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	Interaction Map	Network Comparison Type	Filtered	red	network_comparison	green

Results: HTML CSV LaTeX

Showing element 551 to 600 of 6456 in total

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

Rank	description	Network Comparison Type	red	network_comparison	green
276	gbp protein isoform a. [refseq;acc:nm_017870]	Subtracted	699.76	1194.63	1894.39
	putative rna-binding protein 15 (rna binding motif protein 15) (one-twenty two protein). [swissprot;acc:q96t37]	Divided	3119.98	1.20953	2579.49
277	mitochondrial import receptor subunit tom20 homolog (mitochondrial 20 kda outer membrane protein) (outer mitochondrial membrane receptor tom20). [swissprot;acc:q15388]	Subtracted	8600.02	1192.47	9792.49
	regulator of g-protein signaling 20 (rgs20) (regulator of gz- selective protein signaling 1) (gz-selective gtpase-activating protein) (g(z)gap). [swissprot;acc:o76081]	Divided	3119.98	1.20953	2579.49
278	peroxisomal farnesylated protein (33 kda housekeeping protein) (peroxin 19). [swissprot;acc:p40855]	Subtracted	8600.02	1192.47	9792.49
	transcription factor lbx1. [swissprot;acc:p52954]	Divided	3119.98	1.20953	2579.49
279	mosaic protein lgn. [swissprot;acc:p81274]
	splicing factor 3b subunit 3 (spliceosome associated protein 130) (sap 130) (sf3b130) (pre-mrna splicing factor sf3b 130 kda subunit). [swissprot;acc:q15393]	Subtracted	4771.21	1190.22	5961.43
280	protein phosphatase 1, regulatory (inhibitor) subunit 14a; 17-kda pkc-potentiated inhibitory protein of pp1. [refseq;acc:nm_033256]		677.5	1188	1865.5
	regulator of g-protein signaling 17 (rgs17). [swissprot;acc:q9ugc6]	Divided	3119.98	1.20953	2579.49
281	guanine nucleotide-binding protein g(o), alpha subunit 1. [swissprot;acc:p09471]
	microfibril-associated glycoprotein 4 precursor. [swissprot;acc:p55083]	Subtracted	677.5	1188	1865.5
282	protein phosphatase 1, regulatory subunit 14d; pkc-dependent pp1 inhibitory protein. [refseq;acc:nm_017726]
	rap1 gtpase-activating protein 1 (rap1gap). [swissprot;acc:p47736]	Divided	3119.98	1.20953	2579.49
283	ficolin 2 precursor (collagen/fibrinogen domain-containing protein 2) (ficolin-b) (ficolin b) (serum lectin p35) (ebp-37) (hucolin) (l- ficolin). [swissprot;acc:q15485]	Subtracted	677.5	1188	1865.5
	polymerase (dna directed) iota; rad30 (s. cerevisiae) homolog b; polymerase (dna-directed), iota. [refseq;acc:nm_007195]	Divided	5221.28	1.20935	6314.35
284	paxillin. [swissprot;acc:p49023]
	protein phosphatase 1, regulatory (inhibitor) subunit 14c; serologically defined breast cancer antigen ny-br-81; pkc-potentiated pp1 inhibitory protein. [refseq;acc:nm_030949]	Subtracted	677.5	1188	1865.5
285	eukaryotic translation initiation factor 4 gamma, 3. [refseq;acc:nm_003760]		4068.56	1184.04	5252.6
	poly(a) polymerase alpha (ec 2.7.7.19) (pap) (polynucleotide adenylyltransferase alpha) (fragment). [swissprot;acc:p51003]	Divided	23326.5	1.20885	19296.4
286	exocyst complex component sec5. [swissprot;acc:q96kp1]		23316	1.20878	19288.8
	rna-binding protein. [refseq;acc:nm_019027]	Subtracted	4069.83	1182.34	5252.17
287	apobec-1 complementation factor isoform 1; apobec-1 stimulating protein; apo-b rna editing protein. [refseq;acc:nm_014576]
	poly(a) polymerase gamma (ec 2.7.7.19) (pap gamma) (polynucleotide adenylyltransferase gamma) (srp rna 3' adenylating enzyme). [swissprot;acc:q9bwt3]	Divided	23303.1	1.2087	19279.5
288	cleavage and polyadenylation specificity factor, 73 kda subunit (cpsf 73 kda subunit). [swissprot;acc:q9ukf6]		23422.4	1.20857	19380.3
