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

Results: HTML CSV LaTeX

Showing element 5908 to 5957 of 8289 in total

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

description	Rank	Hugo	Interaction Map	red	green	network_comparison
receptor protein-tyrosine kinase erbb-3 precursor (ec 2.7.1.112) (c-erbb3) (tyrosine kinase-type cell surface receptor her3). [swissprot;acc:p21860]	752	ERBB3	Low confidence	211.36	205.793	1.02705
	2008		High confidence	225.019	222.969	1.00919
receptor protein-tyrosine kinase erbb-4 precursor (ec 2.7.1.112) (p180erbb4) (tyrosine kinase-type cell surface receptor her4). [swissprot;acc:q15303]	750	ERBB4	Low confidence	211.36	205.793	1.02705
	2004		High confidence	225.019	222.969	1.00919
recessive polycystic kidney disease protein tg737 homolog. [swissprot;acc:q13099]	3201	IFT88		0.00001	0.00001	1
	3957		Low confidence	201.209	198.779	1.01222
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]	1046	ACP1		201.208	196.467	1.02413
	2707		High confidence	215.096	215.232	1.00063
red protein (rer protein) (ik factor) (cytokine ik). [swissprot;acc:q13123]	3869	IK	Low confidence	202.263	199.686	1.01291
regucalcin gene promotor region related protein; rgpr-p117. [refseq;acc:nm_033127]	1972	SEC16B	High confidence	219.777	217.659	1.00973
	4095		Low confidence	202.131	199.959	1.01086
regulator of chromosome condensation (cell cycle regulatory protein). [swissprot;acc:p18754]	2094	RCC1		200.52	196.732	1.01925
	2277		High confidence	191.936	190.909	1.00538
regulator of g-protein signaling 12 (rgs12). [swissprot;acc:o14924]	43	RGS12	Low confidence	247.768	219.841	1.12703
regulator of g-protein signaling 17 (rgs17). [swissprot;acc:q9ugc6]	159	RGS17	High confidence	249.663	298.263	1.19466
	3650		Low confidence	204.296	207.167	1.01405
regulator of g-protein signaling 19 (rgs19) (g-alpha interacting protein) (gaip protein). [swissprot;acc:p49795]	154	RGS19	High confidence	249.663	298.263	1.19466
	3647		Low confidence	204.296	207.167	1.01405
regulator of g-protein signaling 20 (rgs20) (regulator of gz- selective protein signaling 1) (gz-selective gtpase-activating protein) (g(z)gap). [swissprot;acc:o76081]	156	RGS20	High confidence	249.663	298.263	1.19466
	3649		Low confidence	204.296	207.167	1.01405
regulator of nonsense transcripts 1 (nonsense mrna reducing factor 1) (norf1) (up-frameshift suppressor 1 homolog). [swissprot;acc:q92900]	814	UPF1		202.069	196.914	1.02618
regulatory factor x4 isoform b; transcription factor nyd-sp10. [refseq;acc:nm_002920]	3902	RFX4		203.988	201.442	1.01264
regulatory protein tsc-22 (tgfb stimulated clone 22 homolog). [swissprot;acc:q15714]	1677	TSC22D1		200.947	196.885	1.02063
	3114		High confidence	0.00001	0.00001	1
related to the n terminus of tre. [refseq;acc:nm_014688]	2907	USP6NL	Low confidence	202.663	199.268	1.01704
renin precursor, renal (ec 3.4.23.15) (angiotensinogenase). [swissprot;acc:p00797]	1745	REN		198.278	194.32	1.02037
replication protein a 32 kda subunit (rp-a) (rf-a) (replication factor-a protein 2). [swissprot;acc:p15927]	402	RPA2	High confidence	207.908	226.218	1.08807
	1924		Low confidence	202.093	198.187	1.01971
replication protein a 70 kda dna-binding subunit (rp-a) (rf-a) (replication factor-a protein 1) (single-stranded dna-binding protein). [swissprot;acc:p27694]	401	RPA1	High confidence	207.908	226.218	1.08807
	2375		Low confidence	201.46	197.791	1.01855
repressor of estrogen receptor activity; b-cell associated protein. [refseq;acc:nm_007273]	684	no value		199.669	194.204	1.02814
	1352		High confidence	211.513	206.941	1.02209
rest corepressor. [refseq;acc:nm_015156]	1976	RCOR1		214.611	212.546	1.00972
	2158		Low confidence	197.028	193.338	1.01909
ret finger protein 2 (leukemia associated protein 5) (b-cell chronic lymphocytic leukemia tumor suppressor leu5) (putative tumor suppressor rfp2) (tripartite motif protein 13). [swissprot;acc:o60858]	2098	no value	High confidence	177.515	178.831	1.00741
	2489		Low confidence	201.998	198.382	1.01823
reticulon 1 (neuroendocrine-specific protein). [swissprot;acc:q16799]	1461	RTN1	High confidence	207.019	211.077	1.0196
	3098		Low confidence	198.789	195.565	1.01649
reticulon 4 (neurite outgrowth inhibitor) (nogo protein) (foocen) (neuroendocrine-specific protein) (nsp) (neuroendocrine specific protein c homolog) (rtn-x) (reticulon 5) (my043 protein). [swissprot;acc:q9nqc3]	1453	RTN4	High confidence	207.038	211.13	1.01976
	3113		Low confidence	198.807	195.588	1.01646
reticulon 4 interacting protein 1; nogo-interacting mitochondrial protein. [refseq;acc:nm_032730]	4523	RTN4IP1		195.465	193.849	1.00834
reticulon protein 2 (neuroendocrine-specific protein-like 1) (nsp-like protein 1) (nspli). [swissprot;acc:o75298]	1466	RTN2	High confidence	207.022	211.073	1.01957
	3033		Low confidence	198.637	195.386	1.01664
reticulon protein 3 (neuroendocrine-specific protein-like 2) (nsp-like protein ii) (nsplii). [swissprot;acc:o95197]	1469	RTN3	High confidence	207.013	211.05	1.0195
	3066		Low confidence	198.737	195.499	1.01656
retinal pigment epithelium-specific protein 65kda; retinal pigment epithelium-specific protein (65kd); retinitis pigmentosa 20 (autosomal recessive). [refseq;acc:nm_000329]	2224	RPE65	High confidence	221.509	220.108	1.00637
	3075		Low confidence	203.19	199.882	1.01655
retinal rod rhodopsin-sensitive cgmp 3',5'-cyclic phosphodiesterase delta-subunit (ec 3.1.4.17) (gmp-pde delta) (p17 protein). [swissprot;acc:o43924]	2121	PDE6D		201.213	197.423	1.0192
retinal short chain dehydrogenase reductase. [refseq;acc:nm_138969]	2070	no value		200.105	196.315	1.01931
retinal short-chain dehydrogenase/reductase 3. [refseq;acc:nm_016246]	248	HSD17B14		162.755	155.476	1.04682

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.