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 3012 to 3061 of 12912 in total

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

Rank	description	Value Type	red	green	network_comparison
753	myosin light chain 1, slow-twitch muscle a isoform (mlc1sa) (alkali). [swissprot;acc:p14649]	Measured	4565.34	5085.92	1.11403
754	5'-amp-activated protein kinase, gamma-3 subunit (ampk gamma-3 chain) (ampk gamma3). [swissprot;acc:q9ugi9]	Rooted	66.9737	71.4637	1.06704
	branched-chain amino acid aminotransferase, cytosolic (ec 2.6.1.42) (bcat(c)) (eca39 protein). [swissprot;acc:p54687]	Squared	23958.6	27945.1	1.16639
	microsomal signal peptidase 25 kda subunit (ec 3.4.-.-) (spase 25 kda subunit) (spc25). [swissprot;acc:q15005]	Ranked	224.434	235.583	1.04968
	myosin light chain 1, embryonic muscle/atrial isoform (pro1957). [swissprot;acc:p12829]	Measured	4565.34	5085.92	1.11403
755	5'-amp-activated protein kinase, beta-1 subunit (ampk beta-1 chain) (ampkb). [swissprot;acc:q9y478]	Rooted	66.9737	71.4637	1.06704
	branched-chain amino acid aminotransferase, mitochondrial precursor (ec 2.6.1.42) (bcat(m)) (placental protein 18) (pp18). [swissprot;acc:o15382]	Squared	23966.4	27952.2	1.16631
	nucleolar rna-associated protein alpha isoform. [refseq;acc:nm_022917]	Measured	4079.81	4545.01	1.11402
	uridine 5'-monophosphate synthase (ump synthase) [includes: orotate phosphoribosyltransferase (ec 2.4.2.10) (oprtase); orotidine 5'- phosphate decarboxylase (ec 4.1.1.23) (ompdecase)]. [swissprot;acc:p11172]	Ranked	224.434	235.583	1.04968
756	5'-amp-activated protein kinase, gamma-2 subunit (ampk gamma-2 chain) (ampk gamma2) (h91620p). [swissprot;acc:q9ugj0]	Rooted	66.9737	71.4637	1.06704
	cleft lip and palate associated transmembrane protein 1. [refseq;acc:nm_001294]	Ranked	224.434	235.583	1.04968
	topoisomerase-related function protein 4-2. [refseq;acc:nm_022447]	Measured	4725.28	5261.06	1.11339
	transducin-like enhancer protein 4. [swissprot;acc:q04727]	Squared	31298	36502	1.16627
757	bactericidal permeability-increasing protein precursor (bpi) (cap 57). [swissprot;acc:p17213]	Ranked	224.434	235.583	1.04968
	signal recognition particle 68 kda protein (srp68). [swissprot;acc:q9uhb9]	Measured	5622.89	6260.02	1.11331
	splicing factor 3a subunit 2 (spliceosome associated protein 62) (sap 62) (sf3a66). [swissprot;acc:q15428]	Squared	20248.9	23608.3	1.16591
	ubiquinol-cytochrome c reductase complex core protein i, mitochondrial precursor (ec 1.10.2.2). [swissprot;acc:p31930]	Rooted	60.4457	64.4918	1.06694
758	dna polymerase epsilon subunit b (ec 2.7.7.7) (dna polymerase ii subunit b). [swissprot;acc:p56282]	Measured	3760.3	4185.82	1.11316
	krueppel-like factor 5 (intestinal-enriched krueppel-like factor) (colon krueppel-like factor) (transcription factor bteb2) (basic transcription element binding protein 2) (bte-binding protein 2) (gc box binding protein 2). [swissprot;acc:q13887]	Squared	20248.9	23608.3	1.16591
	phospholipid transfer protein precursor (lipid transfer protein ii). [swissprot;acc:p55058]	Ranked	224.434	235.583	1.04968
	trna (5-methylaminomethyl-2-thiouridylate)-methyltransferase (ec 2.1.1.61). [swissprot;acc:o75648]	Rooted	96.6463	103.103	1.06681
759	6-phosphofructokinase, type c (ec 2.7.1.11) (phosphofructokinase 1) (phosphohexokinase) (phosphofructo-1-kinase isozyme c) (pfk-c) (6-phosphofructokinase, platelet type). [swissprot;acc:q01813]	Measured	4254.62	4736.03	1.11315
