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

Results: HTML CSV LaTeX

Showing element 862 to 911 of 33156 in total

Network Comparison Type  : Divided
Filtered  : 1

Rank	description	Hugo	red	Value Type	Interaction Map	green	network_comparison
108	septin 1 (larp) (serologically defined breast cancer antigen ny-br- 24). [swissprot;acc:q8wyj6]	SEPT1	10499	Measured	Low confidence	11515.8	1.09685
	sphingomyelin phosphodiesterase 2 (ec 3.1.4.12) (neutral sphingomyelinase) (nsmase) (n-smase) (lyso-platelet activating factor- phospholipase c) (lyso-paf-plc). [swissprot;acc:o60906]	SMPD2	57.5193	Rooted		53.0965	1.0833
	voltage-dependent calcium channel gamma-2 subunit (neuronal voltage- gated calcium channel gamma-2 subunit). [swissprot;acc:q9y698]	CACNG2	49.2925		High confidence	62.397	1.26585
109	atp synthase d chain, mitochondrial (ec 3.6.3.14) (my032 protein). [swissprot;acc:o75947]	ATP5H	59868.5	Squared	Low confidence	51759.6	1.15666
	db83 protein. [swissprot;acc:p57088]	TMEM33	57.5193	Rooted		53.0965	1.0833
	guanine nucleotide-binding protein beta subunit 4 (transducin beta chain 4). [swissprot;acc:q9hav0]	GNB4	266.933	Ranked	High confidence	333.281	1.24856
	myosin heavy chain, skeletal muscle, fetal (myosin heavy chain iib) (myhc-iib). [swissprot;acc:q9y623]	MYH4	19321	Squared		12542.6	1.54043
	neuralized-like. [refseq;acc:nm_004210]	NEURL	232.704	Ranked	Low confidence	216.996	1.07239
	rev1-like; rev1 protein; rev1 (yeast homolog)- like. [refseq;acc:nm_016316]	REV1	4366.44	Measured	High confidence	5899.76	1.35116
	vacuolar protein sorting 33b (hvps33b). [swissprot;acc:q9h267]	VPS33B	7354.65		Low confidence	8065.08	1.0966
	voltage-dependent calcium channel gamma-8 subunit (neuronal voltage- gated calcium channel gamma-8 subunit). [swissprot;acc:q8wxs5]	CACNG8	49.2923	Rooted	High confidence	62.3969	1.26585
110	deltex 2. [refseq;acc:nm_020892]	DTX2	333.144	Ranked		267.393	1.2459
	disks large-associated protein 2 (dap-2) (sap90/psd-95-associated protein 2) (sapap2) (psd-95/sap90 binding protein 2) (fragment). [swissprot;acc:q9p1a6]	no value	197.752		Low confidence	212.031	1.07221
	high-mobility group 20b; sox-like transcriptional factor; swi/snf-related matrix-associated actin-dependent regulator of chromatin subfamily e, member 1-related. [refseq;acc:nm_006339]	HMG20B	69.0515	Rooted		74.7493	1.08252
			7206.99	Measured		7896.81	1.09572
	intersectin 2 (sh3 domain-containing protein 1b) (sh3p18) (sh3p18-like wasp associated protein). [swissprot;acc:q9nzm3]	no value	60017	Squared		52050.3	1.15306
	myosin heavy chain, skeletal muscle, perinatal (myhc-perinatal). [swissprot;acc:p13535]	MYH8	19321		High confidence	12542.6	1.54043
	protein arginine n-methyltransferase 1 (ec 2.1.1.-) (interferon receptor 1-bound protein 4). [swissprot;acc:q99873]	PRMT1	4366.44	Measured		5899.76	1.35116
	voltage-dependent calcium channel gamma-4 subunit (neuronal voltage- gated calcium channel gamma-4 subunit). [swissprot;acc:q9ubn1]	CACNG4	49.293	Rooted		62.3973	1.26585
111	3-hydroxyanthranilate 3,4-dioxygenase (ec 1.13.11.6) (3-hao) (3-hydroxyanthranilic acid dioxygenase) (3-hydroxyanthranilate oxygenase). [swissprot;acc:p46952]	HAAO	65044.3	Squared	Low confidence	74962.3	1.15248
	deltex homolog 1; hdx-1. [refseq;acc:nm_004416]	DTX1	332.925	Ranked	High confidence	267.274	1.24563
	melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [refseq;acc:nm_030801]	MAGED4	11285.3	Measured	Low confidence	10318.5	1.0937
	myosin heavy chain, skeletal muscle, adult 2 (myosin heavy chain iia) (myhc-iia). [swissprot;acc:q9ukx2]	MYH2	19321	Squared	High confidence	12542.6	1.54043
	neuralized-like. [refseq;acc:nm_004210]	NEURL	61.317	Rooted	Low confidence	66.3394	1.08191
	protein arginine n-methyltransferase 4 (ec 2.1.1.-). [swissprot;acc:q9nr22]	PRMT8	4366.44	Measured	High confidence	5899.76	1.35116
	vacuolar protein sorting 33a (hvps33a). [swissprot;acc:q96ax1]	VPS33A	203.914	Ranked	Low confidence	190.189	1.07217
