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 [...,...].

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

Results: HTML CSV LaTeX

Showing element 2908 to 2957 of 8289 in total

Network Comparison Type  : Divided
Value Type  : Ranked
Filtered  : 1

description	Rank	Hugo	Interaction Map	red	green	network_comparison
glycine receptor alpha-3 chain precursor. [swissprot;acc:o75311]	2986	GLRA3	Low confidence	202.536	199.195	1.01677
glycine receptor beta chain precursor (glycine receptor 58 kda subunit). [swissprot;acc:p48167]	3083	GLRB	High confidence	0.00001	0.00001	1
	3185		Low confidence	202.135	198.928	1.01612
glycogen debranching enzyme (glycogen debrancher) [includes: 4-alpha- glucanotransferase (ec 2.4.1.25) (oligo-1,4-1,4-glucantransferase); amylo-alpha-1,6-glucosidase (ec 3.2.1.33) (amylo-1,6-glucosidase) (dextrin 6-alpha-d-glucosidase)]. [swissprot;acc:p35573]	1713	AGL		194.18	190.277	1.02051
glycogen phosphorylase, brain form (ec 2.4.1.1). [swissprot;acc:p11216]	19	PYGB	High confidence	185.678	245.247	1.32082
	2327		Low confidence	199.457	195.805	1.01865
glycogen phosphorylase, liver form (ec 2.4.1.1). [swissprot;acc:p06737]	20	PYGL	High confidence	185.678	245.247	1.32082
	2323		Low confidence	199.44	195.786	1.01866
glycogen phosphorylase, muscle form (ec 2.4.1.1) (myophosphorylase). [swissprot;acc:p11217]	22	PYGM	High confidence	185.678	245.247	1.32082
	2343		Low confidence	199.472	195.825	1.01862
glycogen synthase kinase-3 alpha (ec 2.7.1.37) (gsk-3 alpha). [swissprot;acc:p49840]	1805	GSK3A		199.294	195.368	1.0201
	2186		High confidence	211.713	210.318	1.00663
glycogen synthase kinase-3 beta (ec 2.7.1.37) (gsk-3 beta). [swissprot;acc:p49841]	1809	GSK3B	Low confidence	199.322	195.398	1.02008
	2187		High confidence	211.713	210.318	1.00663
glycogen [starch] synthase, liver (ec 2.4.1.11). [swissprot;acc:p54840]	1324	GYS2		159.993	156.421	1.02284
	1927		Low confidence	195.55	191.77	1.01971
glycogen [starch] synthase, muscle (ec 2.4.1.11). [swissprot;acc:p13807]	1319	GYS1	High confidence	159.75	156.153	1.02304
	1938		Low confidence	195.505	191.729	1.01969
glycogenin-1 (ec 2.4.1.186). [swissprot;acc:p46976]	520	GYG1		200.014	193.745	1.03236
	2562		High confidence	208.429	208.779	1.00168
glycogenin-2 (ec 2.4.1.186) (gn-2) (gn2). [swissprot;acc:o15488]	560	GYG2	Low confidence	199.227	193.173	1.03134
	2565		High confidence	208.429	208.779	1.00168
glycyl-trna synthetase (ec 6.1.1.14) (glycine--trna ligase) (glyrs). [swissprot;acc:p41250]	715	GARS	Low confidence	203.107	197.646	1.02763
	1472		High confidence	221.412	217.199	1.0194
glycylpeptide n-tetradecanoyltransferase 1 (ec 2.3.1.97) (peptide n- myristoyltransferase 1) (myristoyl-coa:protein n-myristoyltransferase 1) (nmt 1) (type i n-myristoyltransferase). [swissprot;acc:p30419]	1634	NMT1	Low confidence	200.654	196.575	1.02075
glycylpeptide n-tetradecanoyltransferase 2 (ec 2.3.1.97) (peptide n- myristoyltransferase 2) (myristoyl-coa:protein n-myristoyltransferase 2) (nmt 2) (type ii n-myristoyltransferase). [swissprot;acc:o60551]	1691	NMT2		200.606	196.56	1.02058
