b,b-carotene-9',10'-dioxygenase. [refseq;acc:nm_031938]	139	Divided	570
	874.45	spectrin beta chain, brain 4 (spectrin, non-erythroid beta chain 4) (beta-v spectrin) (bspecv). [swissprot;acc:q9nrc6]	4543.75	Subtracted	5418.2
29	3.90833	potassium voltage-gated channel, shal-related subfamily, member 2; voltage-sensitive potassium channel; voltage-gated potassium channel kv4.2. [refseq;acc:nm_012281]	434.911	Divided	111.278
	849.19	regulator of chromosome condensation (cell cycle regulatory protein). [swissprot;acc:p18754]	2399.76	Subtracted	3248.95
30	3.82335	dystrophin. [swissprot;acc:p11532]	111.739	Divided	427.217
	837.72	cleavage and polyadenylation specificity factor, 160 kda subunit (cpsf 160 kda subunit). [swissprot;acc:q10570]	4102.97	Subtracted	3265.25
31	804	spectrin alpha chain, brain (spectrin, non-erythroid alpha chain) (alpha-ii spectrin) (fodrin alpha chain). [swissprot;acc:q13813]	2637		1833
	3500000	dok-like protein. [refseq;acc:nm_024872]	0.00001	Divided	35
32	3.25	cell division protein kinase 8 (ec 2.7.1.-) (protein kinase k35). [swissprot;acc:p49336]	184		598
	801	mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [swissprot;acc:q14849]	58	Subtracted	859
33	3.15402	lim domain binding 1; carboxy terminal lim domain protein 2; lim domain-binding factor-1. [refseq;acc:nm_003893]	39.8063	Divided	12.6208
	796.26	protein cgi-147. [swissprot;acc:q9y3e5]	9192.38	Subtracted	8396.12
34	3.04255	glucosamine-6-phosphate isomerase (ec 3.5.99.6) (glucosamine-6- phosphate deaminase) (gnpda) (glcn6p deaminase) (oscillin). [swissprot;acc:p46926]	47	Divided	143
	791.03	acrc protein; putative nuclear protein. [refseq;acc:nm_052957]	3340.03	Subtracted	4131.06
35	2.99674	adp,atp carrier protein, liver isoform t2 (adp/atp translocase 3) (adenine nucleotide translocator 3) (ant 3). [swissprot;acc:p12236]	1377	Divided	459.5
	705	filamin a (alpha-filamin) (filamin 1) (endothelial actin-binding protein) (abp-280) (nonmuscle filamin). [swissprot;acc:p21333]	898	Subtracted	1603
36	2.80357	heparan sulfate 6-o-sulfotransferase 2. [refseq;acc:nm_147174]	56	Divided	157
	660.772	oligosaccharyl transferase stt3 subunit homolog (b5) (integral membrane protein 1) (tmc). [swissprot;acc:p46977]	925.298	Subtracted	1586.07
37	2.79409	1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446]	934.348	Divided	334.401
	652.25	wiskott-aldrich syndrome protein family member 3 (wasp-family protein member 3) (verprolin homology domain-containing protein 3). [swissprot;acc:q9upy6]	4550.64	Subtracted	5202.89
38	2.65727	zinc finger protein slug (neural crest transcription factor slug) (snail homolog 2). [swissprot;acc:o43623]	120.429	Divided	320.012
	630.23	clathrin heavy chain 2 (clh-22). [swissprot;acc:p53675]	6127.24	Subtracted	5497.01
39	2.50878	microtubule-associated protein, rp/eb family, member 2; t-cell activation protein, eb1 family; apc-binding protein eb1. [refseq;acc:nm_014268]	192.295	Divided	482.426
	627.822	peptide chain release factor 1, mitochondrial precursor (mrf-1). [swissprot;acc:o75570]	1601.52	Subtracted	973.698
40	2.49669	nanos (fragment). [sptrembl;acc:q8wy41]	151	Divided	377
	625	potential phospholipid-transporting atpase iia (ec 3.6.1.-). [swissprot;acc:o75110]	773	Subtracted	148
41	2.42481	nadh-ubiquinone oxidoreductase 13 kda-b subunit (ec 1.6.5.3) (ec 1.6.99.3) (complex i-13kd-b) (ci-13kd-b) (complex i subunit b13). [swissprot;acc:q16718]	645	Divided	266
	608.27	60s acidic ribosomal protein p1. [swissprot;acc:p05386]	6739.34	Subtracted	6131.07
42	2.36266	presenilin enhancer 2; hematopoietic stem/progenitor cells protein mds033. [refseq;acc:nm_172341]	86.9525	Divided	205.439
	607	trinucleotide repeat containing 15. [refseq;acc:nm_015575]	19496	Subtracted	18889
43	2.2301	elongation factor ts, mitochondrial precursor (ef-ts) (ef-tsmt). [swissprot;acc:p43897]	587.988	Divided	263.66
	606.71	sh3-containing grb2-like protein 1 (sh3 domain protein 2b) (extra eleven-nineteen leukemia fusion gene) (een) (een fusion partner of mll). [swissprot;acc:q99961]	4696.36	Subtracted	4089.65
44	2.16837	acyl-coa dehydrogenase, short/branched chain specific, mitochondrial precursor (ec 1.3.99.-) (sbcad) (2-methyl branched chain acyl-coa dehydrogenase) (2-mebcad) (2-methylbutyryl-coenzyme a dehydrogenase) (2-methylbutyryl-coa dehydrogenase). [swissprot;acc:p45954]	98.5074	Divided	45.4292
	604.32	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]	1681.3	Subtracted	2285.62
45	2.1673	tigger transposable element derived 6. [refseq;acc:nm_030953]	438.605	Divided	202.374
	599.947	1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446]	934.348	Subtracted	334.401
46	2.16674	tigger transposable element derived 7; jerky (mouse) homolog-like. [refseq;acc:nm_033208]	438.035	Divided	202.163
	587.45	small glutamine rich protein with tetratricopeptide repeats 2. [refseq;acc:nm_019072]	2436.4	Subtracted	3023.85
47	2.16672	tigger transposable element derived 1; jerky (mouse) homolog-like. [refseq;acc:nm_145702]	438.016	Divided	202.156
	527.2	tubulin gamma-1 chain (gamma-1 tubulin) (gamma-tubulin complex component 1) (gcp-1). [swissprot;acc:p23258]	3118.3	Subtracted	3645.5
48	2.15895	deltex homolog 1; hdx-1. [refseq;acc:nm_004416]	403.196	Divided	870.482
	517.555	dj820b18.1 (similar to nuclear cap binding protein) (fragment). [sptrembl;acc:q8wwk2]	481.725	Subtracted	999.28
49	2.09722	selenide,water dikinase 2 (ec 2.7.9.3) (selenophosphate synthetase 2) (selenium donor protein 2). [swissprot;acc:q99611]	151	Divided	72
	509	fatty acid desaturase 1; linoleoyl-coa desaturase (delta-6-desaturase)-like 1; delta-5 desaturase; delta-5 fatty acid desaturase. [refseq;acc:nm_013402]	662	Subtracted	153
50	2.09524	transcription factor 4 (immunoglobulin transcription factor 2) (itf-2) (sl3-3 enhancer factor 2) (sef-2). [swissprot;acc:p15884]	21	Divided	44
	507.34	ubiquitous tropomodulin (u-tmod) (tropomodulin 3). [swissprot;acc:q9nyl9]	5469.68	Subtracted	4962.34

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.