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

Results: HTML CSV LaTeX

Showing element 451 to 500 of 9634 in total

Filtered  : 0
Network Comparison Type  : Divided
Value Type  : Ranked

Rank	green	description	Interaction Map	network_comparison	red
226	4851.08	similar to zinc finger protein 91 (hpf7, htf10) (fragment). [sptrembl;acc:q86w65]	Low confidence	1.14027	4254.31
	16992.9	rab gdp dissociation inhibitor alpha (rab gdi alpha) (gdi-1) (xap-4) (oligophrenin 2). [swissprot;acc:p31150]	High confidence	1.10374	15395.7
227	4851.42	zinc finger protein 234 (zinc finger protein hzf4) (fragment). [swissprot;acc:q14588]	Low confidence	1.14027	4254.63
	11200.2	tigger transposable element derived 6. [refseq;acc:nm_030953]	High confidence	1.10355	12360
228	4851.25	zinc finger protein 41. [swissprot;acc:p51814]	Low confidence	1.14027	4254.47
	11370.4	soluble liver antigen/liver pancreas antigen. [refseq;acc:nm_153825]	High confidence	1.10355	10303.5
229	4851.08	zinc finger protein 300. [swissprot;acc:q96re9]	Low confidence	1.14027	4254.31
	9878.1	poly (adp-ribose) glycohydrolase. [refseq;acc:nm_003631]	High confidence	1.10339	10899.4
230	4851.08	zinc finger protein zfp31 (fragment). [sptrembl;acc:q92971]	Low confidence	1.14027	4254.31
	11207.7	tigger transposable element derived 7; jerky (mouse) homolog-like. [refseq;acc:nm_033208]	High confidence	1.10323	12364.7
231	4851.67	zinc finger protein 226. [swissprot;acc:q9nyt6]	Low confidence	1.14026	4254.87
	11207.9	tigger transposable element derived 1; jerky (mouse) homolog-like. [refseq;acc:nm_145702]	High confidence	1.10322	12364.8
232	4852.02	zinc finger protein 33a (zinc finger protein kox31) (ha0946). [swissprot;acc:q06730]	Low confidence	1.14026	4255.19
	11240.2	kynureninase (ec 3.7.1.3) (l-kynurenine hydrolase). [swissprot;acc:q16719]	High confidence	1.10271	12394.7
233	4852.69	zinc finger protein 347 (zinc finger 1111). [swissprot;acc:q96se7]	Low confidence	1.14025	4255.83
	10560	60s acidic ribosomal protein p1. [swissprot;acc:p05386]	High confidence	1.1015	9586.97
234	4852.44	zinc finger protein 93 (zinc finger protein htf34). [refseq;acc:nm_145312]	Low confidence	1.14025	4255.59
	18296	transcription factor 4 (immunoglobulin transcription factor 2) (itf-2) (sl3-3 enhancer factor 2) (sef-2). [swissprot;acc:p15884]	High confidence	1.10124	16614
235	4852.69	zinc finger protein 157 (hzf22). [swissprot;acc:p51786]	Low confidence	1.14025	4255.83
	16027.9	elongation factor 1-alpha 1 (ef-1-alpha-1) (elongation factor 1 a-1) (eef1a-1) (elongation factor tu) (ef-tu). [swissprot;acc:p04720]	High confidence	1.10123	14554.5
236	4852.69	zinc finger protein 92 (zinc finger protein htf12) (fragment). [swissprot;acc:q03936]	Low confidence	1.14025	4255.83
	16788.5	protein phosphatase inhibitor 2 (ipp-2). [swissprot;acc:p41236]	High confidence	1.10122	15245.4
237	4852.69	zinc finger protein 211 (zinc finger protein c2h2-25). [swissprot;acc:q13398]	Low confidence	1.14025	4255.83
	9067	bifunctional 3'-phosphoadenosine 5'-phosphosulfate synthethase 2 (paps synthethase 2) (papss 2) (sulfurylase kinase 2) (sk2) (sk 2) [includes: sulfate adenylyltransferase (ec 2.7.7.4) (sulfate adenylate transferase) (sat) (atp-sulfurylase); adenylylsulfate kinase (ec 2.7.1.25) (adenylylsulfate 3'-phosphotransferase) (aps kinase) (adenosine-5'-phosphosulfate 3'-phosphotransferase) (3'- phosphoadenosine-5'-phosphosulfate synthetase)]. [swissprot;acc:o95340]	High confidence	1.10114	9984
