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 3608 to 3657 of 12912 in total

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

Rank	description	Value Type	red	green	network_comparison
902	heparan sulfate d-glucosaminyl 3-o-sulfotransferase 2; heparin-glucosamine 3-o-sulfotransferase. [refseq;acc:nm_006043]	Rooted	66.5785	70.6139	1.06061
903	eukaryotic translation initiation factor 3 subunit 4 (eif-3 delta) (eif3 p44) (eif-3 rna-binding subunit) (eif3 p42) (eif3g). [swissprot;acc:o75821]	Ranked	246.354	237.223	1.03849
	mrna decapping enzyme; histidine triad protein member 5; heat shock-like protein 1. [refseq;acc:nm_014026]	Rooted	66.5785	70.6139	1.06061
	probable atp-dependent helicase ddx35 (deah-box protein 35). [swissprot;acc:q9h5z1]	Squared	28068.5	32522.9	1.1587
	red cell acid phosphatase 1, isozyme f (ec 3.1.3.2) (acp1) (low molecular weight phosphotyrosine protein phosphatase) (ec 3.1.3.48) (adipocyte acid phosphatase, isozyme alpha). [swissprot;acc:p24666]	Measured	4986.58	5492.51	1.10146
904	arginase ii, mitochondrial precursor (ec 3.5.3.1) (non-hepatic arginase) (kidney-type arginase). [swissprot;acc:p78540]	Squared	25492.1	29535.4	1.15861
	eukaryotic translation initiation factor 3 subunit 10 (eif-3 theta) (eif3 p167) (eif3 p180) (eif3 p185) (eif3a). [swissprot;acc:q14152]	Ranked	246.354	237.223	1.03849
	importin beta-3 subunit (karyopherin beta-3 subunit) (ran-binding protein 5). [swissprot;acc:o00410]	Measured	6167.33	6785.98	1.10031
	prohibitin. [swissprot;acc:p35232]	Rooted	63.4547	67.3003	1.0606
905	acyl-coenzyme a oxidase 2, peroxisomal (ec 1.3.3.6) (branched-chain acyl-coa oxidase) (brcacox) (trihydroxycoprostanoyl-coa oxidase) (thccox) (thca-coa oxidase). [swissprot;acc:q99424]	Squared	27382	31722.9	1.15853
	dna directed rna polymerase ii polypeptide j-related gene isoform 3; rpb11b1alpha protein; rpb11b1beta; dna-directed rna polymerase ii subunit 11. [refseq;acc:nm_032959]	Ranked	230.768	239.632	1.03841
	repressor of estrogen receptor activity; b-cell associated protein. [refseq;acc:nm_007273]	Rooted	63.4547	67.3003	1.0606
	steroid hormone receptor err1 (estrogen-related receptor, alpha) (err-alpha) (estrogen receptor-like 1). [swissprot;acc:p11474]	Measured	10230.1	11256.2	1.1003
906	arginase 1 (ec 3.5.3.1) (liver-type arginase). [swissprot;acc:p05089]	Squared	25498.1	29537.7	1.15843
	dna directed rna polymerase ii polypeptide j-related gene isoform 1; rpb11b1alpha protein; rpb11b1beta; dna-directed rna polymerase ii subunit 11. [refseq;acc:nm_145325]	Ranked	230.764	239.62	1.03838
	peroxisomal carnitine octanoyltransferase (ec 2.3.1.-) (cot). [swissprot;acc:q9ukg9]	Rooted	61.6325	65.3619	1.06051
	ran-gtp binding protein (fragment). [sptrembl;acc:o60518]	Measured	6165.1	6783.01	1.10023
907	ba305p22.3 (breast carcinoma amplified sequence 4). [sptrembl;acc:q8ndy6]		11852.9	10773.5	1.10019
	glucose-6-phosphate 1-dehydrogenase (ec 1.1.1.49) (g6pd). [swissprot;acc:p11413]	Squared	28767.1	33317.5	1.15818
	junction plakoglobin (desmoplakin iii). [swissprot;acc:p14923]	Ranked	223.906	215.653	1.03827
	sh2 domain binding protein 1; tpr-containing, sh2-binding phosphoprotein. [refseq;acc:nm_014633]	Rooted	53.6328	56.8668	1.0603
908	basic helix-loop-helix domain containing, class b, 5; trinucleotide repeat containing 20. [refseq;acc:nm_152414]	Measured	11848.8	10770.3	1.10014
