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

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Showing element 451 to 500 of 77072 in total

Filtered  : 0
Value Type  : Measured

green	network_comparison	Interaction Map	red	Network Comparison Type	Rank	description
206.5	1.02736	High confidence	201	Divided	434	testis-specific protein tpx-1 precursor (cysteine-rich secretory protein-2) (crisp-2). [swissprot;acc:p16562]
	5.5			Subtracted	459
210	1.35238	Low confidence	284	Divided	117	helicase/primase complex protein. [refseq;acc:nm_138336]
	74			Subtracted	504
219.891	1.04238	High confidence	229.211	Divided	392	60s ribosomal protein l14 (cag-isl 7). [swissprot;acc:p50914]
	9.32			Subtracted	452
221.565	1.00822		219.759	Divided	469	transcription factor btf3 homolog 3. [swissprot;acc:q13892]
	1.806			Subtracted	490
224.096	1.54338		345.865	Divided	94	myosin vi. [swissprot;acc:q9um54]
		Low confidence			95
	121.769	High confidence		Subtracted	259
		Low confidence			395
226.797	1.10398		250.379	Divided	399	similar to lysozyme c-1 (1,4-beta-n-acylmuramidase c, ec 3.2.1.17). [refseq;acc:nm_032517]
	23.582			Subtracted	723
226.81	1.03704	High confidence	218.71	Divided	410	glycerol kinase, testis specific 2 (ec 2.7.1.30) (atp:glycerol 3- phosphotransferase) (glycerokinase) (gk). [swissprot;acc:q14410]
	8.1			Subtracted	456
227.143	1.03704		219.031	Divided	408	glycerol kinase, testis specific 1 (ec 2.7.1.30) (atp:glycerol 3- phosphotransferase) (glycerokinase) (gk). [swissprot;acc:q14409]
	8.112			Subtracted	455
227.308	1.03704		219.19	Divided	409	glycerol kinase (ec 2.7.1.30) (atp:glycerol 3-phosphotransferase) (glycerokinase) (gk). [swissprot;acc:p32189]
	8.118			Subtracted	454
234.276	1.54599	Low confidence	362.189	Divided	94	poly (adp-ribose) glycohydrolase. [refseq;acc:nm_003631]
	127.913			Subtracted	379
241.74	1.3378		180.7	Divided	120	proactivator polypeptide precursor [contains: saposin a (protein a); saposin b (sphingolipid activator protein 1) (sap-1) (cerebroside sulfate activator) (csact) (dispersin) (sulfatide/gm1 activator); saposin c (co-beta-glucosidase) (a1 activator) (glucosylceramidase activator) (sphingolipid activator protein 2) (sap-2); saposin d (protein c) (component c)]. [swissprot;acc:p07602]
	61.04			Subtracted	547
249.857	0.562	High confidence	250.419		492	ras-related c3 botulinum toxin substrate 1 (p21-rac1) (ras-like protein tc25). [swissprot;acc:p15154]
					493	ras-related c3 botulinum toxin substrate 3 (p21-rac3). [swissprot;acc:o14658]
	1.00225			Divided	487	ras-related c3 botulinum toxin substrate 1 (p21-rac1) (ras-like protein tc25). [swissprot;acc:p15154]
					488	ras-related c3 botulinum toxin substrate 3 (p21-rac3). [swissprot;acc:o14658]
268.468	1.04582	Low confidence	280.768		572	transcription factor bteb4 (basic transcription element binding- protein 4) (bte-binding protein 4) (krueppel-like factor 16) (novel sp1-like zinc finger transcription factor 2) (transcription factor nslp2). [swissprot;acc:q9bxk1]
	12.3			Subtracted	781
277.003	1.23006		340.73	Divided	168	transcription factor dp-1 (e2f dimerization partner 1) (drtf1- polypeptide-1) (drtf1). [swissprot;acc:q14186]
	63.727			Subtracted	542
279.24	1.85328	High confidence	150.673	Divided	59	f-actin capping protein alpha-2 subunit (capz alpha-2). [swissprot;acc:p47755]
	128.567			Subtracted	246
290.667	1.47298		197.333	Divided	103	transketolase-like 1 (ec 2.2.1.1) (transketolase 2) (tk 2) (transketolase related protein). [swissprot;acc:p51854]
	93.334			Subtracted	283
299.876	1.64861	Low confidence	181.896	Divided	84	sedlin. [swissprot;acc:o14582]
	117.98			Subtracted	402
305.886	1.82368		167.73	Divided	70	synbindin (trs23 homolog) (hematopoietic stem/progenitor cell protein 172) (hspc172) (ptd009) (cgi-104). [swissprot;acc:q9y296]
	138.156			Subtracted	355
306.727	1.22281	High confidence	375.07	Divided	183	blood group rh(d) polypeptide (rhesus d antigen) (rhxiii) (rh polypeptide 2) (rhpii). [swissprot;acc:q02161]
					184	blood group rh(ce) polypeptide (rhesus c/e antigens) (rh30a) (rhixb) (rh polypeptide 1) (rhpi). [swissprot;acc:p18577]
	68.343			Subtracted	326	blood group rh(d) polypeptide (rhesus d antigen) (rhxiii) (rh polypeptide 2) (rhpii). [swissprot;acc:q02161]
					327	blood group rh(ce) polypeptide (rhesus c/e antigens) (rh30a) (rhixb) (rh polypeptide 1) (rhpi). [swissprot;acc:p18577]
306.933	1.22281		375.322	Divided	185
	68.389			Subtracted	325
315.505	2.14473	Low confidence	147.107	Divided	59	nadph oxidase, ef hand calcium-binding domain 5. [refseq;acc:nm_024505]
	168.398			Subtracted	309
315.567	2.14463		147.143	Divided	60	nadph oxidase homolog 1 (nox-1) (noh-1) (nadh/nadph mitogenic oxidase subunit p65-mox) (mitogenic oxidase 1) (mox1). [swissprot;acc:q9y5s8]
	168.424			Subtracted	308

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.