Scientific

MK5 Microarray Data

Affected Genes - Ontology Breakdown - Gene Enrichment - Proteome Analysis

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.

MK5 Proteome Analysis

Table 3: Type II network, divided ranks. This table presents the output of the simulation of a type-II network in which we relied on the high confidence interactions and micro-array results. The output of the micro-array was then ranked and these ranks used as input into the network simulation. After performing two such simulations (one for the MK5 off and one for the MK5 on microarray output), we divided the ranks and sorted the results accordingly. The output of this technique is a collection of proteins that cluster naturally together.

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

Results: HTML CSV LaTeX

Showing element 150 to 199 of 3228 in total

Network Comparison Type	Divided
Value Type	Ranked
Filtered	1
Interaction Map	High confidence

Rank	description	network_comparison	green	red	
150	myosin vb (myosin 5b) (fragment). [source:swissprot;acc:q9ulv0]	1.19565	46	55	
151	myosin vc (myosin 5c). [source:swissprot;acc:q9nqx4]	1.19565	46	55	
152	myosin va (myosin 5a) (dilute myosin heavy chain, non-muscle) (myosin heavy chain 12) (myoxin). [source:swissprot;acc:q9y4i1]	1.19565	46	55	
153	chromosome 3p21.1 gene sequence. [source:refseq;acc:nm_013286]	1.19466	298.263	249.663	
154	regulator of g-protein signaling 19 (rgs19) (g-alpha interacting protein) (gaip protein). [source:swissprot;acc:p49795]	1.19466	298.263	249.663	
155	putative rna-binding protein 15 (rna binding motif protein 15) (one-twenty two protein). [source:swissprot;acc:q96t37]	1.19466	298.263	249.663	
156	regulator of g-protein signaling 20 (rgs20) (regulator of gz- selective protein signaling 1) (gz-selective gtpase-activating protein) (g(z)gap). [source:swissprot;acc:o76081]	1.19466	298.263	249.663	
157	transcription factor lbx1. [source:swissprot;acc:p52954]	1.19466	298.263	249.663	
158	mosaic protein lgn. [source:swissprot;acc:p81274]	1.19466	298.263	249.663	
159	regulator of g-protein signaling 17 (rgs17). [source:swissprot;acc:q9ugc6]	1.19466	298.263	249.663	
160	guanine nucleotide-binding protein g(o), alpha subunit 1. [source:swissprot;acc:p09471]	1.19466	298.263	249.663	
161	rap1 gtpase-activating protein 1 (rap1gap). [source:swissprot;acc:p47736]	1.19466	298.263	249.663	
162	nostrin. [source:refseq;acc:nm_052946]	1.19058	249.187	209.299	
163	eap30 subunit of ell complex. [source:refseq;acc:nm_007241]	1.19058	249.187	209.299	
164	liv-1 protein, estrogen regulated. [source:refseq;acc:nm_012319]	1.19058	249.187	209.299	
165	glutamate decarboxylase, 65 kda isoform (ec 4.1.1.15) (gad-65) (65 kda glutamic acid decarboxylase). [source:swissprot;acc:q05329]	1.19058	249.187	209.299	
166	gamma-soluble nsf attachment protein (snap-gamma) (n-ethylmaleimide- sensitive factor attachment protein, gamma). [source:swissprot;acc:q99747]	1.19058	249.187	209.299	
167	glutamate decarboxylase, 67 kda isoform (ec 4.1.1.15) (gad-67) (67 kda glutamic acid decarboxylase). [source:swissprot;acc:q99259]	1.19058	249.187	209.299	
168	gaba-a receptor-associated protein. [source:sptrembl;acc:q9by60]	1.18722	98.0548	82.5916	
169	apg3p; pc3-96 protein. [source:refseq;acc:nm_022488]	1.18722	98.0548	82.5916	
170	nucleolysin tia-1 (rna-binding protein tia-1) (p40-tia-1) [contains: p15-tia-1]. [source:swissprot;acc:p31483]	1.17894	192.715	227.199	
171	nucleolysin tiar (tia-1 related protein). [source:swissprot;acc:q01085]	1.17829	192.823	227.202	
