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 - Divided Values

Type II network, divided values. Interestingly most of the proteins in the first 100 positions in this table would occur in the divided ranks table between position 100 and 200, indicating a difference in emphasis between the two simulations but not in the overall function. The fully annotated table, include Ensembl gene identifiers and network values can be found in the supplementary data.

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

Results: HTML CSV LaTeX

Showing element 451 to 500 of 7460 in total

Value Type  : Ranked
Network Comparison Type  : Divided
Interaction Map  : High confidence

Rank	description	green	Filtered	network_comparison	red
226	cartilage oligomeric matrix protein precursor (comp). [swissprot;acc:p49747]	269.238	1	1.12187	239.991
	rab gdp dissociation inhibitor alpha (rab gdi alpha) (gdi-1) (xap-4) (oligophrenin 2). [swissprot;acc:p31150]	16992.9	0	1.10374	15395.7
227	thrombospondin 3 precursor. [swissprot;acc:p49746]	269.234	1	1.12186	239.99
	tigger transposable element derived 6. [refseq;acc:nm_030953]	11200.2	0	1.10355	12360
228	sh2 domain containing 3c; novel sh2-containing protein 3; sh2 domain-containing 3c; likely ortholog of mouse cas/hef1-associated signal transducer. [refseq;acc:nm_005489]	202.088	1	1.12036	226.411
	soluble liver antigen/liver pancreas antigen. [refseq;acc:nm_153825]	11370.4	0	1.10355	10303.5
229	breast cancer antiestrogen resistance 3. [refseq;acc:nm_003567]	202.094	1	1.12028	226.401
	poly (adp-ribose) glycohydrolase. [refseq;acc:nm_003631]	9878.1	0	1.10339	10899.4
230	cysteine-rich protein 1 (crp1) (crp). [swissprot;acc:p21291]	267.915	1	1.11934	239.35
	tigger transposable element derived 7; jerky (mouse) homolog-like. [refseq;acc:nm_033208]	11207.7	0	1.10323	12364.7
231	likely ortholog of mouse shc sh2-domain binding protein 1. [refseq;acc:nm_024745]	267.881	1	1.11927	239.336
	tigger transposable element derived 1; jerky (mouse) homolog-like. [refseq;acc:nm_145702]	11207.9	0	1.10322	12364.8
232	kynureninase (ec 3.7.1.3) (l-kynurenine hydrolase). [swissprot;acc:q16719]	11240.2		1.10271	12394.7
	smooth muscle cell lim protein (cysteine-rich protein 2) (crp2) (lim-only protein 5). [swissprot;acc:q16527]	267.879	1	1.11926	239.336
233	60s acidic ribosomal protein p1. [swissprot;acc:p05386]	10560	0	1.1015	9586.97
	lim domain protein, cardiac (muscle lim protein) (cysteine-rich protein 3) (crp3). [swissprot;acc:p50461]	267.842	1	1.11918	239.32
234	chromatin accessibility complex protein 1 (chrac-1) (chrac-15) (huchrac15) (dna polymerase epsilon subunit p15). [swissprot;acc:q9nrg0]	256.835		1.11905	287.41
	transcription factor 4 (immunoglobulin transcription factor 2) (itf-2) (sl3-3 enhancer factor 2) (sef-2). [swissprot;acc:p15884]	18296	0	1.10124	16614
235	elongation factor 1-alpha 1 (ef-1-alpha-1) (elongation factor 1 a-1) (eef1a-1) (elongation factor tu) (ef-tu). [swissprot;acc:p04720]	16027.9		1.10123	14554.5
	phenylalanine-4-hydroxylase (ec 1.14.16.1) (pah) (phe-4- monooxygenase). [swissprot;acc:p00439]	254.15	1	1.11785	227.357
236	pp3111 protein. [refseq;acc:nm_022156]
	protein phosphatase inhibitor 2 (ipp-2). [swissprot;acc:p41236]	16788.5	0	1.10122	15245.4
237	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]	9067		1.10114	9984
	syntaxin 18. [swissprot;acc:q9p2w9]	254.15	1	1.11785	227.357
238	cyclin-dependent kinases regulatory subunit 1 (cks-1) (sid1334) (pnas-16 / pnas-143). [swissprot;acc:p33551]	13941.7	0	1.0997	12677.7
	rd protein. [swissprot;acc:p18615]	254.15	1	1.11785	227.357
239	glutathione transferase omega 1 (ec 2.5.1.18) (gsto 1-1). [swissprot;acc:p78417]
	mto1 protein homolog (cgi-02). [swissprot;acc:q9y2z2]	9795.36	0	1.09969	8907.41
240	androgen-induced 1; cgi-103 protein; androgen induced protein. [refseq;acc:nm_016108]	254.15	1	1.11785	227.357
	methyltransferase like 2. [refseq;acc:nm_018396]	16326	0	1.09923	17946
241	atp synthase b chain, mitochondrial precursor (ec 3.6.3.14). [swissprot;acc:p24539]	254.15	1	1.11785	227.357
	secreted modular calcium-binding protein 1. [refseq;acc:nm_022137]	12743.3	0	1.09891	14003.7
242	1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446]	13895.8		1.09822	15260.6
	j domain containing protein 1. [swissprot;acc:q9ukb3]	254.15	1	1.11785	227.357
243	polyadenylate-binding protein 3 (poly(a)-binding protein 3) (pabp 3) (testis-specific poly(a)-binding protein). [swissprot;acc:q9h361]	1373	0	1.09752	1251
	sorting nexin 13 (rgs domain- and phox domain-containing protein) (rgs-px1). [swissprot;acc:q9y5w8]	254.15	1	1.11785	227.357
244	ba127l20.1 (novel glutathione-s-transferase). [sptrembl;acc:q9h4y5]
	keratin associated protein 9.2. [refseq;acc:nm_031961]	11579.9	0	1.09751	10551.1
245	cell division protein kinase 3 (ec 2.7.1.-). [swissprot;acc:q00526]	13019		1.09702	11867.6
	small nuclear ribonucleoprotein sm d3 (snrnp core protein d3) (sm-d3). [swissprot;acc:p43331]	202.333	1	1.11751	226.109
246	eukaryotic translation initiation factor 4 gamma, 3. [refseq;acc:nm_003760]	212.363		1.11748	237.312
	keratin associated protein 4.3 (fragment). [sptrembl;acc:q9byr4]	11573.7	0	1.09687	10551.6
247	keratin associated protein 2-4; keratin associated protein 2.4. [refseq;acc:nm_033184]
	rna-binding protein. [refseq;acc:nm_019027]	212.41	1	1.11719	237.302
248	apobec-1 complementation factor isoform 1; apobec-1 stimulating protein; apo-b rna editing protein. [refseq;acc:nm_014576]
	keratin associated protein 1.5. [refseq;acc:nm_031957]	11573.7	0	1.09687	10551.6
249	keratin, ultra high-sulfur matrix protein a (uhs keratin a) (uhs kera). [swissprot;acc:p26371]
	ns1-associated protein 1. [refseq;acc:nm_006372]	212.41	1	1.11719	237.302
250	heterogeneous nuclear ribonucleoprotein r (hnrnp r). [swissprot;acc:o43390]
	keratin associated protein 1-3; keratin associated protein 1.3. [refseq;acc:nm_030966]	11573.7	0	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.