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	Rank	Gene	Interaction Map	description	red	Network Comparison Type

Results: HTML CSV LaTeX

Showing element 451 to 500 of 77072 in total

Filtered  : 0
Value Type  : Measured

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

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.