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 625 to 674 of 3730 in total 
Value Type	Ranked
Network Comparison Type	Divided
Interaction Map	High confidence

Rank	description	Filtered	green	red	network_comparison	
313	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-4 subunit. [source:swissprot;acc:p50150]	0	12698.9	11935.6	1.06395	
313	ribonucleotide reductase m2 b (tp53 inducible); p53-inducible ribonucleotide reductase small subunit 2 homolog. [source:refseq;acc:nm_015713]	1	211.207	232.473	1.10069	
314	clathrin heavy chain 2 (clh-22). [source:swissprot;acc:p53675]	0	10957.5	10301.4	1.06369	
314	methionine aminopeptidase 1 (ec 3.4.11.18) (metap 1) (map 1) (peptidase m 1). [source:swissprot;acc:p53582]	1	268.604	244.126	1.10027	
315	methionine aminopeptidase 2 (ec 3.4.11.18) (metap 2) (peptidase m 2) (initiation factor 2 associated 67 kda glycoprotein) (p67) (p67eif2). [source:swissprot;acc:p50579]	1	268.604	244.126	1.10027	
315	ribonucleoside-diphosphate reductase m1 chain (ec 1.17.4.1) (ribonucleotide reductase large chain). [source:swissprot;acc:p23921]	0	12887.6	12121.6	1.06319	
316	dj718p11.1.2 (novel class ii aminotransferase similar to serine palmotyltransferase (isoform 2)) (fragment). [source:sptrembl;acc:q9ugb5]	0	11444	10768.5	1.06273	
316	protein translation factor sui1 homolog (sui1iso1). [source:swissprot;acc:p41567]	1	267.017	242.694	1.10022	
317	protein transport protein sec24c (sec24-related protein c). [source:swissprot;acc:p53992]	0	18778	19939	1.06183	
317	splicing factor 3b subunit 3 (spliceosome associated protein 130) (sap 130) (sf3b130) (pre-mrna splicing factor sf3b 130 kda subunit). [source:swissprot;acc:q15393]	1	204.044	224.445	1.09998	
318	mitochondrial 60s ribosomal protein l3 (l3mt). [source:swissprot;acc:p09001]	1	266.18	242.011	1.09987	
318	ubiquitous tropomodulin (u-tmod) (tropomodulin 3). [source:swissprot;acc:q9nyl9]	0	9465.32	8918.54	1.06131	
319	60s ribosomal protein l19. [source:swissprot;acc:p14118]	1	264.729	240.73	1.09969	
319	sorting nexin 9 (sh3 and px domain-containing protein 1) (sdp1 protein). [source:swissprot;acc:q9y5x1]	0	9465.32	8918.54	1.06131	
320	adp-ribosylation factor 3. [source:swissprot;acc:p16587]	0	10958.2	11627.8	1.0611	
320	epithelial-cadherin precursor (e-cadherin) (uvomorulin) (cadherin-1) (cam 120/80). [source:swissprot;acc:p12830]	1	265.96	241.892	1.0995	
321	adenine phosphoribosyltransferase (ec 2.4.2.7) (aprt). [source:swissprot;acc:p07741]	0	10989.9	11634.4	1.05864	
321	c367g8.3 (novel protein similar to rpl23a (60s ribosomal protein l23a)) (60s ribosomal protein l23a like). [source:sptrembl;acc:q9br02]	1	265.959	241.892	1.09949	
322	deoxyribonuclease ii beta isoform 1 precursor; deoxyribonuclease ii beta; endonuclease dlad. [source:refseq;acc:nm_021233]	1	78.8995	86.7483	1.09948	
322	estradiol 17 beta-dehydrogenase 1 (ec 1.1.1.62) (17-beta-hsd 1) (placental 17-beta-hydroxysteroid dehydrogenase) (20 alpha- hydroxysteroid dehydrogenase) (20-alpha-hsd) (e2dh). [source:swissprot;acc:p14061]	0	10989.9	11634.4	1.05864	
