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 - Divided Values

Type II network, divided values. Interestingly most of the proteins in the first 100 positions in this table would occur in the divided ranks table between position 100 and 200, indicating a difference in emphasis between the two simulations but not in the overall function. The fully annotated table, include Ensembl gene identifiers and network values can be found in the supplementary data.


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 [...,...].
Rank Gene description Value Type Network Comparison Type Interaction Map Filtered green red network_comparison
Results: HTML CSV LaTeX Showing element 312 to 361 of 3730 in total 
Value Type	Ranked
Network Comparison Type	Divided
Interaction Map	High confidence

Rank	description	Filtered	green	red	network_comparison	
156	tubby protein homolog. [source:swissprot;acc:p50607]	0	10641.7	12303.7	1.15618	
157	transcription factor lbx1. [source:swissprot;acc:p52954]	1	298.263	249.663	1.19466	
157	transcription initiation factor iie, beta subunit (tfiie-beta). [source:swissprot;acc:p29084]	0	15652	18079	1.15506	
158	mosaic protein lgn. [source:swissprot;acc:p81274]	1	298.263	249.663	1.19466	
158	putative nucleoside diphosphate kinase (ec 2.7.4.6) (ndk) (ndp kinase). [source:swissprot;acc:o60361]	0	11616.4	10060.2	1.15469	
159	cysteine endopeptidase aut-like isoform b. [source:refseq;acc:nm_178326]	0	6706.32	5813.32	1.15361	
159	regulator of g-protein signaling 17 (rgs17). [source:swissprot;acc:q9ugc6]	1	298.263	249.663	1.19466	
160	ccr4-not transcription complex, subunit 7 (ccr4-associated factor 1) (caf1) (btg1 binding factor 1). [source:swissprot;acc:q9uiv1]	0	13530.6	11732	1.15331	
160	guanine nucleotide-binding protein g(o), alpha subunit 1. [source:swissprot;acc:p09471]	1	298.263	249.663	1.19466	
161	cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [source:refseq;acc:nm_052936]	0	6660.63	5781.93	1.15197	
161	rap1 gtpase-activating protein 1 (rap1gap). [source:swissprot;acc:p47736]	1	298.263	249.663	1.19466	
162	nostrin. [source:refseq;acc:nm_052946]	1	249.187	209.299	1.19058	
162	putative eukaryotic translation initiation factor 1a (eif-1a) (eif- 4c). [source:swissprot;acc:o75642]	0	10680.5	12301.4	1.15176	
163	eap30 subunit of ell complex. [source:refseq;acc:nm_007241]	1	249.187	209.299	1.19058	
163	transcription factor cp2; transcription factor cp2, alpha globin. [source:refseq;acc:nm_005653]	0	9668.79	8409.21	1.14979	
164	dihydrofolate reductase (ec 1.5.1.3). [source:swissprot;acc:p00374]	0	10412.4	11971.7	1.14975	
164	liv-1 protein, estrogen regulated. [source:refseq;acc:nm_012319]	1	249.187	209.299	1.19058	
165	glutamate decarboxylase, 65 kda isoform (ec 4.1.1.15) (gad-65) (65 kda glutamic acid decarboxylase). [source:swissprot;acc:q05329]	1	249.187	209.299	1.19058	
165	ribose-phosphate pyrophosphokinase iii (ec 2.7.6.1) (phosphoribosyl pyrophosphate synthetase iii) (prs-iii). [source:swissprot;acc:p21108]	0	15183.2	13255.4	1.14544	
166	gamma-soluble nsf attachment protein (snap-gamma) (n-ethylmaleimide- sensitive factor attachment protein, gamma). [source:swissprot;acc:q99747]	1	249.187	209.299	1.19058	
166	my016 protein. [source:sptrembl;acc:q9h3k6]	0	6366.91	5561.19	1.14488	
167	glutamate decarboxylase, 67 kda isoform (ec 4.1.1.15) (gad-67) (67 kda glutamic acid decarboxylase). [source:swissprot;acc:q99259]	1	249.187	209.299	1.19058	
167	signal recognition particle 9 kda protein (srp9). [source:swissprot;acc:p49458]	0	13890.3	12157.6	1.14252	