238	4853.29	similar to zinc finger protein 85 (zinc finger protein hpf4) (htf1). [refseq;acc:nm_145287]	Low confidence	1.14024	4256.39
	13941.7	cyclin-dependent kinases regulatory subunit 1 (cks-1) (sid1334) (pnas-16 / pnas-143). [swissprot;acc:p33551]	High confidence	1.0997	12677.7
239	4853.29	similar to zinc finger protein 136. [refseq;acc:nm_145295]	Low confidence	1.14024	4256.39
	9795.36	mto1 protein homolog (cgi-02). [swissprot;acc:q9y2z2]	High confidence	1.09969	8907.41
240	4853.29	similar to dna-binding protein; zinc finger protein 253. [refseq;acc:nm_145297]	Low confidence	1.14024	4256.39
	16326	methyltransferase like 2. [refseq;acc:nm_018396]	High confidence	1.09923	17946
241	4853.03	zinc finger protein 132. [swissprot;acc:p52740]	Low confidence	1.14024	4256.15
	12743.3	secreted modular calcium-binding protein 1. [refseq;acc:nm_022137]	High confidence	1.09891	14003.7
242	4853.29	zinc finger protein 84 (zinc finger protein hpf2). [swissprot;acc:p51523]	Low confidence	1.14024	4256.39
	13895.8	1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446]	High confidence	1.09822	15260.6
243	1373	polyadenylate-binding protein 3 (poly(a)-binding protein 3) (pabp 3) (testis-specific poly(a)-binding protein). [swissprot;acc:q9h361]		1.09752	1251
	4853.62	zinc finger protein 121 (zinc finger protein 20) (fragment). [swissprot;acc:p58317]	Low confidence	1.14023	4256.71
244	4853.87	zinc finger protein af020591. [refseq;acc:nm_014480]			4256.94
	11579.9	keratin associated protein 9.2. [refseq;acc:nm_031961]	High confidence	1.09751	10551.1
245	4853.87	zinc finger protein 20 (zinc finger protein kox13) (dkfzp572p0920). [swissprot;acc:p17024]	Low confidence	1.14023	4256.94
	13019	cell division protein kinase 3 (ec 2.7.1.-). [swissprot;acc:q00526]	High confidence	1.09702	11867.6
246	4853.45	zinc finger protein 11b (fragment). [swissprot;acc:q06732]	Low confidence	1.14023	4256.55
	11573.7	keratin associated protein 4.3 (fragment). [sptrembl;acc:q9byr4]	High confidence	1.09687	10551.6
247	4853.87	zinc finger protein 208. [swissprot;acc:o43345]	Low confidence	1.14023	4256.94
	11573.7	keratin associated protein 2-4; keratin associated protein 2.4. [refseq;acc:nm_033184]	High confidence	1.09687	10551.6
248	4853.62	zinc finger protein 136. [swissprot;acc:p52737]	Low confidence	1.14023	4256.71
	11573.7	keratin associated protein 1.5. [refseq;acc:nm_031957]	High confidence	1.09687	10551.6
249	4854.04	gonadotropin inducible transcription repressor-1 (giot-1). [swissprot;acc:q8taf7]	Low confidence	1.14022	4257.1
	11573.7	keratin, ultra high-sulfur matrix protein a (uhs keratin a) (uhs kera). [swissprot;acc:p26371]	High confidence	1.09687	10551.6
250	4854.21	zinc finger protein 85 (zinc finger protein hpf4) (htf1). [swissprot;acc:q03923]	Low confidence	1.14022	4257.26
	11573.7	keratin associated protein 1-3; keratin associated protein 1.3. [refseq;acc:nm_030966]	High confidence	1.09687	10551.6

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.