172	cg9578-like; yeast ypr037w and worm c02c2.6 predicted proteins-like. [source:refseq;acc:nm_152902]	1.17685	205.556	174.667	
173	small nuclear ribonucleoprotein sm d1 (snrnp core protein d1) (sm-d1) (sm-d autoantigen). [source:swissprot;acc:p13641]	1.17599	193.056	227.032	
174	dgcr14 protein (digeorge syndrome critical region 14) (es2 protein). [source:swissprot;acc:q96df8]	1.17133	286	335	
175	cop9 constitutive photomorphogenic homolog subunit 3; cop9 complex subunit 3; jab1-containing signalosome subunit 3. [source:refseq;acc:nm_003653]	1.17123	234.187	199.949	
176	dna polymerase epsilon p12 subunit (dna polymerase epsilon subunit 4). [source:swissprot;acc:q9nr33]	1.1689	235.908	275.754	
177	dj820b18.1 (similar to nuclear cap binding protein) (fragment). [source:sptrembl;acc:q8wwk2]	1.1663	196.695	229.406	
178	formin binding protein 3; fas-ligand associated factor 1; huntingtin-interacting protein a; ny-ren-6 antigen. [source:refseq;acc:nm_017892]	1.1652	194.72	226.887	
179	huntingtin-interacting protein hypa/fbp11 (fragment). [source:sptrembl;acc:o75404]	1.16476	194.79	226.884	
180	tar dna-binding protein-43 (tdp-43). [source:swissprot;acc:q13148]	1.16474	298.438	256.228	
181	b9 protein; likely ortholog of mouse endothelial precursor protein b9. [source:refseq;acc:nm_015681]	1.16294	267.265	229.818	
182	histone acetyltransferase type b catalytic subunit (ec 2.3.1.48). [source:swissprot;acc:o14929]	1.15422	240.461	277.546	
183	20 kda nuclear cap binding protein (ncbp 20 kda subunit) (cbp20) (ncbp interacting protein 1) (nip1). [source:swissprot;acc:p52298]	1.153	198.011	228.306	
184	odd-skipped related 1; odz (odd oz/ten-m) related 1. [source:refseq;acc:nm_145260]	1.15239	237.79	274.027	
185	adiponectin receptor 2. [source:refseq;acc:nm_024551]	1.14292	246.371	281.582	
186	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. [source:refseq;acc:nm_001457]	1.14179	198.444	226.582	
187	rev1-like; rev1 protein; rev1 (yeast homolog)- like. [source:refseq;acc:nm_016316]	1.14179	198.444	226.582	
188	protein arginine n-methyltransferase 1 (ec 2.1.1.-) (interferon receptor 1-bound protein 4). [source:swissprot;acc:q99873]	1.14179	198.444	226.582	
189	protein arginine n-methyltransferase 4 (ec 2.1.1.-). [source:swissprot;acc:q9nr22]	1.14179	198.444	226.582	
190	u1 small nuclear ribonucleoprotein 70 kda (u1 snrnp 70 kda) (snrnp70) (u1-70k). [source:swissprot;acc:p08621]	1.14179	198.444	226.582	
191	filamin a (alpha-filamin) (filamin 1) (endothelial actin-binding protein) (abp-280) (nonmuscle filamin). [source:swissprot;acc:p21333]	1.14179	198.444	226.582	
192	musashi 2 isoform a. [source:refseq;acc:nm_138962]	1.14055	199.458	227.491	
193	musashi 1. [source:refseq;acc:nm_002442]	1.14055	199.458	227.491	
194	nuclear protein ukp68. [source:refseq;acc:nm_024824]	1.14055	199.458	227.491	
195	huntingtin interacting protein c. [source:refseq;acc:nm_012272]	1.13748	200.417	227.971	
196	forkhead box p4; fork head-related protein like a; winged-helix repressor foxp4. [source:refseq;acc:nm_138457]	1.13745	231.407	263.215	
197	forkhead box protein p1 (hspc215). [source:swissprot;acc:q9h334]	1.13745	231.407	263.215	
198	forkhead box protein p3 (zinc finger protein jm2) (scurfin). [source:swissprot;acc:q9bzs1]	1.13741	231.394	263.191	
199	palmitoyl-protein thioesterase 2 precursor (ec 3.1.2.22) (palmitoyl- protein hydrolase 2) (ppt-2) (g14). [source:swissprot;acc:q9umr5]	1.13729	276.059	242.735	

Legend:
- Rank is the rank after comparing the two networks
- 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.

- http://analysis.yellowcouch.org/