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

Results: HTML CSV LaTeX

Showing element 75 to 124 of 16578 in total

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

description	Rank	Hugo	Interaction Map	red	green	network_comparison
26s proteasome non-atpase regulatory subunit 3 (26s proteasome regulatory subunit s3) (proteasome subunit p58). [swissprot;acc:o43242]	2613	PSMD3	Low confidence	200.463	196.947	1.01785
26s proteasome non-atpase regulatory subunit 4 (26s proteasome regulatory subunit s5a) (rpn10) (multiubiquitin chain binding protein) (antisecretory factor-1) (af) (asf). [swissprot;acc:p55036]	1432	PSMD4	High confidence	220.987	225.468	1.02028
	2995		Low confidence	199.67	196.383	1.01674
26s proteasome non-atpase regulatory subunit 6 (26s proteasome regulatory subunit s10) (p42a) (proteasome regulatory particle subunit p44s10). [swissprot;acc:q15008]	1832	PSMD6		200.092	196.175	1.01997
	2432		High confidence	215.807	216.556	1.00347
26s proteasome non-atpase regulatory subunit 7 (26s proteasome regulatory subunit s12) (proteasome subunit p40) (mov34 protein homolog). [swissprot;acc:p51665]	2355	PSMD7		217.232	218.162	1.00428
	3198		Low confidence	200.29	197.129	1.01604
26s proteasome non-atpase regulatory subunit 8 (26s proteasome regulatory subunit s14) (p31). [swissprot;acc:p48556]	1798	PSMD8		200.037	196.088	1.02014
	2525		High confidence	215.835	216.341	1.00234
26s proteasome non-atpase regulatory subunit 9 (26s proteasome regulatory subunit p27). [swissprot;acc:o00233]	2077	PSMD9	Low confidence	200.371	196.58	1.01928
	2620		High confidence	215.615	215.91	1.00137
26s proteasome-associated pad1 homolog. [refseq;acc:nm_005805]	2150	PSMD14		217.871	219.366	1.00686
	2964		Low confidence	200.589	197.26	1.01688
27 kda golgi snare protein (golgi snap receptor complex member 2) (membrin). [swissprot;acc:o14653]	70	GOSR2		259.517	235.017	1.10425
	810		High confidence	212.386	221.785	1.04425
28s ribosomal protein s12, mitochondrial precursor (mpr-s12) (mt- rps12). [swissprot;acc:o15235]	325	MRPS12		243.944	268.195	1.09941
	4510		Low confidence	208.988	210.759	1.00847
28s ribosomal protein s16, mitochondrial precursor (mrp-s16) (cgi- 132). [swissprot;acc:q9y3d3]	729	MRPS16		205.65	200.165	1.0274
	2212		High confidence	224.411	225.854	1.00643
28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5]	9	MRPS17	Low confidence	58	44	1.31818
	23		High confidence
28s ribosomal protein s18a, mitochondrial precursor (mrp-s18-a) (mrps18a) (mrp-s18-3). [swissprot;acc:q9nvs2]	1659	MRPS18A		217.925	214.826	1.01443
	2664		Low confidence	201.194	197.699	1.01768
28s ribosomal protein s18b, mitochondrial precursor (mrp-s18-b) (mrps18b) (mrp-s18-2) (ptd017 protein) (hspc183). [swissprot;acc:q9y676]	3958	MRPS18B		201.908	204.37	1.01219
28s ribosomal protein s18c, mitochondrial precursor (mrp-s18-c) (mrps18c) (mrp-s18-1) (cgi-134). [swissprot;acc:q9y3d5]	3329	MRPS18C		200.825	197.742	1.01559
28s ribosomal protein s26, mitochondrial precursor (mrp-s26) (mrp- s13). [swissprot;acc:q9byn8]	730	MRPS26		206.555	201.05	1.02738
	2675		High confidence	214.893	215.108	1.001
28s ribosomal protein s9, mitochondrial precursor (mrp-s9). [swissprot;acc:p82933]	407	MRPS9		239.75	260.544	1.08673
	4992		Low confidence	206.266	206.342	1.00037
3 beta-hydroxy-delta 5-c27-steroid oxidoreductase. [refseq;acc:nm_025193]	1667	HSD3B7		197.872	193.866	1.02066
	3147		High confidence	0.00001	0.00001	1
3 beta-hydroxysteroid dehydrogenase (fragments). [sptrembl;acc:q9udk8]	1663	no value	Low confidence	197.872	193.866	1.02066
	2756		High confidence	0.00001	0.00001	1
3 beta-hydroxysteroid dehydrogenase/delta 5-->4-isomerase type i (3beta-hsd i) (trophoblast antigen fdo161g) [includes: 3-beta-hydroxy- delta(5)-steroid dehydrogenase (ec 1.1.1.145) (3-beta-hydroxy-5-ene steroid dehydrogenase) (progesterone reductase); steroid delta- isomerase (ec 5.3.3.1) (delta-5-3-ketosteroid isomerase)]. [swissprot;acc:p14060]	1665		Low confidence	197.872	193.866	1.02066
	2802		High confidence	0.00001	0.00001	1
3'(2'), 5'-bisphosphate nucleotidase 1; bisphosphate 3'-nucleotidase; bpntase; pap-inositol-1,4-phosphatase. [refseq;acc:nm_006085]	178	BPNT1	Low confidence	209.954	221.607	1.0555
3'-5' rna exonuclease; polynucleotide phosphorylase-like. [refseq;acc:nm_033109]	1373	PNPT1		206.13	201.696	1.02198
3-hydroxy-3-methylglutaryl-coenzyme a reductase (ec 1.1.1.34) (hmg-coa reductase). [swissprot;acc:p04035]	2303	HMGCR	High confidence	191.567	192.542	1.00509
	3261		Low confidence	199.744	196.642	1.01577
3-hydroxyacyl-coa dehydrogenase type ii (ec 1.1.1.35) (type ii hadh) (endoplasmic reticulum-associated amyloid beta-peptide binding protein) (short-chain type dehydrogenase/reductase xh98g2). [swissprot;acc:q99714]	3180	HSD17B10	High confidence	0.00001	0.00001	1
	4091		Low confidence	202.282	200.093	1.01094
3-hydroxyanthranilate 3,4-dioxygenase (ec 1.13.11.6) (3-hao) (3-hydroxyanthranilic acid dioxygenase) (3-hydroxyanthranilate oxygenase). [swissprot;acc:p46952]	1250	HAAO		180.665	176.667	1.02263
	2189		High confidence	209.54	208.162	1.00662
3-hydroxyisobutyryl-coenzyme a hydrolase. [refseq;acc:nm_014362]	879	no value	Low confidence	203.354	198.284	1.02557
	1852		High confidence	196.008	198.154	1.01095
3-ketoacyl-coa thiolase, peroxisomal precursor (ec 2.3.1.16) (beta- ketothiolase) (acetyl-coa acyltransferase) (peroxisomal 3-oxoacyl- coa thiolase). [swissprot;acc:p09110]	2300	ACAA1		191.563	192.541	1.00511
	2649		Low confidence	195.904	192.486	1.01776
3-mercaptopyruvate sulfurtransferase (ec 2.8.1.2) (mst). [swissprot;acc:p25325]	1025	MPST	High confidence	205.632	199.266	1.03195
	2252		Low confidence	196.562	192.92	1.01888
3-oxo-5-alpha-steroid 4-dehydrogenase 1 (ec 1.3.99.5) (steroid 5-alpha-reductase 1) (sr type 1) (s5ar). [swissprot;acc:p18405]	949	SRD5A1		204.147	199.196	1.02485

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.