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

Results: HTML CSV LaTeX

Showing element 1008 to 1057 of 12912 in total

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

Rank	Value Type	description	red	green	network_comparison
252	Rooted	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]	51.6736	58.4422	1.13099
253	Measured	proto-oncogene tyrosine-protein kinase abl1 (ec 2.7.1.112) (p150) (c-abl). [swissprot;acc:p00519]	6417.18	7859.59	1.22477
	Ranked	mad protein (max dimerizer). [swissprot;acc:q05195]	228	204.333	1.11583
	Squared	b-cell lymphoma 6 protein (bcl-6) (zinc finger protein 51) (laz-3 protein) (bcl-5). [swissprot;acc:p41182]	69165	52991.7	1.3052
	Rooted	signal recognition particle 9 kda protein (srp9). [swissprot;acc:p49458]	53.5956	60.465	1.12817
254	Measured	proto-oncogene tyrosine-protein kinase fyn (ec 2.7.1.112) (p59-fyn) (syn) (slk). [swissprot;acc:p06241]	6417.18	7859.6	1.22477
	Ranked	source of immunodominant mhc-associated peptides; homolog of yeast stt3 gene. [refseq;acc:nm_178862]	200.691	179.88	1.11569
	Squared	zinc finger protein slug (neural crest transcription factor slug) (snail homolog 2). [swissprot;acc:o43623]	69165	52991.7	1.3052
	Rooted	signal recognition particle 9 kda protein (srp9). [swissprot;acc:p49458]	53.607	60.4452	1.12756
255	Measured	proto-oncogene tyrosine-protein kinase fgr (ec 2.7.1.112) (p55-fgr) (c-fgr). [swissprot;acc:p09769]	6417.18	7859.6	1.22477
	Ranked	oligosaccharyl transferase stt3 subunit homolog (b5) (integral membrane protein 1) (tmc). [swissprot;acc:p46977]	200.691	179.88	1.11569
	Squared	c-terminal binding protein 1 (ctbp1). [swissprot;acc:q13363]	69123.3	52967	1.30503
	Rooted	ribonucleoside-diphosphate reductase m2 chain (ec 1.17.4.1) (ribonucleotide reductase small chain). [swissprot;acc:p31350]	62.9007	70.8854	1.12694
256	Measured	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]	6417.19	7859.51	1.22476
	Ranked	max interacting protein 1 (mxi1 protein). [swissprot;acc:p50539]	227.999	204.357	1.11569
	Squared	formin binding protein 3; fas-ligand associated factor 1; huntingtin-interacting protein a; ny-ren-6 antigen. [refseq;acc:nm_017892]	15465.1	20151	1.303
	Rooted	ccaat-box-binding transcription factor (ccaat-binding factor) (cbf). [swissprot;acc:q03701]	48.0045	54.0843	1.12665
257	Measured	ccaat displacement protein (cdp) (cut-like 1). [swissprot;acc:p39880]	6417.31	7858.12	1.22452
	Ranked	dolichyl-diphosphooligosaccharide--protein glycosyltransferase 48 kda subunit precursor (ec 2.4.1.119) (oligosaccharyl transferase 48 kda subunit) (ddost 48 kda subunit). [swissprot;acc:p39656]	200.691	179.88	1.11569
	Squared	huntingtin-interacting protein hypa/fbp11 (fragment). [sptrembl;acc:o75404]	15482.3	20162.4	1.30229
	Rooted	cartilage oligomeric matrix protein precursor (comp). [swissprot;acc:p49747]	51.6125	45.8409	1.12591
258	Measured	homeobox protein cux-2 (cut-like 2) (fragment). [swissprot;acc:o14529]	6417.33	7857.93	1.22449
	Ranked	max-interacting transcriptional repressor mad4 (max-associated protein 4) (max dimerization protein 4). [swissprot;acc:q14582]	227.999	204.366	1.11564
	Squared	huntingtin interacting protein 1 (hip-i). [swissprot;acc:o00291]	76438	58889.7	1.29799
	Rooted	thrombospondin 3 precursor. [swissprot;acc:p49746]	51.6132	45.8422	1.12589
259	Measured	neural wiskott-aldrich syndrome protein (n-wasp). [swissprot;acc:o00401]	6417.81	7852.52	1.22355
