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

Results: HTML CSV LaTeX

Showing element 451 to 500 of 3730 in total

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

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

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.