glyoxylate reductase/hydroxypyruvate reductase. [refseq;acc:nm_012203]	2222	GRHPR		197.516	193.843	1.01895
glypican-3 precursor (intestinal protein oci-5) (gtr2-2) (mxr7). [swissprot;acc:p51654]	4528	GPC3		203.083	201.424	1.00824
glypican-5 precursor. [swissprot;acc:p78333]	4526	GPC5
gmp synthase [glutamine-hydrolyzing] (ec 6.3.5.2) (glutamine amidotransferase) (gmp synthetase). [swissprot;acc:p49915]	1694	GMPS	High confidence	218.937	215.971	1.01373
	2384		Low confidence	200.978	197.324	1.01852
golgi apparatus protein 1 precursor (golgi sialoglycoprotein mg-160) (e-selectin ligand 1) (esl-1) (cysteine-rich fibroblast growth factor receptor) (cfr-1). [swissprot;acc:q92896]	3444	GLG1		201.288	198.276	1.01519
golgi complex associated protein 1; golgi resident protein gcp60; peripherial benzodiazepine receptor associated protein; golgi phosphoprotein 1; pbr associated protein; pka (rialpha)-associated protein. [refseq;acc:nm_022735]	1177	ACBD3	High confidence	218.186	212.672	1.02593
	2540		Low confidence	206.444	202.775	1.01809
golgi membrane protein sb140; smooth muscle cell associated protein 5. [refseq;acc:nm_030799]	1960	YIPF5	High confidence	211.633	213.703	1.00978
	4236		Low confidence	198.796	196.864	1.00981
golgi phosphoprotein 3; golgi protein; golgi peripheral membrane protein 1, 34 kda; golgi-associated protein; coat-protein. [refseq;acc:nm_022130]	4575	GOLPH3		198.264	199.779	1.00764
golgi reassembly stacking protein 1; golgi peripheral membrane protein p65; golgi reassembly and stacking protein, 65 kda; golgi phosphoprotein 5. [refseq;acc:nm_031899]	1494	GORASP1		200.547	196.34	1.02143
golgi reassembly stacking protein 2; golgi reassembly stacking protein 2, 55 kda. [refseq;acc:nm_015530]	1835	GORASP2	High confidence	194.573	192.396	1.01132
	2598		Low confidence	198.598	195.1	1.01793
golgi-associated microtubule-binding protein hook3; hook3 protein. [refseq;acc:nm_032410]	2071	HOOK3		199.443	195.665	1.01931
golgi-specific brefeldin a-resistance guanine nucleotide exchange factor 1 (bfa-resistant gef 1). [swissprot;acc:q92538]	3058	GBF1		200.669	197.397	1.01658
gonadotropin inducible transcription repressor-1 (giot-1). [swissprot;acc:q8taf7]	4291	no value		197.793	195.963	1.00934
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]	129	COL4A3BP		220.969	235.572	1.06609
	1994		High confidence	189.011	190.787	1.0094
gp25l2 protein. [refseq;acc:nm_017510]	4468	TMED9	Low confidence	196.584	198.355	1.00901
gpi transamidase component pig-s (phosphatidylinositol-glycan biosynthesis, class s protein). [swissprot;acc:q96s52]	3165	PIGS	High confidence	0.00001	0.00001	1
	4767		Low confidence	198.971	197.998	1.00491
gpi-anchor transamidase (ec 3.-.-.-) (gpi transamidase) (phosphatidylinositol-glycan biosynthesis, class k protein) (pig-k) (hgpi8). [swissprot;acc:q92643]	3125	PIGK		200.082	196.855	1.01639
gpi-gamma 4; likely ortholog of mouse gpi-gamma 4. [refseq;acc:nm_152545]	1456	RASGEF1B		203.119	198.826	1.02159

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.