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.

Proteome Analysis

Below the proteome analysis is presented. The analysis methods are presented in the paper Propagating Differential Gene Expression in Protein Interaction Networks. If you are interested in the most reliable results choose the

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

Results: HTML CSV LaTeX

Showing element 975 to 1024 of 12912 in total

Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1

Rank	description	Value Type	red	green	network_comparison
244	myosin vb (myosin 5b) (fragment). [swissprot;acc:q9ulv0]	Rooted	146.94	167.046	1.13683
	ubiquinone biosynthesis protein coq7 homolog (coenzyme q biosynthesis protein 7 homolog) (timing protein clk-1 homolog). [swissprot;acc:q99807]	Measured	4250.14	5211.25	1.22614
245	1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446]	Squared	8875.01	6768.05	1.31131
	homer, neuronal immediate early gene, 1b. [refseq;acc:nm_004272]	Measured	4251.65	5212.33	1.22595
	myosin vc (myosin 5c). [swissprot;acc:q9nqx4]	Rooted	146.94	167.046	1.13683
	small nuclear ribonucleoprotein sm d3 (snrnp core protein d3) (sm-d3). [swissprot;acc:p43331]	Ranked	226.109	202.333	1.11751
246	eukaryotic translation initiation factor 4 gamma, 3. [refseq;acc:nm_003760]		237.312	212.363	1.11748
	glycogen phosphorylase, brain form (ec 2.4.1.1). [swissprot;acc:p11216]	Squared	8875.01	6768.05	1.31131
	homer, neuronal immediate early gene, 3. [refseq;acc:nm_004838]	Measured	4252.66	5213.05	1.22583
	myosin va (myosin 5a) (dilute myosin heavy chain, non-muscle) (myosin heavy chain 12) (myoxin). [swissprot;acc:q9y4i1]	Rooted	146.94	167.046	1.13683
247	glycogen phosphorylase, liver form (ec 2.4.1.1). [swissprot;acc:p06737]	Squared	8875.01	6768.05	1.31131
	probable atp-dependent 61 kda nucleolar rna helicase (dead-box protein 21). [swissprot;acc:q9ny93]	Rooted	47.3621	53.8355	1.13668
	rna-binding protein. [refseq;acc:nm_019027]	Ranked	237.302	212.41	1.11719
	wiskott-aldrich syndrome protein (wasp). [swissprot;acc:p42768]	Measured	6416.68	7865.15	1.22574
248	apobec-1 complementation factor isoform 1; apobec-1 stimulating protein; apo-b rna editing protein. [refseq;acc:nm_014576]	Ranked	237.302	212.41	1.11719
	myosin xv (unconventional myosin-15). [swissprot;acc:q9ukn7]	Squared	8875.01	6768.05	1.31131
	proto-oncogene c-crk (p38) (adapter molecule crk). [swissprot;acc:p46108]	Measured	6417.18	7859.6	1.22477
	u6 snrna-associated sm-like protein lsm5. [swissprot;acc:q9y4y9]	Rooted	56.0466	63.4808	1.13264
249	glycogen phosphorylase, muscle form (ec 2.4.1.1) (myophosphorylase). [swissprot;acc:p11217]	Squared	8875.01	6768.05	1.31131
	ns1-associated protein 1. [refseq;acc:nm_006372]	Ranked	237.302	212.41	1.11719
	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]	Rooted	55.5965	62.9349	1.13199
	tyrosine-protein kinase abl2 (ec 2.7.1.112) (tyrosine kinase arg). [swissprot;acc:p42684]	Measured	6417.18	7859.59	1.22477
250	c-terminal binding protein 2 (ctbp2). [swissprot;acc:p56545]	Squared	69201.8	53013.4	1.30536
	heterogeneous nuclear ribonucleoprotein r (hnrnp r). [swissprot;acc:o43390]	Ranked	237.302	212.41	1.11719
	nucleolar protein family a, member 1; gar1 protein. [refseq;acc:nm_018983]	Rooted	55.5965	62.9349	1.13199
	proto-oncogene tyrosine-protein kinase src (ec 2.7.1.112) (p60-src) (c-src). [swissprot;acc:p12931]	Measured	6417.18	7859.6	1.22477
