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.


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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 red green network_comparison
Results: HTML CSV LaTeX Showing element 336 to 385 of 3730 in total 
Value Type	Ranked
Network Comparison Type	Divided
Interaction Map	High confidence

Rank	description	Filtered	red	green	network_comparison	
168	gaba-a receptor-associated protein. [source:sptrembl;acc:q9by60]	1	82.5916	98.0548	1.18722	
169	alanine aminotransferase (ec 2.6.1.2) (glutamic--pyruvic transaminase) (gpt) (glutamic--alanine transaminase). [source:swissprot;acc:p24298]	0	9875.43	11256.8	1.13988	
169	apg3p; pc3-96 protein. [source:refseq;acc:nm_022488]	1	82.5916	98.0548	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	11364	12941	1.13877	
170	nucleolysin tia-1 (rna-binding protein tia-1) (p40-tia-1) [contains: p15-tia-1]. [source:swissprot;acc:p31483]	1	227.199	192.715	1.17894	
171	lamin b2. [source:swissprot;acc:q03252]	0	12135.4	13802	1.13733	
171	nucleolysin tiar (tia-1 related protein). [source:swissprot;acc:q01085]	1	227.202	192.823	1.17829	
172	cg9578-like; yeast ypr037w and worm c02c2.6 predicted proteins-like. [source:refseq;acc:nm_152902]	1	174.667	205.556	1.17685	
172	zinc finger protein slug (neural crest transcription factor slug) (snail homolog 2). [source:swissprot;acc:o43623]	0	12225.7	13893.1	1.13638	
173	small nuclear ribonucleoprotein sm d1 (snrnp core protein d1) (sm-d1) (sm-d autoantigen). [source:swissprot;acc:p13641]	1	227.032	193.056	1.17599	
173	suppressor of actin 1. [source:refseq;acc:nm_014016]	0	19088.1	16804.6	1.13589	
174	dgcr14 protein (digeorge syndrome critical region 14) (es2 protein). [source:swissprot;acc:q96df8]	1	335	286	1.17133	
174	ribulose-5-phosphate-3-epimerase; ribulose 5-phosphate 3-epimerase. [source:refseq;acc:nm_006916]	0	13248.5	11666.4	1.13561	
175	cop9 constitutive photomorphogenic homolog subunit 3; cop9 complex subunit 3; jab1-containing signalosome subunit 3. [source:refseq;acc:nm_003653]	1	199.949	234.187	1.17123	
175	thiamin pyrophosphokinase 1; mouse thiamin pyrophosphokinase homolog; thiamine pyrophosphokinase. [source:refseq;acc:nm_022445]	0	13248.5	11666.4	1.13561	
176	dead-box protein abstrakt homolog. [source:swissprot;acc:q9ujv9]	0	13068	11528	1.13359	
176	dna polymerase epsilon p12 subunit (dna polymerase epsilon subunit 4). [source:swissprot;acc:q9nr33]	1	275.754	235.908	1.1689	
177	dj820b18.1 (similar to nuclear cap binding protein) (fragment). [source:sptrembl;acc:q8wwk2]	1	229.406	196.695	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	14922.7	13174.5	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	226.887	194.72	1.1652	
178	integral membrane protein cii-3b. [source:sptrembl;acc:o75609]	0	14951.6	13204.2	1.13234	
179	huntingtin-interacting protein hypa/fbp11 (fragment). [source:sptrembl;acc:o75404]	1	226.884	194.79	1.16476	
179	mevalonate kinase (ec 2.7.1.36) (mk). [source:swissprot;acc:q03426]	0	9473.01	10723.7	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	8407.67	9516.92	1.13193	