	ns1-associated protein 1. [refseq;acc:nm_006372]	Subtracted	4069.83	1182.34	5252.17
289	heterogeneous nuclear ribonucleoprotein r (hnrnp r). [swissprot;acc:o43390]
	u6 snrna-associated sm-like protein lsm6 (sm protein f). [swissprot;acc:q9y4y8]	Divided	4682.88	1.20571	5646.19
290	eukaryotic translation initiation factor 4 gamma (eif-4-gamma) (eif- 4g) (eif4g) (p220). [swissprot;acc:q04637]	Subtracted	4071.1	1180.65	5251.75
	tuftelin-interacting protein 11 (hspc006). [swissprot;acc:q9ubb9]	Divided	4991.48	1.20487	6014.08
291	pallidin; pallid (mouse) homolog, pallidin. [refseq;acc:nm_012388]	Subtracted	5894.75	1178.9	7073.65
	putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172]	Divided	44490.5	1.20481	36927.5
292	nucleotide-binding protein 1 (nbp 1). [swissprot;acc:p53384]		4641.09	1.20419	5588.75
	protein kinase, interferon-inducible double stranded rna dependent activator; protein activator of the interferon-induced protein kinase. [refseq;acc:nm_003690]	Subtracted	950.561	1157.96	2108.52
293	nucleotide binding protein 2 (nbp 2). [swissprot;acc:q9y5y2]	Divided	4641.09	1.20419	5588.75
	small nuclear ribonucleoprotein e (snrnp-e) (sm protein e) (sm-e) (sme). [swissprot;acc:p08578]	Subtracted	4512.19	1143.33	5655.52
294	cleavage stimulation factor subunit 3; cleavage stimulation factor, 3' pre-rna, subunit 3, 77kd. [refseq;acc:nm_001326]	Divided	22515.5	1.20387	18702.6
	small nuclear ribonucleoprotein f (snrnp-f) (sm protein f) (sm-f) (smf). [swissprot;acc:q15356]	Subtracted	4512.19	1143.33	5655.52
295	atlastin; guanylate-binding protein 3. [refseq;acc:nm_015915]		5720.25	1142.75	4577.5
	ral guanine nucleotide dissociation stimulator-like 1 (ralgds-like 1). [swissprot;acc:q9nzl6]	Divided	13261.9	1.20368	11017.8
296	nuclear transcription factor y subunit gamma (nf-y protein chain c) (nuclear factor yc) (nf-yc) (ccaat-binding transcription factor subunit c) (cbf-c) (transactivator hsm-1/2). [swissprot;acc:q13952]	Subtracted	3620.77	1142.57	4763.34
	splicing factor 3a subunit 2 (spliceosome associated protein 62) (sap 62) (sf3a66). [swissprot;acc:q15428]	Divided	4911.81	1.20306	5909.18
297	ccaat-binding transcription factor subunit b (cbf-b) (nf-y protein chain a) (nf-ya) (caat-box dna binding protein subunit a). [swissprot;acc:p23511]	Subtracted	3620.77	1142.57	4763.34
	krueppel-like factor 5 (intestinal-enriched krueppel-like factor) (colon krueppel-like factor) (transcription factor bteb2) (basic transcription element binding protein 2) (bte-binding protein 2) (gc box binding protein 2). [swissprot;acc:q13887]	Divided	4911.81	1.20306	5909.18
298	adrenodoxin, mitochondrial precursor (adrenal ferredoxin) (hepatoredoxin) (ferredoxin 1). [swissprot;acc:p10109]	Subtracted	8268.19	1137.66	9405.85
	u6 snrna-associated sm-like protein lsm2 (small nuclear ribonuclear protein d homolog) (g7b) (snrnp core sm-like protein sm-x5). [swissprot;acc:q9y333]	Divided	4633.92	1.20262	5572.85
299	ba395l14.12 (novel protein similar to small nuclear ribonucleoprotein polypeptide a' (snrpa1)). [sptrembl;acc:q9nu36]		4914.27	1.20203	5907.12
	metaxin 1. [swissprot;acc:q13505]	Subtracted	9327.58	1114.62	10442.2
300	transcription factor iiib 90 kda subunit (tfiiib90) (htfiiib90) (b- related factor 1) (hbrf) (tata box-binding protein-associated factor, rna polymerase iii, subunit 2) (taf3b2). [swissprot;acc:q92994]		4446.72	1107.07	5553.79
	u2 small nuclear ribonucleoprotein a' (u2 snrnp-a'). [swissprot;acc:p09661]	Divided	4914.27	1.20203	5907.12

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.