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

Navigation/Query Panel:
Click on the attribute name to hide/unhide it. The green arrows can be used to shift columns left/right. Exact word match is written as =..., regular expressions can be matched with ~.... To select all values larger or equal than use >.... This would be <... for values smaller or equal than. To select all values within a specific range use [...,...].

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

Results: HTML CSV LaTeX

Showing element 408 to 457 of 12912 in total

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

Rank	description	Value Type	red	green	network_comparison
102	rap1 gtpase-activating protein 1 (rap1gap). [swissprot;acc:p47736]	Rooted	47.6504	36.9304	1.29028
103	cullin homolog 1 (cul-1). [swissprot;acc:q13616]	Measured	2353.63	3225.65	1.3705
	mannosyl-oligosaccharide 1,2-alpha-mannosidase ib (ec 3.2.1.113) (processing alpha-1,2-mannosidase ib) (alpha-1,2-mannosidase ib) (mannosidase alpha class 1a member 2). [swissprot;acc:o60476]	Squared	407289	263351	1.54656
	proto-oncogene protein c-fos (cellular oncogene fos) (g0/g1 switch regulatory protein 7). [swissprot;acc:p01100]	Rooted	60.8365	77.7233	1.27758
	trophinin. [swissprot;acc:q12816]	Ranked	88.2482	110.265	1.24949
104	cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438]	Squared	407289	263351	1.54656
	homer, neuronal immediate early gene, 2; homer homolog 3 (drosophila). [refseq;acc:nm_004839]	Ranked	252.371	202.016	1.24926
	jun dimerization protein. [refseq;acc:nm_130469]	Rooted	60.8365	77.7233	1.27758
	musashi 2 isoform a. [refseq;acc:nm_138962]	Measured	4241.57	5810.79	1.36996
105	cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [swissprot;acc:q99418]	Squared	407289	263351	1.54656
	fos-related antigen 2. [swissprot;acc:p15408]	Rooted	60.8675	77.7168	1.27682
	guanine nucleotide-binding protein g(i)/g(s)/g(t) beta subunit 1 (transducin beta chain 1). [swissprot;acc:p04901]	Ranked	266.716	333.165	1.24914
	musashi 1. [refseq;acc:nm_002442]	Measured	4241.57	5810.79	1.36996
106	cytohesin 4. [swissprot;acc:q9uia0]	Squared	407289	263351	1.54656
	nuclear protein ukp68. [refseq;acc:nm_024824]	Measured	4241.57	5810.79	1.36996
	protein fosb (g0/g1 switch regulatory protein 3). [swissprot;acc:p53539]	Rooted	60.8692	77.7165	1.27678
	ubiquinone biosynthesis protein coq7 homolog (coenzyme q biosynthesis protein 7 homolog) (timing protein clk-1 homolog). [swissprot;acc:q99807]	Ranked	252.329	202.004	1.24913
107	20 kda nuclear cap binding protein (ncbp 20 kda subunit) (cbp20) (ncbp interacting protein 1) (nip1). [swissprot;acc:p52298]	Measured	4266.04	5843.51	1.36977
	cytohesin 3 (arf nucleotide-binding site opener 3) (arno3 protein) (general receptor of phosphoinositides 1) (grp1). [swissprot;acc:o43739]	Squared	407289	263351	1.54656
	fos-related antigen 1 (fra-1). [swissprot;acc:p15407]	Rooted	60.875	77.7152	1.27664
	homer, neuronal immediate early gene, 1b. [refseq;acc:nm_004272]	Ranked	252.309	201.998	1.24907
108	filamin b, beta (actin binding protein 278); beta filamin; filamin 1 (actin-binding protein-280)-like; filamin b, beta (actin-binding protein-278); filamin b, beta. [refseq;acc:nm_001457]	Measured	4366.44	5899.76	1.35116
	homer, neuronal immediate early gene, 3. [refseq;acc:nm_004838]	Ranked	252.296	201.995	1.24902
	myosin heavy chain, cardiac muscle alpha isoform (myhc-alpha). [swissprot;acc:p13533]	Squared	19321	12542.6	1.54043