	Ranked	max dimerization protein 3; likely ortholog of mouse max dimerization protein 3. [refseq;acc:nm_031300]	227.999	204.37	1.11562
	Squared	goodpasture antigen-binding protein (ec 2.7.1.37) (gpbp) (collagen type iv alpha 3 binding protein) (star-related lipid transfer protein 11) (stard11) (start domain-containing protein 11). [swissprot;acc:q9y5p4]	76360.8	58841.7	1.29773
	Rooted	tuftelin-interacting protein 11 (hspc006). [swissprot;acc:q9ubb9]	58.2964	65.5926	1.12516
260	Measured	signal recognition particle 9 kda protein (srp9). [swissprot;acc:p49458]	4244.95	5193.42	1.22343
	Ranked	c439a6.1 (novel protein similar to heparan sulfate (glucosamine) 3-o- sulfotransferases) (fragment). [sptrembl;acc:q96qi5]	219.421	196.978	1.11394
	Squared	huntingtin interacting protein 1 related (hip1-related) (hip 12). [swissprot;acc:o75146]	76296.4	58801.6	1.29752
	Rooted	multisynthetase complex auxiliary component p43 [contains: endothelial-monocyte activating polypeptide ii (emap-ii) (small inducible cytokine subfamily e member 1)]. [swissprot;acc:q12904]	59.0951	66.4332	1.12417
261	Measured	signal recognition particle 9 kda protein (srp9). [swissprot;acc:p49458]	4247.36	5192.61	1.22255
	Ranked	heparan sulfate d-glucosaminyl 3-o-sulfotransferase 3a1; heparin-glucosamine 3-o-sulfotransferase. [refseq;acc:nm_006042]	219.421	196.978	1.11394
	Squared	pyruvate carboxylase, mitochondrial precursor (ec 6.4.1.1) (pyruvic carboxylase) (pcb). [swissprot;acc:p11498]	48127.9	62245.6	1.29334
	Rooted	ribonucleotide reductase m2 b (tp53 inducible); p53-inducible ribonucleotide reductase small subunit 2 homolog. [refseq;acc:nm_015713]	62.3337	70.0738	1.12417
262	Measured	cleavage and polyadenylation specific factor 4, 30kd subunit; cleavage-polyadenylation specificity factor, 30kd; no arches-like (zebrafish) zinc finger protein; cleavage-polyadenylation specificity factor. [refseq;acc:nm_006693]	24896.4	20431.7	1.21852
	Ranked	heparan sulfate d-glucosaminyl 3-o-sulfotransferase 3b1. [refseq;acc:nm_006041]	219.421	196.978	1.11394
	Squared	neuronal acetylcholine receptor protein, alpha-7 chain precursor. [swissprot;acc:p36544]	26157.6	20236.2	1.29261
	Rooted	polymerase (dna directed) iota; rad30 (s. cerevisiae) homolog b; polymerase (dna-directed), iota. [refseq;acc:nm_007195]	59.4073	66.7002	1.12276
263	Measured	trs85 homolog. [swissprot;acc:q9y2l5]	24896.4	20431.7	1.21852
	Ranked	heparan sulfate d-glucosaminyl 3-o-sulfotransferase 2; heparin-glucosamine 3-o-sulfotransferase. [refseq;acc:nm_006043]	219.421	196.978	1.11394
	Squared	adenylate cyclase, type vi (ec 4.6.1.1) (atp pyrophosphate-lyase) (ca(2+)-inhibitable adenylyl cyclase). [swissprot;acc:o43306]	26157.6	20236.2	1.29261
	Rooted	paxillin. [swissprot;acc:p49023]	59.4073	66.7002	1.12276
264	Measured	cop9 constitutive photomorphogenic homolog subunit 3; cop9 complex subunit 3; jab1-containing signalosome subunit 3. [refseq;acc:nm_003653]	4987.58	4094.57	1.2181
	Ranked	mrna decapping enzyme; histidine triad protein member 5; heat shock-like protein 1. [refseq;acc:nm_014026]	219.421	196.978	1.11394
	Squared	adenylate cyclase, type v (ec 4.6.1.1) (atp pyrophosphate-lyase) (adenylyl cyclase) (fragment). [swissprot;acc:o95622]	26157.6	20236.2	1.29261
	Rooted	wiskott-aldrich syndrome protein (wasp). [swissprot;acc:p42768]	66.1122	74.1438	1.12148
265	Measured	wd-repeat protein wdc146. [swissprot;acc:q9c0j8]	24806.9	20369.9	1.21782

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.