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.

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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 1130 to 1179 of 6456 in total

Value Type  : Measured
Interaction Map  : High confidence
Filtered  : 1

Rank	description	Network Comparison Type	red	green	network_comparison
565	tubby related protein 1 (tubby-like protein 1). [swissprot;acc:o00294]	Subtracted	6374.65	7145.59	770.94
566	autoantigen ngp-1. [swissprot;acc:q13823]	Divided	3766.14	4274.79	1.13506
	vacuolar protein sorting 29 (vesicle protein sorting 29) (hvps29) (mds007) (pep11) (dc7/dc15). [swissprot;acc:q9ubq0]	Subtracted	6374.65	7145.59	770.94
567	deoxyuridine 5'-triphosphate nucleotidohydrolase, mitochondrial precursor (ec 3.6.1.23) (dutpase) (dutp pyrophosphatase). [swissprot;acc:p33316]	Divided	10264.9	9043.51	1.13506
	numb-like protein (numb-r). [swissprot;acc:q9y6r0]	Subtracted	6374.65	7145.59	770.94
568	grpe protein homolog 2, mitochondrial precursor (mt-grpe#2). [swissprot;acc:q8taa5]	Divided	4134.77	4691.24	1.13458
	tubby related protein 3 (tubby-like protein 3). [swissprot;acc:o75386]	Subtracted	6374.65	7145.59	770.94
569	grpe protein homolog 1, mitochondrial precursor (mt-grpe#1) (hmge). [swissprot;acc:q9hav7]	Divided	4134.77	4691.24	1.13458
	vacuolar protein sorting 35 (vesicle protein sorting 35) (hvps35) (maternal-embryonic 3). [swissprot;acc:q96qk1]	Subtracted	6374.65	7145.59	770.94
570	protein kinase c, zeta type (ec 2.7.1.37) (npkc-zeta). [swissprot;acc:q05513]
	swi/snf-related matrix-associated actin-dependent regulator of chromatin d2; rsc6p; mammalian chromatin remodeling complex brg1-associated factor 60b; swp73-like protein; chromatin remodeling complex baf60b subunit; swi/snf complex 60 kda subunit b. [refseq;acc:nm_003077]	Divided	4134.77	4691.24	1.13458
571	odd-skipped related 1; odz (odd oz/ten-m) related 1. [refseq;acc:nm_145260]	Subtracted	3856.29	4624.15	767.86
	swi/snf-related matrix-associated actin-dependent regulator of chromatin d3; rsc6p; mammalian chromatin remodeling complex brg1-associated factor 60c; swp73-like protein; chromatin remodeling complex baf60c subunit; swi/snf complex 60 kda subunit c. [refseq;acc:nm_003078]	Divided	4134.77	4691.24	1.13458
572	pyrroline 5-carboxylate reductase isoform. [refseq;acc:nm_013328]	Subtracted	5277.4	6042.88	765.48
	swi/snf related, matrix associated, actin dependent regulator of chromatin subfamily d member 1 (swi/snf complex 60 kda subunit) (brg1- associated factor 60a). [swissprot;acc:q96gm5]	Divided	4134.77	4691.24	1.13458
573	homeobox protein hox-a10 (hox-1h) (hox-1.8) (pl). [swissprot;acc:p31260]		6739.43	7644.55	1.1343
	pyrroline-5-carboxylate reductase (ec 1.5.1.2) (p5cr) (p5c reductase). [swissprot;acc:p32322]	Subtracted	5281.11	6044.61	763.5
574	galectin-4 (lactose-binding lectin 4) (l-36 lactose binding protein) (l36lbp) (antigen ny-co-27). [swissprot;acc:p56470]		7817.9	8575.12	757.22
	homeobox protein hox-b9 (hox-2e) (hox-2.5). [swissprot;acc:p17482]	Divided	6739.61	7644.58	1.13428
575	homeobox protein hox-a9 (hox-1g). [swissprot;acc:p31269]		6739.63	7644.59	1.13427
	spectrin beta chain, brain 4 (spectrin, non-erythroid beta chain 4) (beta-v spectrin) (bspecv). [swissprot;acc:q9nrc6]	Subtracted	7813.48	8570.11	756.63
576	45 kda calcium-binding protein precursor (cab45) (stromal cell-derived factor 4) (sdf-4). [swissprot;acc:q9brk5]
	homeobox protein hox-c9 (hox-3b). [swissprot;acc:p31274]	Divided	6739.7	7644.6	1.13426
