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

Results: HTML CSV LaTeX

Showing element 113 to 162 of 3228 in total

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

Rank	description	red	network_comparison	green	
113	kh domain containing, rna binding, signal transduction associated 3; sam68-like phosphotyrosine protein, t-star. [source:refseq;acc:nm_006558]	332.874	1.24557	267.246	
114	kh domain containing, rna binding, signal transduction associated 1; gap-associated tyrosine phosphoprotein p62 (sam68). [source:refseq;acc:nm_006559]	332.874	1.24557	267.246	
115	kh domain-containing, rna-binding, signal transduction-associated protein 2; sam68-like mammalian protein 1. [source:refseq;acc:nm_152688]	332.874	1.24557	267.246	
116	guanine nucleotide-binding protein g(i)/g(s)/g(t) beta subunit 3 (transducin beta chain 3). [source:swissprot;acc:p16520]	268.565	1.24545	334.483	
117	neuralized-like. [source:refseq;acc:nm_004210]	332.326	1.24491	266.948	
118	nadh-ubiquinone oxidoreductase subunit b17.2 (ec 1.6.5.3) (ec 1.6.99.3) (complex i-b17.2) (ci-b17.2) (cib17.2) (13 kda differentiation-associated protein). [source:swissprot;acc:q9ui09]	284.753	1.24382	228.934	
119	nadh-ubiquinone oxidoreductase 18 kda subunit, mitochondrial precursor (ec 1.6.5.3) (ec 1.6.99.3) (complex i-18 kda) (ci-18 kda) (complex i- aqdq) (ci-aqdq). [source:swissprot;acc:o43181]	318.982	1.23157	259.004	
120	potassium voltage-gated channel, shal-related subfamily, member 2; voltage-sensitive potassium channel; voltage-gated potassium channel kv4.2. [source:refseq;acc:nm_012281]	269.278	1.21699	327.709	
121	cystathionine gamma-lyase (ec 4.4.1.1) (gamma-cystathionase). [source:swissprot;acc:p32929]	269.254	1.2169	327.655	
122	potassium voltage-gated channel, shal-related subfamily, member 3 isoform 1; sha1-related potassium channel kv4.3; voltage-gated k+ channel; potassium ionic channel kv4.3; voltage-gated potassium channel kv4.3. [source:refseq;acc:nm_004980]	269.248	1.21688	327.642	
123	potassium voltage-gated channel, shal-related subfamily, member 1; shal-type potassium channel; voltage-gated potassium channel kv4.1. [source:refseq;acc:nm_004979]	269.23	1.21681	327.601	
124	high-mobility group 20b; sox-like transcriptional factor; swi/snf-related matrix-associated actin-dependent regulator of chromatin subfamily e, member 1-related. [source:refseq;acc:nm_006339]	208.52	1.21519	171.595	
125	high-mobility group 20a. [source:refseq;acc:nm_018200]	208.588	1.21429	171.778	
126	associated molecule with the sh3 domain of stam (amsh) like protein. [source:refseq;acc:nm_020799]	94	1.21277	114	
127	putative breast adenocarcinoma marker (32kd). [source:refseq;acc:nm_014453]	94	1.21277	114	
128	associated molecule with the sh3 domain of stam. [source:refseq;acc:nm_006463]	94	1.21277	114	
129	neuroendocrine differentiation factor; comparative gene identification transcript 149. [source:refseq;acc:nm_016079]	94	1.21277	114	
130	protein hspc134 (protein cda04). [source:swissprot;acc:q9by43]	94	1.21277	114	
131	son protein (son3) (negative regulatory element-binding protein) (nre- binding protein) (dbp-5) (bax antagonist selected in saccharomyces 1) (bass1) (protein c21orf50). [source:swissprot;acc:p18583]	294.053	1.21228	242.562	
132	tob2 protein (transducer of erbb-2 2). [source:swissprot;acc:q14106]	350	1.2069	290	
133	tob1 protein (transducer of erbb-2 1). [source:swissprot;acc:p50616]	350	1.2069	290	