251	b-cell cll/lymphoma 6, member b (zinc finger protein); zinc finger protein 62. [refseq;acc:nm_181844]	Squared	69165.6	52992.1	1.30521
	max protein. [swissprot;acc:p25912]	Rooted	56.3054	63.7148	1.13159
	oligopeptide transporter, small intestine isoform (peptide transporter 1) (intestinal h+/peptide cotransporter) (solute carrier family 15, member 1). [swissprot;acc:p46059]	Ranked	186.172	166.661	1.11707
	tyrosine-protein kinase hck (ec 2.7.1.112) (p59-hck/p60-hck) (hemopoietic cell kinase). [swissprot;acc:p08631]	Measured	6417.18	7859.6	1.22477
252	crk-like protein. [swissprot;acc:p46109]
	eukaryotic translation initiation factor 4 gamma (eif-4-gamma) (eif- 4g) (eif4g) (p220). [swissprot;acc:q04637]	Ranked	237.292	212.457	1.11689
	nuclear transcription factor y subunit beta (nf-y protein chain b) (nf-yb) (ccaat-binding transcription factor subunit a) (cbf-a) (caat- box dna binding protein subunit b). [swissprot;acc:p25208]	Rooted	51.6736	58.4422	1.13099
	pas domain containing serine/threonine kinase; pas-serine/threonine kinase. [refseq;acc:nm_015148]	Squared	69165	52991.7	1.3052
253	b-cell lymphoma 6 protein (bcl-6) (zinc finger protein 51) (laz-3 protein) (bcl-5). [swissprot;acc:p41182]
	mad protein (max dimerizer). [swissprot;acc:q05195]	Ranked	228	204.333	1.11583
	proto-oncogene tyrosine-protein kinase abl1 (ec 2.7.1.112) (p150) (c-abl). [swissprot;acc:p00519]	Measured	6417.18	7859.59	1.22477
	signal recognition particle 9 kda protein (srp9). [swissprot;acc:p49458]	Rooted	53.5956	60.465	1.12817
254	proto-oncogene tyrosine-protein kinase fyn (ec 2.7.1.112) (p59-fyn) (syn) (slk). [swissprot;acc:p06241]	Measured	6417.18	7859.6	1.22477
	signal recognition particle 9 kda protein (srp9). [swissprot;acc:p49458]	Rooted	53.607	60.4452	1.12756
	source of immunodominant mhc-associated peptides; homolog of yeast stt3 gene. [refseq;acc:nm_178862]	Ranked	200.691	179.88	1.11569
	zinc finger protein slug (neural crest transcription factor slug) (snail homolog 2). [swissprot;acc:o43623]	Squared	69165	52991.7	1.3052
255	c-terminal binding protein 1 (ctbp1). [swissprot;acc:q13363]		69123.3	52967	1.30503
	oligosaccharyl transferase stt3 subunit homolog (b5) (integral membrane protein 1) (tmc). [swissprot;acc:p46977]	Ranked	200.691	179.88	1.11569
	proto-oncogene tyrosine-protein kinase fgr (ec 2.7.1.112) (p55-fgr) (c-fgr). [swissprot;acc:p09769]	Measured	6417.18	7859.6	1.22477
	ribonucleoside-diphosphate reductase m2 chain (ec 1.17.4.1) (ribonucleotide reductase small chain). [swissprot;acc:p31350]	Rooted	62.9007	70.8854	1.12694
256	ccaat-box-binding transcription factor (ccaat-binding factor) (cbf). [swissprot;acc:q03701]		48.0045	54.0843	1.12665
	formin binding protein 3; fas-ligand associated factor 1; huntingtin-interacting protein a; ny-ren-6 antigen. [refseq;acc:nm_017892]	Squared	15465.1	20151	1.303
	grb2-related adaptor protein 2 (gads protein) (growth factor receptor binding protein) (grblg) (grf40 adaptor protein) (grf-40) (grb-2-like protein) (grb2l) (grbx) (p38) (hematopoietic cell-associated adaptor protein grpl) (adapter protein grid) (sh3-sh2-sh3 adaptor mona). [swissprot;acc:o75791]	Measured	6417.19	7859.51	1.22476
	max interacting protein 1 (mxi1 protein). [swissprot;acc:p50539]	Ranked	227.999	204.357	1.11569

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.