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 251 to 300 of 3730 in total 
Value Type	Ranked
Network Comparison Type	Divided
Interaction Map	High confidence

Rank	description	Filtered	green	red	network_comparison	
126	associated molecule with the sh3 domain of stam (amsh) like protein. [source:refseq;acc:nm_020799]	1	114	94	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	11493.8	9722.71	1.18216	
127	putative breast adenocarcinoma marker (32kd). [source:refseq;acc:nm_014453]	1	114	94	1.21277	
127	trans-prenyltransferase; polyprenyl pyrophosphate synthetase. [source:refseq;acc:nm_014317]	0	11119.7	9411.34	1.18152	
128	60s ribosomal protein l39. [source:swissprot;acc:p02404]	0	9794.29	11564.4	1.18073	
128	associated molecule with the sh3 domain of stam. [source:refseq;acc:nm_006463]	1	114	94	1.21277	
129	isoleucyl-trna synthetase, cytoplasmic (ec 6.1.1.5) (isoleucine--trna ligase) (ilers) (irs). [source:swissprot;acc:p41252]	0	12058.6	14222.5	1.17945	
129	neuroendocrine differentiation factor; comparative gene identification transcript 149. [source:refseq;acc:nm_016079]	1	114	94	1.21277	
130	enigma protein; lim domain protein. [source:refseq;acc:nm_005451]	0	17069.5	14476.2	1.17914	
130	protein hspc134 (protein cda04). [source:swissprot;acc:q9by43]	1	114	94	1.21277	
131	dna mismatch repair protein mlh1 (mutl protein homolog 1). [source:swissprot;acc:p40692]	0	9873.58	8375.43	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	242.562	294.053	1.21228	
132	rna helicase-related protein; rna helicase-like protein; sf3b125 dead-box protein. [source:refseq;acc:nm_007372]	0	22389	19048	1.1754	
132	tob2 protein (transducer of erbb-2 2). [source:swissprot;acc:q14106]	1	290	350	1.2069	
133	alpha-parvin (calponin-like integrin-linked kinase binding protein) (ch-ilkbp). [source:swissprot;acc:q9nvd7]	0	8009	6814	1.17537	
133	tob1 protein (transducer of erbb-2 1). [source:swissprot;acc:p50616]	1	290	350	1.2069	
134	cytochrome p450 4f8 (ec 1.14.14.1) (cypivf8). [source:swissprot;acc:p98187]	0	10489.3	12314.9	1.17404	
134	dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [source:refseq;acc:nm_032552]	1	290	350	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	10489.3	12314.9	1.17404	
135	cytoplasmic polyadenylation element binding protein 4. [source:refseq;acc:nm_030627]	1	290	350	1.2069	
136	cytochrome p450 4f12 (ec 1.14.14.1) (cypivf12). [source:swissprot;acc:q9hcs2]	0	10506.8	12335.3	1.17403	
136	cytoplasmic polyadenylation element binding protein 3. [source:refseq;acc:nm_014912]	1	290	350	1.2069	
137	cytochrome p450 4f11 (ec 1.14.14.1) (cypivf11). [source:swissprot;acc:q9hbi6]	0	10501	12328.5	1.17403	
137	ras gtpase-activating protein ngap (ras protein activator like 1). [source:swissprot;acc:q9ujf2]	1	290	350	1.2069	
138	likely ortholog of rat cytochrome p450 4x1. [source:refseq;acc:nm_178033]	0	10549.4	12384.7	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	234.204	194.372	1.20493	
139	alpha crystallin a chain. [source:swissprot;acc:p02489]	0	13972.2	16372.4	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	225.68	271.752	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	14027.1	16411.9	1.17001	
140	ras-related gtp binding a; ras-related gtp-binding protein. [source:refseq;acc:nm_006570]	1	49	59	1.20408	
141	probable calcium-transporting atpase kiaa0703 (ec 3.6.3.8). [source:swissprot;acc:o75185]	0	8991.19	7690.02	1.1692	
141	ras-related gtp binding c; rag c protein. [source:refseq;acc:nm_022157]	1	49	59	1.20408	
142	ras-related gtp binding b short isoform; gtp-binding protein ragb. [source:refseq;acc:nm_006064]	1	49	59	1.20408	
142	voltage-dependent calcium channel gamma-5 subunit (neuronal voltage- gated calcium channel gamma-5 subunit). [source:swissprot;acc:q9uf02]	0	7026.41	8214.41	1.16908	
143	anillin, actin binding protein (scraps homolog, drosophila); anillin (drosophila scraps homolog), actin binding protein. [source:refseq;acc:nm_018685]	1	49	59	1.20408	
143	dna directed rna polymerase ii polypeptide j-related gene isoform 3; rpb11b1alpha protein; rpb11b1beta; dna-directed rna polymerase ii subunit 11. [source:refseq;acc:nm_032959]	0	13005.3	11124.8	1.16904	
144	dna directed rna polymerase ii polypeptide j-related gene isoform 1; rpb11b1alpha protein; rpb11b1beta; dna-directed rna polymerase ii subunit 11. [source:refseq;acc:nm_145325]	0	13000.1	11123.4	1.16872	
144	kv channel interacting protein 1; vesicle apc-binding protein; a-type potassium channel modulatory protein 1. [source:refseq;acc:nm_014592]	1	319.651	265.686	1.20312	
145	potassium channel-interacting protein 4 isoform 4; calsenilin-like protein. [source:refseq;acc:nm_147183]	1	319.546	265.639	1.20293	
145	sorcin (22 kda protein) (cp-22) (v19). [source:swissprot;acc:p30626]	0	6817.49	7955.61	1.16694	
146	coatomer beta' subunit (beta'-coat protein) (beta'-cop) (p102). [source:swissprot;acc:p35606]	0	14662.1	12577.8	1.16571	
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]	1	319.531	265.632	1.20291	
147	60s ribosomal protein l7. [source:swissprot;acc:p18124]	0	9505.89	11080.3	1.16562	
147	nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [source:refseq;acc:nm_006333]	1	42.3003	50.7983	1.2009	
148	sad1/unc-84 protein-like 1. [source:swissprot;acc:o94901]	1	247.559	296.677	1.19841	
148	spectrin beta chain, brain 4 (spectrin, non-erythroid beta chain 4) (beta-v spectrin) (bspecv). [source:swissprot;acc:q9nrc6]	0	7863.63	6755.71	1.164	
149	atlastin; guanylate-binding protein 3. [source:refseq;acc:nm_015915]	1	170	142	1.19718	
149	block 23. [source:sptrembl;acc:q8nhw5]	0	13334.8	11469.3	1.16265	
150	myosin vb (myosin 5b) (fragment). [source:swissprot;acc:q9ulv0]	1	46	55	1.19565	
150	zinc finger protein-like 1; zinc-finger protein in men1 region. [source:refseq;acc:nm_006782]	0	7516	8730	1.16152	

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/