180	tar dna-binding protein-43 (tdp-43). [source:swissprot;acc:q13148]	1	256.228	298.438	1.16474	
181	b9 protein; likely ortholog of mouse endothelial precursor protein b9. [source:refseq;acc:nm_015681]	1	229.818	267.265	1.16294	
181	importin 7; ran-binding protein 7. [source:refseq;acc:nm_006391]	0	14864.7	16820.7	1.13159	
182	histone acetyltransferase type b catalytic subunit (ec 2.3.1.48). [source:swissprot;acc:o14929]	1	277.546	240.461	1.15422	
182	putative inorganic polyphosphate/atp-nad kinase (ec 2.7.1.23) (poly(p)/atp nad kinase). [source:swissprot;acc:o95544]	0	11573.8	10231.3	1.13121	
183	20 kda nuclear cap binding protein (ncbp 20 kda subunit) (cbp20) (ncbp interacting protein 1) (nip1). [source:swissprot;acc:p52298]	1	228.306	198.011	1.153	
183	ubiquitin activating enzyme e1-like protein. [source:refseq;acc:nm_006395]	0	11613	13133.5	1.13093	
184	odd-skipped related 1; odz (odd oz/ten-m) related 1. [source:refseq;acc:nm_145260]	1	274.027	237.79	1.15239	
184	similar to zinc finger protein 277. [source:sptrembl;acc:q8wwa6]	0	6279.56	5569.42	1.12751	
185	adiponectin receptor 2. [source:refseq;acc:nm_024551]	1	281.582	246.371	1.14292	
185	zinc finger protein 277. [source:swissprot;acc:q9nrm2]	0	6279.56	5569.42	1.12751	
186	40s ribosomal protein s2 (s4) (llrep3 protein). [source:swissprot;acc:p15880]	0	11935.1	10592.8	1.12672	
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	226.582	198.444	1.14179	
187	adenylosuccinate synthase-like 1. [source:refseq;acc:nm_152328]	0	9955.22	11213.7	1.12641	
187	rev1-like; rev1 protein; rev1 (yeast homolog)- like. [source:refseq;acc:nm_016316]	1	226.582	198.444	1.14179	
188	60s ribosomal protein l15. [source:swissprot;acc:p39030]	0	11745.2	13203.1	1.12413	
188	protein arginine n-methyltransferase 1 (ec 2.1.1.-) (interferon receptor 1-bound protein 4). [source:swissprot;acc:q99873]	1	226.582	198.444	1.14179	
189	protein arginine n-methyltransferase 4 (ec 2.1.1.-). [source:swissprot;acc:q9nr22]	1	226.582	198.444	1.14179	
189	sal-like protein 4 (zinc finger protein sall4). [source:swissprot;acc:q9ujq4]	0	10634.4	9465	1.12355	
190	high-glucose-regulated protein 8 (ny-ren-2 antigen). [source:swissprot;acc:q9y5a9]	0	18809.5	16764.2	1.122	
190	u1 small nuclear ribonucleoprotein 70 kda (u1 snrnp 70 kda) (snrnp70) (u1-70k). [source:swissprot;acc:p08621]	1	226.582	198.444	1.14179	
191	filamin a (alpha-filamin) (filamin 1) (endothelial actin-binding protein) (abp-280) (nonmuscle filamin). [source:swissprot;acc:p21333]	1	226.582	198.444	1.14179	
191	sh3 adapter protein spin90 (sh3 protein interacting with nck, 90 kda) (vaca-interacting protein, 54 kda) (vip54) (af3p21) (diaphanous protein interacting protein) (dia interacting protein-1) (dip-1). [source:swissprot;acc:q9nzq3]	0	18809.5	16764.2	1.122	
192	musashi 2 isoform a. [source:refseq;acc:nm_138962]	1	227.491	199.458	1.14055	
192	t-complex protein 1, zeta subunit (tcp-1-zeta) (cct-zeta) (cct-zeta-1) (tcp20) (htr3). [source:swissprot;acc:p40227]	0	12715.9	11333.2	1.122	
193	musashi 1. [source:refseq;acc:nm_002442]	1	227.491	199.458	1.14055	

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/