134	dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [source:refseq;acc:nm_032552]	350	1.2069	290	
135	cytoplasmic polyadenylation element binding protein 4. [source:refseq;acc:nm_030627]	350	1.2069	290	
136	cytoplasmic polyadenylation element binding protein 3. [source:refseq;acc:nm_014912]	350	1.2069	290	
137	ras gtpase-activating protein ngap (ras protein activator like 1). [source:swissprot;acc:q9ujf2]	350	1.2069	290	
138	serine/threonine protein phosphatase 2a, catalytic subunit, alpha isoform (ec 3.1.3.16) (pp2a-alpha) (replication protein c) (rp-c). [source:swissprot;acc:p05323]	194.372	1.20493	234.204	
139	amyloid beta a4 precursor protein-binding family a member 1 (neuron- specific x11 protein) (neuronal munc18-1-interacting protein 1) (mint-1) (adapter protein x11alpha). [source:swissprot;acc:q02410]	271.752	1.20415	225.68	
140	ras-related gtp binding a; ras-related gtp-binding protein. [source:refseq;acc:nm_006570]	59	1.20408	49	
141	ras-related gtp binding c; rag c protein. [source:refseq;acc:nm_022157]	59	1.20408	49	
142	ras-related gtp binding b short isoform; gtp-binding protein ragb. [source:refseq;acc:nm_006064]	59	1.20408	49	
143	anillin, actin binding protein (scraps homolog, drosophila); anillin (drosophila scraps homolog), actin binding protein. [source:refseq;acc:nm_018685]	59	1.20408	49	
144	kv channel interacting protein 1; vesicle apc-binding protein; a-type potassium channel modulatory protein 1. [source:refseq;acc:nm_014592]	265.686	1.20312	319.651	
145	potassium channel-interacting protein 4 isoform 4; calsenilin-like protein. [source:refseq;acc:nm_147183]	265.639	1.20293	319.546	
146	kv channel interacting protein 2 isoform 4; a-type potassium channel modulatory protein 2; cardiac voltage gated potassium channel modulatory subunit. [source:refseq;acc:nm_173193]	265.632	1.20291	319.531	
147	nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [source:refseq;acc:nm_006333]	50.7983	1.2009	42.3003	
148	sad1/unc-84 protein-like 1. [source:swissprot;acc:o94901]	296.677	1.19841	247.559	
149	atlastin; guanylate-binding protein 3. [source:refseq;acc:nm_015915]	142	1.19718	170	
150	myosin vb (myosin 5b) (fragment). [source:swissprot;acc:q9ulv0]	55	1.19565	46	
151	myosin vc (myosin 5c). [source:swissprot;acc:q9nqx4]	55	1.19565	46	
152	myosin va (myosin 5a) (dilute myosin heavy chain, non-muscle) (myosin heavy chain 12) (myoxin). [source:swissprot;acc:q9y4i1]	55	1.19565	46	
153	chromosome 3p21.1 gene sequence. [source:refseq;acc:nm_013286]	249.663	1.19466	298.263	
154	regulator of g-protein signaling 19 (rgs19) (g-alpha interacting protein) (gaip protein). [source:swissprot;acc:p49795]	249.663	1.19466	298.263	
155	putative rna-binding protein 15 (rna binding motif protein 15) (one-twenty two protein). [source:swissprot;acc:q96t37]	249.663	1.19466	298.263	
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]	249.663	1.19466	298.263	
157	transcription factor lbx1. [source:swissprot;acc:p52954]	249.663	1.19466	298.263	
158	mosaic protein lgn. [source:swissprot;acc:p81274]	249.663	1.19466	298.263	
159	regulator of g-protein signaling 17 (rgs17). [source:swissprot;acc:q9ugc6]	249.663	1.19466	298.263	
160	guanine nucleotide-binding protein g(o), alpha subunit 1. [source:swissprot;acc:p09471]	249.663	1.19466	298.263	
161	rap1 gtpase-activating protein 1 (rap1gap). [source:swissprot;acc:p47736]	249.663	1.19466	298.263	
162	nostrin. [source:refseq;acc:nm_052946]	209.299	1.19058	249.187	

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/