168	fos-related antigen 2. [source:swissprot;acc:p15408]	0	6217.28	7091.75	1.14065	
168	gaba-a receptor-associated protein. [source:sptrembl;acc:q9by60]	1	98.0548	82.5916	1.18722	
169	alanine aminotransferase (ec 2.6.1.2) (glutamic--pyruvic transaminase) (gpt) (glutamic--alanine transaminase). [source:swissprot;acc:p24298]	0	11256.8	9875.43	1.13988	
169	apg3p; pc3-96 protein. [source:refseq;acc:nm_022488]	1	98.0548	82.5916	1.18722	
170	low affinity immunoglobulin epsilon fc receptor (lymphocyte ige receptor) (fc-epsilon-rii) (cd23) (blast-2) (immunoglobulin e-binding factor). [source:swissprot;acc:p06734]	0	12941	11364	1.13877	
170	nucleolysin tia-1 (rna-binding protein tia-1) (p40-tia-1) [contains: p15-tia-1]. [source:swissprot;acc:p31483]	1	192.715	227.199	1.17894	
171	lamin b2. [source:swissprot;acc:q03252]	0	13802	12135.4	1.13733	
171	nucleolysin tiar (tia-1 related protein). [source:swissprot;acc:q01085]	1	192.823	227.202	1.17829	
172	cg9578-like; yeast ypr037w and worm c02c2.6 predicted proteins-like. [source:refseq;acc:nm_152902]	1	205.556	174.667	1.17685	
172	zinc finger protein slug (neural crest transcription factor slug) (snail homolog 2). [source:swissprot;acc:o43623]	0	13893.1	12225.7	1.13638	
173	small nuclear ribonucleoprotein sm d1 (snrnp core protein d1) (sm-d1) (sm-d autoantigen). [source:swissprot;acc:p13641]	1	193.056	227.032	1.17599	
173	suppressor of actin 1. [source:refseq;acc:nm_014016]	0	16804.6	19088.1	1.13589	
174	dgcr14 protein (digeorge syndrome critical region 14) (es2 protein). [source:swissprot;acc:q96df8]	1	286	335	1.17133	
174	ribulose-5-phosphate-3-epimerase; ribulose 5-phosphate 3-epimerase. [source:refseq;acc:nm_006916]	0	11666.4	13248.5	1.13561	
175	cop9 constitutive photomorphogenic homolog subunit 3; cop9 complex subunit 3; jab1-containing signalosome subunit 3. [source:refseq;acc:nm_003653]	1	234.187	199.949	1.17123	
175	thiamin pyrophosphokinase 1; mouse thiamin pyrophosphokinase homolog; thiamine pyrophosphokinase. [source:refseq;acc:nm_022445]	0	11666.4	13248.5	1.13561	
176	dead-box protein abstrakt homolog. [source:swissprot;acc:q9ujv9]	0	11528	13068	1.13359	
176	dna polymerase epsilon p12 subunit (dna polymerase epsilon subunit 4). [source:swissprot;acc:q9nr33]	1	235.908	275.754	1.1689	
177	dj820b18.1 (similar to nuclear cap binding protein) (fragment). [source:sptrembl;acc:q8wwk2]	1	196.695	229.406	1.1663	
177	potassium voltage-gated channel, shal-related subfamily, member 2; voltage-sensitive potassium channel; voltage-gated potassium channel kv4.2. [source:refseq;acc:nm_012281]	0	13174.5	14922.7	1.1327	
178	formin binding protein 3; fas-ligand associated factor 1; huntingtin-interacting protein a; ny-ren-6 antigen. [source:refseq;acc:nm_017892]	1	194.72	226.887	1.1652	
178	integral membrane protein cii-3b. [source:sptrembl;acc:o75609]	0	13204.2	14951.6	1.13234	
179	huntingtin-interacting protein hypa/fbp11 (fragment). [source:sptrembl;acc:o75404]	1	194.79	226.884	1.16476	
179	mevalonate kinase (ec 2.7.1.36) (mk). [source:swissprot;acc:q03426]	0	10723.7	9473.01	1.13203	
180	rna-binding protein nova-1 (neuro-oncological ventral antigen 1) (onconeural ventral antigen-1) (paraneoplastic ri antigen) (ventral neuron-specific protein 1). [source:swissprot;acc:p51513]	0	9516.92	8407.67	1.13193	
180	tar dna-binding protein-43 (tdp-43). [source:swissprot;acc:q13148]	1	298.438	256.228	1.16474	
181	b9 protein; likely ortholog of mouse endothelial precursor protein b9. [source:refseq;acc:nm_015681]	1	267.265	229.818	1.16294	

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/