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 230 to 279 of 3730 in total 
Value Type	Ranked
Network Comparison Type	Divided
Interaction Map	High confidence

Rank	description	Filtered	red	green	network_comparison	
115	spir-2 protein (fragment). [source:sptrembl;acc:q8wwl2]	0	18662.8	15627	1.19427	
116	guanine nucleotide-binding protein g(i)/g(s)/g(t) beta subunit 3 (transducin beta chain 3). [source:swissprot;acc:p16520]	1	268.565	334.483	1.24545	
116	metaxin 1. [source:swissprot;acc:q13505]	0	13761.3	16422.1	1.19335	
117	basic proline-rich peptide p-e (ib-9). [source:swissprot;acc:p02811]	0	11545	13771.5	1.19285	
117	neuralized-like. [source:refseq;acc:nm_004210]	1	332.326	266.948	1.24491	
118	aquaporin-cd (aqp-cd) (water channel protein for renal collecting duct) (adh water channel) (aquaporin 2) (collecting duct water channel protein) (wch-cd). [source:swissprot;acc:p41181]	0	12049	14370.7	1.19269	
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]	1	284.753	228.934	1.24382	
119	mesoderm induction early response 1. [source:refseq;acc:nm_020948]	0	3609	4302.5	1.19216	
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]	1	318.982	259.004	1.23157	
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]	1	269.278	327.709	1.21699	
120	presenilin-like protein 1 (ec 3.4.99.-) (sppl2b protein). [source:swissprot;acc:q8tct7]	0	5797	4873	1.18962	
121	cystathionine gamma-lyase (ec 4.4.1.1) (gamma-cystathionase). [source:swissprot;acc:p32929]	1	269.254	327.655	1.2169	
121	zinc finger protein 232. [source:swissprot;acc:q9uny5]	0	11523.7	13686.9	1.18772	
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]	1	269.248	327.642	1.21688	
122	zinc finger protein 24 (zinc finger protein 191) (zinc finger protein kox17) (retinoic acid suppression protein a) (rsg-a). [source:swissprot;acc:p17028]	0	11523	13685.4	1.18766	
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]	1	269.23	327.601	1.21681	
123	zinc finger protein 215 (bwscr2 associated zinc-finger protein 2) (baz 2). [source:swissprot;acc:q9ul58]	0	11522.8	13684.9	1.18764	
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]	1	208.52	171.595	1.21519	
124	zinc finger imprinted 2. [source:swissprot;acc:q9nzv7]	0	11520.7	13680.4	1.18746	
125	high-mobility group 20a. [source:refseq;acc:nm_018200]	1	208.588	171.778	1.21429	
125	phosphatidylinositol-4-phosphate 3-kinase c2 domain-containing beta polypeptide (ec 2.7.1.154) (phosphoinositide 3-kinase-c2-beta) (ptdins-3-kinase c2 beta) (pi3k-c2beta) (c2-pi3k). [source:swissprot;acc:o00750]	0	22038	18578	1.18624	
126	associated molecule with the sh3 domain of stam (amsh) like protein. [source:refseq;acc:nm_020799]	1	94	114	1.21277	
126	ret finger protein 2 (leukemia associated protein 5) (b-cell chronic lymphocytic leukemia tumor suppressor leu5) (putative tumor suppressor rfp2) (tripartite motif protein 13). [source:swissprot;acc:o60858]	0	9722.71	11493.8	1.18216	
127	putative breast adenocarcinoma marker (32kd). [source:refseq;acc:nm_014453]	1	94	114	1.21277	
127	trans-prenyltransferase; polyprenyl pyrophosphate synthetase. [source:refseq;acc:nm_014317]	0	9411.34	11119.7	1.18152	
128	60s ribosomal protein l39. [source:swissprot;acc:p02404]	0	11564.4	9794.29	1.18073	
128	associated molecule with the sh3 domain of stam. [source:refseq;acc:nm_006463]	1	94	114	1.21277	
129	isoleucyl-trna synthetase, cytoplasmic (ec 6.1.1.5) (isoleucine--trna ligase) (ilers) (irs). [source:swissprot;acc:p41252]	0	14222.5	12058.6	1.17945	
129	neuroendocrine differentiation factor; comparative gene identification transcript 149. [source:refseq;acc:nm_016079]	1	94	114	1.21277	
130	enigma protein; lim domain protein. [source:refseq;acc:nm_005451]	0	14476.2	17069.5	1.17914	
130	protein hspc134 (protein cda04). [source:swissprot;acc:q9by43]	1	94	114	1.21277	
131	dna mismatch repair protein mlh1 (mutl protein homolog 1). [source:swissprot;acc:p40692]	0	8375.43	9873.58	1.17887	
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]	1	294.053	242.562	1.21228	
132	rna helicase-related protein; rna helicase-like protein; sf3b125 dead-box protein. [source:refseq;acc:nm_007372]	0	19048	22389	1.1754	
132	tob2 protein (transducer of erbb-2 2). [source:swissprot;acc:q14106]	1	350	290	1.2069	
133	alpha-parvin (calponin-like integrin-linked kinase binding protein) (ch-ilkbp). [source:swissprot;acc:q9nvd7]	0	6814	8009	1.17537	
133	tob1 protein (transducer of erbb-2 1). [source:swissprot;acc:p50616]	1	350	290	1.2069	
134	cytochrome p450 4f8 (ec 1.14.14.1) (cypivf8). [source:swissprot;acc:p98187]	0	12314.9	10489.3	1.17404	
134	dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [source:refseq;acc:nm_032552]	1	350	290	1.2069	
135	cytochrome p450 4f2 (ec 1.14.13.30) (cypivf2) (leukotriene-b4 omega- hydroxylase) (leukotriene-b4 20-monooxygenase) (cytochrome p450- ltb-omega). [source:swissprot;acc:p78329]	0	12314.9	10489.3	1.17404	
135	cytoplasmic polyadenylation element binding protein 4. [source:refseq;acc:nm_030627]	1	350	290	1.2069	
136	cytochrome p450 4f12 (ec 1.14.14.1) (cypivf12). [source:swissprot;acc:q9hcs2]	0	12335.3	10506.8	1.17403	
136	cytoplasmic polyadenylation element binding protein 3. [source:refseq;acc:nm_014912]	1	350	290	1.2069	
137	cytochrome p450 4f11 (ec 1.14.14.1) (cypivf11). [source:swissprot;acc:q9hbi6]	0	12328.5	10501	1.17403	
137	ras gtpase-activating protein ngap (ras protein activator like 1). [source:swissprot;acc:q9ujf2]	1	350	290	1.2069	
138	likely ortholog of rat cytochrome p450 4x1. [source:refseq;acc:nm_178033]	0	12384.7	10549.4	1.17397	
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]	1	194.372	234.204	1.20493	
139	alpha crystallin a chain. [source:swissprot;acc:p02489]	0	16372.4	13972.2	1.17178	
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]	1	271.752	225.68	1.20415	
140	mannosyl-oligosaccharide 1,2-alpha-mannosidase ib (ec 3.2.1.113) (processing alpha-1,2-mannosidase ib) (alpha-1,2-mannosidase ib) (mannosidase alpha class 1a member 2). [source:swissprot;acc:o60476]	0	16411.9	14027.1	1.17001	

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/