	coatomer alpha subunit (alpha-coat protein) (alpha-cop) (hepcop) (hep-cop) [contains: xenin (xenopsin-related peptide); proxenin]. [swissprot;acc:p53621]	Squared	49280.5	42272.7	1.16578
	nascent-polypeptide-associated complex alpha polypeptide. [refseq;acc:nm_005594]	Rooted	66.9416	71.4055	1.06668
	osteoclast stimulating factor 1. [swissprot;acc:q92882]	Ranked	231.809	243.289	1.04952
760	atpase, h+ transporting, lysosomal 38kda, v0 subunit d isoform 2. [refseq;acc:nm_152565]	Measured	5870.2	6533.39	1.11298
	c18b11 homolog (44.9kd). [refseq;acc:nm_152260]	Squared	21186.4	24698.3	1.16576
	small gtp-binding tumor suppressor 1. [refseq;acc:nm_145173]	Rooted	66.9397	71.4023	1.06667
	upf0202 protein kiaa1709. [swissprot;acc:q9h0a0]	Ranked	246.055	234.458	1.04946
761	alpha-nac protein. [sptrembl;acc:q9h009]	Rooted	66.9404	71.4035	1.06667
	signal transduction protein cbl-b (sh3-binding protein cbl-b). [swissprot;acc:q13191]	Ranked	213.325	203.303	1.0493
	translation initiation factor if-2. [swissprot;acc:o60841]	Measured	5811.51	6467.62	1.1129
	z-protein (protein cgi-119) (s1r protein). [swissprot;acc:q9hc24]	Squared	21186.4	24698.3	1.16576
762	cbl e3 ubiquitin protein ligase (ec 6.3.2.-) (signal transduction protein cbl) (proto-oncogene c-cbl). [swissprot;acc:p22681]	Ranked	213.256	203.237	1.0493
	di-ras2. [refseq;acc:nm_017594]	Rooted	66.9397	71.4022	1.06666
	pms1 protein homolog 2 (dna mismatch repair protein pms2). [swissprot;acc:p54278]	Measured	6231.31	6933.9	1.11275
	pp1201 protein. [refseq;acc:nm_022152]	Squared	21186.4	24698.3	1.16576
763	6-phosphofructokinase, muscle type (ec 2.7.1.11) (phosphofructokinase 1) (phosphohexokinase) (phosphofructo-1-kinase isozyme a) (pfk-a) (phosphofructokinase-m). [swissprot;acc:p08237]	Measured	4250.54	4729.67	1.11272
	lifeguard; kiaa0950 protein. [refseq;acc:nm_012306]	Squared	21186.4	24698.3	1.16576
	putative n6-dna-methyltransferase (ec 2.1.1.-) (protein pred28) (m.hsahemk2p). [swissprot;acc:q9y5n5]	Ranked	228.78	218.091	1.04901
	tata-binding protein-associated phosphoprotein (down-regulator of transcription 1) (dr1 protein). [swissprot;acc:q01658]	Rooted	60.3269	64.3387	1.0665
764	6-phosphofructokinase, liver type (ec 2.7.1.11) (phosphofructokinase 1) (phosphohexokinase) (phosphofructo-1-kinase isozyme b) (pfk-b). [swissprot;acc:p17858]	Measured	4250.18	4729.12	1.11269
	cystathionine beta-synthase (ec 4.2.1.22) (serine sulfhydrase) (beta-thionase). [swissprot;acc:p35520]	Rooted	63.5181	67.7402	1.06647
	sterol regulatory element binding protein-2 (srebp-2) (sterol regulatory element-binding transcription factor 2). [swissprot;acc:q12772]	Squared	21186.4	24698.3	1.16576
	u4/u6-associated rna splicing factor. [refseq;acc:nm_004698]	Ranked	222.082	211.707	1.04901
765	hemk protein homolog (ec 2.1.1.-) (m.hsahemkp). [swissprot;acc:q9y5r4]		229.045	218.343
	polymerase (dna directed) sigma; topoisomerase-related function protein 4-1; polymerase (dna-directed) sigma. [refseq;acc:nm_006999]	Measured	4726.38	5258.95	1.11268
	sterol regulatory element binding protein-1 (srebp-1) (sterol regulatory element-binding transcription factor 1). [swissprot;acc:p36956]	Squared	21186.4	24698.3	1.16576
	transforming protein rhoc (h9). [swissprot;acc:p08134]	Rooted	63.5181	67.7402	1.06647
766	atp synthase gamma chain, mitochondrial precursor (ec 3.6.3.14). [swissprot;acc:p36542]	Squared	24509.4	28571.6	1.16574

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.