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

Results: HTML CSV LaTeX

Showing element 1560 to 1609 of 6456 in total

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

description	Network Comparison Type	Rank	red	network_comparison	green
dipeptidylpeptidase 10; dipeptidyl peptidase iv-related protein 3. [refseq;acc:nm_020868]	Subtracted	1525	213.267	3.756	209.511
dipeptidylpeptidase 9; dipeptidyl peptidase 9; dipeptidyl peptidase iv-related protein-2. [refseq;acc:nm_139159]	Divided	394	218.827	1.08948	238.407
	Subtracted	367		19.58
diphosphomevalonate decarboxylase (ec 4.1.1.33) (mevalonate pyrophosphate decarboxylase) (mevalonate (diphospho)decarboxylase). [swissprot;acc:p53602]	Divided	868	233.298	1.03975	242.571
	Subtracted	809		9.273
diphthamide biosynthesis-like protein 2. [refseq;acc:nm_001384]	Divided	1202	227.274	1.02537	233.041
	Subtracted	1114		5.767
disks large-associated protein 1 (dap-1) (guanylate kinase-associated protein) (hgkap) (sap90/psd-95-associated protein 1) (sapap1) (psd- 95/sap90 binding protein 1). [swissprot;acc:o14490]	Divided	701	220.438	1.05413	209.118
	Subtracted	700		11.32
disks large-associated protein 2 (dap-2) (sap90/psd-95-associated protein 2) (sapap2) (psd-95/sap90 binding protein 2) (fragment). [swissprot;acc:q9p1a6]	Divided	708		1.05413
	Subtracted	707		11.32
disks large-associated protein 3 (dap-3) (sap90/psd-95-associated protein 3) (sapap3) (psd-95/sap90 binding protein 3) (fragment). [swissprot;acc:o95886]	Divided	706		1.05413
	Subtracted	705		11.32
disks large-associated protein 4 (dap-4) (sap90/psd-95-associated protein 4) (sapap4) (psd-95/sap90 binding protein 4). [swissprot;acc:q9y2h0]	Divided	710		1.05413
	Subtracted	709		11.32
disrupter of silencing 10. [refseq;acc:nm_020368]	Divided	1905	191.411	1.01034	193.39
	Subtracted	1981		1.979
dj1099d15.1 (putative dnaj protein). [sptrembl;acc:q9h4j9]	Divided	724	244.842	1.05274	232.577
	Subtracted	641		12.265
dj132f21.2 (contains a novel protein similar to the l82e from drosophila) (fragment). [sptrembl;acc:q9h125]	Divided	2060	218.79	1.00834	216.981
	Subtracted	2039		1.809
dj153g14.2 (possible ca binding protein similar to nefa) (fragment). [sptrembl;acc:q9ujn8]	Divided	776	225.996	1.04854	215.535
	Subtracted	744		10.461
dj18d14.4 (cytochrome p450, subfamily iva, polypeptide 11). [sptrembl;acc:q9ntl5]	Divided	1287	218.368	1.02414	213.22
	Subtracted	1255		5.148
dj408b20.3 (novel protein similar to 60s acidic ribosomal protein p2 (rplp2)). [sptrembl;acc:q9h5a9]	Divided	576	235.18	1.0648	250.419
	Subtracted	496		15.239
dj470l14.3 (novel protein similar to the arp2/3 protein complex subunit p21-arc (arc21)). [sptrembl;acc:q9h5b6]	Divided	2621	224.891	1.00135	225.195
	Subtracted	2599		0.304
dj570f3.6 (novel protein similar to lysophospholipase ii (lypla2)). [sptrembl;acc:q9uge0]	Divided	2408	194.407	1.00362	193.706
	Subtracted	2439		0.701
dj579f20.1 (high-mobility group (nonhistone chromosomal) protein 1-like 1). [sptrembl;acc:q9nqj4]	Divided	3025	0.00001	1	0.00001
	Subtracted		0	0	0
dj681n20.2 (novel protein similar to ferritin, light polypeptide (ftl)). [sptrembl;acc:q9byw6]	Divided	700	220.438	1.05413	209.118
	Subtracted	699		11.32
dj718p11.1.2 (novel class ii aminotransferase similar to serine palmotyltransferase (isoform 2)) (fragment). [sptrembl;acc:q9ugb5]	Divided	1125	204.404	1.02748	210.022
	Subtracted	1133		5.618
dj756n5.1.1 (continues in em:al133324 as dj1161h23.3) (fragment). [sptrembl;acc:q9h430]	Divided	222	112	1.125	126
	Subtracted	544		14
dj820b18.1 (similar to nuclear cap binding protein) (fragment). [sptrembl;acc:q8wwk2]	Divided	177	229.406	1.1663	196.695
	Subtracted	132		32.711
dj850e9.1 (novel c2h2 type zinc finger protein similar to drosophila scratch (scrt), slug and xenopus snail) (fragment). [sptrembl;acc:q9nq03]	Divided	1881	210.592	1.01074	208.355
	Subtracted	1879		2.237
dj947l8.1.1 (novel cub and sushi (scr repeat) domain protein) (fragment). [sptrembl;acc:q9h4v7]	Divided	1329	218.509	1.02275	213.648
	Subtracted	1304		4.861
dj947l8.1.6 (novel cub and sushi (scr repeat) domain protein) (fragment). [sptrembl;acc:q9h4w2]	Divided	1326		1.02275
	Subtracted	1302		4.861
dj999l4.1 (novel protein similar to ribosomal protein l12 (rpl12)). [sptrembl;acc:q9nq02]	Divided	339	243.583	1.0983	267.527
	Subtracted	248		23.944
dna damage binding protein 1 (damage-specific dna binding protein 1) (ddb p127 subunit) (ddba) (uv-damaged dna-binding protein 1) (uv-ddb 1) (xeroderma pigmentosum group e complementing protein) (xpce) (x- associated protein 1) (xap-1). [swissprot;acc:q16531]	Divided	1029	222.364	1.03168	215.535

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.