577	band 4.1-like protein 3 (4.1b) (differentially expressed in adenocarcinoma of the lung protein 1) (dal-1). [swissprot;acc:q9y2j2]	Subtracted	7813.45	8570.07	756.62
	gamma-aminobutyric-acid receptor gamma-3 subunit precursor (gaba(a) receptor). [swissprot;acc:q99928]	Divided	6739.81	7644.62	1.13425
578	forkhead box protein g1c (forkhead-related protein fkhl3) (hfk3) (fragment). [swissprot;acc:q14488]
	protein 4.1 (band 4.1) (p4.1) (epb4.1) (4.1r). [swissprot;acc:p11171]	Subtracted	7813.35	8569.96	756.61
579	band 4.1-like protein 1 (neuronal protein 4.1) (4.1n). [swissprot;acc:q9h4g0]		7813.34	8569.95
	gamma-aminobutyric-acid receptor gamma-1 subunit precursor (gaba(a) receptor). [swissprot;acc:q8n1c3]	Divided	6739.82	7644.62	1.13425
580	band 4.1-like protein 2 (generally expressed protein 4.1) (4.1g). [swissprot;acc:o43491]	Subtracted	7813.36	8569.97	756.61
	gamma-aminobutyric-acid receptor alpha-2 subunit precursor (gaba(a) receptor). [swissprot;acc:p47869]	Divided	6739.83	7644.63	1.13425
581	galectin-9 (hom-hd-21) (ecalectin). [swissprot;acc:o00182]	Subtracted	7810.11	8566.29	756.18
	gamma-aminobutyric-acid receptor alpha-6 subunit precursor (gaba(a) receptor). [swissprot;acc:q16445]	Divided	6739.82	7644.63	1.13425
582	gamma-aminobutyric-acid receptor gamma-2 subunit precursor (gaba(a) receptor). [swissprot;acc:p18507]			7644.62
	nuclear receptor co-repressor/hdac3 complex subunit tblr1 (tbl1- related protein 1). [swissprot;acc:q9bzk7]	Subtracted	6834.54	7590.49	755.95
583	importin beta-1 subunit (karyopherin beta-1 subunit) (nuclear factor p97) (importin 90). [swissprot;acc:q14974]
	interleukin-1 receptor-associated kinase 4; interleukin-1 receptor associated kinase 4. [refseq;acc:nm_016123]	Divided	6739.81	7644.62	1.13425
584	gamma-aminobutyric-acid receptor alpha-4 subunit precursor (gaba(a) receptor). [swissprot;acc:p48169]		6739.82	7644.63
	transducin beta-like 1x protein (transducin-beta-like 1, x-linked). [swissprot;acc:o60907]	Subtracted	6834.54	7590.49	755.95
585	gamma-aminobutyric-acid receptor epsilon subunit precursor (gaba(a) receptor). [swissprot;acc:p78334]	Divided	6739.82	7644.63	1.13425
	transducin beta-like 1y protein (transducin-beta-like 1, y-linked). [swissprot;acc:q9bq87]	Subtracted	6834.54	7590.49	755.95
586	apolipoprotein a-i binding protein; apoa-i binding protein. [refseq;acc:nm_144772]		6139.04	6893.7	754.66
	phosphatidylserine receptor; phosphatidylserine receptor beta. [refseq;acc:nm_015167]	Divided	6739.81	7644.62	1.13425
587	axonemal dynein light intermediate polypeptide 1 (inner dynein arm light chain, axonemal) (hp28). [swissprot;acc:o14645]	Subtracted	6772.75	7526.2	753.45
	gamma-aminobutyric-acid receptor alpha-1 subunit precursor (gaba(a) receptor). [swissprot;acc:p14867]	Divided	6739.83	7644.63	1.13425
588	gamma-aminobutyric-acid receptor alpha-3 subunit precursor (gaba(a) receptor). [swissprot;acc:p34903]
	ubiquitin-conjugating enzyme e2 variant 1 isoform b; dna-binding protein. [refseq;acc:nm_003349]	Subtracted	6691.93	7445.09	753.16
589	nadh-ubiquinone oxidoreductase b14 subunit (ec 1.6.5.3) (ec 1.6.99.3) (complex i-b14) (ci-b14). [swissprot;acc:p56556]	Divided	6739.85	7644.63	1.13424
	utp--glucose-1-phosphate uridylyltransferase 2 (ec 2.7.7.9) (udp- glucose pyrophosphorylase 2) (udpgp 2) (ugpase 2). [swissprot;acc:q16851]	Subtracted	6691.21	7444.22	753.01
590	similar to expressed sequence aa415817. [sptrembl;acc:q8n4q9]	Divided	6739.85	7644.63	1.13424

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.