	voltage-dependent calcium channel gamma-2 subunit (neuronal voltage- gated calcium channel gamma-2 subunit). [swissprot;acc:q9y698]	Rooted	49.2925	62.397	1.26585
109	guanine nucleotide-binding protein beta subunit 4 (transducin beta chain 4). [swissprot;acc:q9hav0]	Ranked	266.933	333.281	1.24856
	myosin heavy chain, skeletal muscle, fetal (myosin heavy chain iib) (myhc-iib). [swissprot;acc:q9y623]	Squared	19321	12542.6	1.54043
	rev1-like; rev1 protein; rev1 (yeast homolog)- like. [refseq;acc:nm_016316]	Measured	4366.44	5899.76	1.35116
	voltage-dependent calcium channel gamma-8 subunit (neuronal voltage- gated calcium channel gamma-8 subunit). [swissprot;acc:q8wxs5]	Rooted	49.2923	62.3969	1.26585
110	deltex 2. [refseq;acc:nm_020892]	Ranked	333.144	267.393	1.2459
	myosin heavy chain, skeletal muscle, perinatal (myhc-perinatal). [swissprot;acc:p13535]	Squared	19321	12542.6	1.54043
	protein arginine n-methyltransferase 1 (ec 2.1.1.-) (interferon receptor 1-bound protein 4). [swissprot;acc:q99873]	Measured	4366.44	5899.76	1.35116
	voltage-dependent calcium channel gamma-4 subunit (neuronal voltage- gated calcium channel gamma-4 subunit). [swissprot;acc:q9ubn1]	Rooted	49.293	62.3973	1.26585
111	deltex homolog 1; hdx-1. [refseq;acc:nm_004416]	Ranked	332.925	267.274	1.24563
	myosin heavy chain, skeletal muscle, adult 2 (myosin heavy chain iia) (myhc-iia). [swissprot;acc:q9ukx2]	Squared	19321	12542.6	1.54043
	protein arginine n-methyltransferase 4 (ec 2.1.1.-). [swissprot;acc:q9nr22]	Measured	4366.44	5899.76	1.35116
	voltage-dependent calcium channel gamma-3 subunit (neuronal voltage- gated calcium channel gamma-3 subunit). [swissprot;acc:o60359]	Rooted	49.2923	62.3969	1.26585
112	myosin heavy chain, fast skeletal muscle, embryonic (muscle embryonic myosin heavy chain) (smhce). [swissprot;acc:p11055]	Squared	19321	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]	Ranked	332.874	267.246	1.24557
	u1 small nuclear ribonucleoprotein 70 kda (u1 snrnp 70 kda) (snrnp70) (u1-70k). [swissprot;acc:p08621]	Measured	4366.44	5899.76	1.35116
	voltage-dependent calcium channel gamma-5 subunit (neuronal voltage- gated calcium channel gamma-5 subunit). [swissprot;acc:q9uf02]	Rooted	49.3267	62.4167	1.26537
113	beta-arrestin 2 (arrestin, beta 2). [swissprot;acc:p32121]		80.4705	101.526	1.26165
	filamin a (alpha-filamin) (filamin 1) (endothelial actin-binding protein) (abp-280) (nonmuscle filamin). [swissprot;acc:p21333]	Measured	4366.44	5899.76	1.35116
	kh domain containing, rna binding, signal transduction associated 3; sam68-like phosphotyrosine protein, t-star. [refseq;acc:nm_006558]	Ranked	332.874	267.246	1.24557
	myosin heavy chain, skeletal muscle, adult 1 (myosin heavy chain iix/d) (myhc-iix/d). [swissprot;acc:p12882]	Squared	19321	12542.6	1.54043
114	beta-arrestin 1 (arrestin, beta 1). [swissprot;acc:p49407]	Rooted	80.4705	101.526	1.26165
	huntingtin interacting protein c. [refseq;acc:nm_012272]	Measured	4300.47	5807.72	1.35048
	kh domain containing, rna binding, signal transduction associated 1; gap-associated tyrosine phosphoprotein p62 (sam68). [refseq;acc:nm_006559]	Ranked	332.874	267.246	1.24557
	myosin heavy chain, cardiac muscle beta isoform (myhc-beta). [swissprot;acc:p12883]	Squared	19321	12542.6	1.54043
115	28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5]	Measured	21185	28492	1.34491

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.