	voltage-dependent calcium channel gamma-3 subunit (neuronal voltage- gated calcium channel gamma-3 subunit). [swissprot;acc:o60359]	CACNG3	49.2923	Rooted	High confidence	62.3969	1.26585
112	cellular repressor of e1a-stimulated genes. [refseq;acc:nm_003851]	CREG1	197.762	Ranked	Low confidence	212.013	1.07206
	hepatocellular carcinoma-associated protein hca3. [refseq;acc:nm_138703]	MAGEE2	11285.3	Measured		10318.5	1.0937
	intersectin 1 (sh3 domain-containing protein 1a) (sh3p17). [swissprot;acc:q15811]	no value	59879.6	Squared		51975.3	1.15208
	lag1 longevity assurance homolog 2 isoform 1; l3 pigment; tumor metastasis-suppressor. [refseq;acc:nm_022075]	LASS2	71.084	Rooted		76.8432	1.08102
	myosin heavy chain, fast skeletal muscle, embryonic (muscle embryonic myosin heavy chain) (smhce). [swissprot;acc:p11055]	MYH3	19321	Squared	High confidence	12542.6	1.54043
	t-lak cell-originated protein kinase; spermatogenesis-related protein kinase; pdz-binding kinase; pbk; mapkk-like protein kinase; serine/threonine protein kinase. [refseq;acc:nm_018492]	PBK	332.874	Ranked		267.246	1.24557
	u1 small nuclear ribonucleoprotein 70 kda (u1 snrnp 70 kda) (snrnp70) (u1-70k). [swissprot;acc:p08621]	SNRP70	4366.44	Measured		5899.76	1.35116
	voltage-dependent calcium channel gamma-5 subunit (neuronal voltage- gated calcium channel gamma-5 subunit). [swissprot;acc:q9uf02]	CACNG5	49.3267	Rooted		62.4167	1.26537
113	beta-arrestin 2 (arrestin, beta 2). [swissprot;acc:p32121]	ARRB2	80.4705			101.526	1.26165
	cellular repressor of e1a-stimulated genes 2. [refseq;acc:nm_153836]	CREG2	197.763	Ranked	Low confidence	212.011	1.07205
	endoplasmic reticulum mannosyl-oligosaccharide 1,2-alpha-mannosidase (ec 3.2.1.113) (er alpha-1,2-mannosidase) (mannosidase alpha class 1b member 1) (man9glcnac2-specific processing alpha-mannosidase). [swissprot;acc:q9ukm7]	MAN1B1	66.9562	Rooted		72.3243	1.08017
	filamin a (alpha-filamin) (filamin 1) (endothelial actin-binding protein) (abp-280) (nonmuscle filamin). [swissprot;acc:p21333]	no value	4366.44	Measured	High confidence	5899.76	1.35116
	kh domain containing, rna binding, signal transduction associated 3; sam68-like phosphotyrosine protein, t-star. [refseq;acc:nm_006558]	KHDRBS3	332.874	Ranked		267.246	1.24557
	melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [swissprot;acc:p43357]	no value	11285.3	Measured	Low confidence	10318.5	1.0937
	myosin heavy chain, skeletal muscle, adult 1 (myosin heavy chain iix/d) (myhc-iix/d). [swissprot;acc:p12882]	MYH1	19321	Squared	High confidence	12542.6	1.54043
	septin 1 (larp) (serologically defined breast cancer antigen ny-br- 24). [swissprot;acc:q8wyj6]	SEPT1	59884.7		Low confidence	68850.8	1.14972
114	beta-arrestin 1 (arrestin, beta 1). [swissprot;acc:p49407]	ARRB1	80.4705	Rooted	High confidence	101.526	1.26165
	disks large-associated protein 1 (dap-1) (guanylate kinase-associated protein) (hgkap) (sap90/psd-95-associated protein 1) (sapap1) (psd- 95/sap90 binding protein 1). [swissprot;acc:o14490]	DLGAP1	197.779	Ranked	Low confidence	211.983	1.07182
	huntingtin interacting protein c. [refseq;acc:nm_012272]	PRPF40B	4300.47	Measured	High confidence	5807.72	1.35048
	kh domain containing, rna binding, signal transduction associated 1; gap-associated tyrosine phosphoprotein p62 (sam68). [refseq;acc:nm_006559]	KHDRBS1	332.874	Ranked		267.246	1.24557
	melanoma-associated antigen 11 (mage-11 antigen). [swissprot;acc:p43364]	MAGEA11	11285.3	Measured	Low confidence	10318.5	1.0937
	myosin heavy chain, cardiac muscle beta isoform (myhc-beta). [swissprot;acc:p12883]	no value	19321	Squared	High confidence	12542.6	1.54043
	ornithine carbamoyltransferase, mitochondrial precursor (ec 2.1.3.3) (otcase) (ornithine transcarbamylase). [swissprot;acc:p00480]	OTC	65896.9		Low confidence	75670.5	1.14832

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
- Hugo is the HGNC identifier if it exists
- 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.