	dna damage binding protein 1 (damage-specific dna binding protein 1) (ddb p127 subunit) (ddba) (uv-damaged dna-binding protein 1) (uv-ddb 1) (xeroderma pigmentosum group e complementing protein) (xpce) (x- associated protein 1) (xap-1). [swissprot;acc:q16531]	Rooted	62.6851	66.4615	1.06024
	dna-repair protein xrcc3 (x-ray repair cross-complementing protein 3). [swissprot;acc:o43542]	Squared	28767.1	33317.5	1.15818
	tax interaction protein 1. [refseq;acc:nm_014604]	Ranked	223.906	215.653	1.03827
909	atp-dependent dna helicase q5 (recq protein-like 5) (recq5). [swissprot;acc:o94762]	Squared	28767.1	33317.5	1.15818
	kinesin family member c3. [refseq;acc:nm_005550]	Measured	5995.49	6595.35	1.10005
	propionyl-coa carboxylase beta chain, mitochondrial precursor (ec 6.4.1.3) (pccase beta subunit) (propanoyl-coa:carbon dioxide ligase beta subunit). [swissprot;acc:p05166]	Rooted	62.6851	66.4615	1.06024
	septin 1 (larp) (serologically defined breast cancer antigen ny-br- 24). [swissprot;acc:q8wyj6]	Ranked	142.077	136.846	1.03823
910	porphobilinogen deaminase (ec 4.3.1.8) (hydroxymethylbilane synthase) (hmbs) (pre-uroporphyrinogen synthase) (pbg-d). [swissprot;acc:p08397]	Squared	19732.4	22852.4	1.15812
	programmed cell death protein 5 (tfar19 protein) (tf-1 cell apoptosis related gene-19 protein). [swissprot;acc:o14737]	Rooted	55.9078	59.2557	1.05988
	sipl protein. [refseq;acc:nm_018269]	Measured	6522.94	7175.18	1.09999
	uba/ubx 33.3 kda protein. [swissprot;acc:q04323]	Ranked	217.168	209.207	1.03805
911	ero1-like. [refseq;acc:nm_014584]
	prefoldin subunit 5 (c-myc binding protein mm-1) (myc modulator 1). [swissprot;acc:q99471]	Measured	4982.81	5480.91	1.09996
	protein cgi-126 (protein hspc155). [swissprot;acc:q9y3c8]	Squared	13688.1	15849.2	1.15788
	retinoblastoma-like protein 2 (130 kda retinoblastoma-associated protein) (prb2) (p130) (rbr-2). [swissprot;acc:q08999]	Rooted	64.1165	67.9451	1.05971
912	importin beta-3 subunit (karyopherin beta-3 subunit) (ran-binding protein 5). [swissprot;acc:o00410]	Squared	30826.4	35693.3	1.15788
	prefoldin subunit 6 (protein ke2). [swissprot;acc:o15212]	Measured	4982.81	5480.91	1.09996
	retinoblastoma-like protein 1 (107 kda retinoblastoma-associated protein) (prb1) (p107). [swissprot;acc:p28749]	Rooted	64.1184	67.9467	1.05971
	wd-repeat protein 3. [swissprot;acc:q9unx4]	Ranked	243.896	234.96	1.03803
913	enoyl-coa hydratase, mitochondrial precursor (ec 4.2.1.17) (short chain enoyl-coa hydratase) (sceh) (enoyl-coa hydratase 1). [swissprot;acc:p30084]	Rooted	82.0749	86.9643	1.05957
	prip-interacting protein pipmt; prip-interacting protein with methyltransferase domain. [refseq;acc:nm_024831]	Ranked	210.863	218.878	1.03801
	ran-gtp binding protein (fragment). [sptrembl;acc:o60518]	Squared	30802.6	35663.9	1.15782
	ww domain binding protein 2 (wbp-2). [swissprot;acc:q969t9]	Measured	5768.5	6342.05	1.09943
914	15 kda selenoprotein precursor. [swissprot;acc:o60613]	Squared	29772.1	34456.5	1.15734
	annexin a11 (annexin xi) (calcyclin-associated annexin 50) (cap-50) (56 kda autoantigen). [swissprot;acc:p50995]	Rooted	61.4687	65.1194	1.05939
	cathepsin b precursor (ec 3.4.22.1) (cathepsin b1) (app secretase). [swissprot;acc:p07858]	Measured	6513.45	7161	1.09942
	pdz/coiled-coil domain binding partner for the rho-family gtpase tc10; fused in glioblastoma; golgi associated pdz and coiled-coil motif containing protein; cftr-associated ligand. [refseq;acc:nm_020399]	Ranked	210.863	218.878	1.03801
915	cytochrome b5 reductase b5r.2. [refseq;acc:nm_016229]	Measured	6289.72	6911.96	1.09893

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.