323	60s ribosomal protein l23a. [source:swissprot;acc:p29316]	1	265.945	241.884	1.09947	
323	ras-related c3 botulinum toxin substrate 1 (p21-rac1) (ras-like protein tc25). [source:swissprot;acc:p15154]	0	16427.3	17387.1	1.05843	
324	40s ribosomal protein s23. [source:swissprot;acc:p39028]	1	268.195	243.944	1.09941	
324	ras-related c3 botulinum toxin substrate 3 (p21-rac3). [source:swissprot;acc:o14658]	0	16427.3	17387.1	1.05843	
325	28s ribosomal protein s12, mitochondrial precursor (mpr-s12) (mt- rps12). [source:swissprot;acc:o15235]	1	268.195	243.944	1.09941	
325	mstp028 protein. [source:refseq;acc:nm_031954]	0	7528.21	7965.66	1.05811	
326	60s ribosomal protein l5. [source:swissprot;acc:p46777]	1	265.924	241.899	1.09932	
326	dead/h (asp-glu-ala-asp/his) box polypeptide 11; dead/h box-11 (chl1-related helicase gene-1); yeast chl1 homolog. [source:refseq;acc:nm_030655]	0	11295.6	11948.4	1.05779	
327	3-hydroxyisobutyryl-coenzyme a hydrolase. [source:refseq;acc:nm_014362]	0	10466.5	9897.29	1.05751	
327	dna-directed rna polymerase ii largest subunit (ec 2.7.7.6) (rpb1). [source:swissprot;acc:p24928]	1	267.962	243.817	1.09903	
328	atp-dependent rna helicase ddx24 (dead-box protein 24). [source:swissprot;acc:q9gzr7]	1	235.183	258.437	1.09888	
328	putative rna-binding protein 15 (rna binding motif protein 15) (one-twenty two protein). [source:swissprot;acc:q96t37]	0	11520	10897	1.05717	
329	neurogenic differentiation factor 2 (neurod2). [source:swissprot;acc:q15784]	1	284	312	1.09859	
329	signal-induced proliferation-associated 1-like 1. [source:refseq;acc:nm_015556]	0	15115.5	15977.3	1.05701	
330	chromodomain helicase-dna-binding protein 3 (chd-3) (mi-2 autoantigen 240 kda protein) (mi2-alpha). [source:swissprot;acc:q12873]	1	284	312	1.09859	
330	pram-1 protein; pml-rara target gene encoding an adaptor molecule-1. [source:refseq;acc:nm_032152]	0	13018.5	12320.2	1.05668	
331	40s ribosomal protein s3a. [source:swissprot;acc:p49241]	0	10992.4	10405.1	1.05644	
331	doc-1 related protein (doc-1r). [source:swissprot;acc:o75956]	1	284	312	1.09859	
332	myosin heavy chain, cardiac muscle alpha isoform (myhc-alpha). [source:swissprot;acc:p13533]	0	7697.5	8125.5	1.0556	
332	neurogenic differentiation factor 6 (neurod6) (my051 protein). [source:swissprot;acc:q96nk8]	1	284	312	1.09859	
333	myosin heavy chain, skeletal muscle, fetal (myosin heavy chain iib) (myhc-iib). [source:swissprot;acc:q9y623]	0	7697.5	8125.5	1.0556	
333	neurogenic differentiation factor 1 (neurod1) (neurod). [source:swissprot;acc:q13562]	1	284	312	1.09859	
334	myosin heavy chain, skeletal muscle, adult 2 (myosin heavy chain iia) (myhc-iia). [source:swissprot;acc:q9ukx2]	0	7697.5	8125.5	1.0556	
334	neurogenic differentiation factor 4 (neurod4). [source:swissprot;acc:q9hd90]	1	284	312	1.09859	
335	chromodomain helicase dna binding protein 5. [source:refseq;acc:nm_015557]	1	284	312	1.09859	
335	myosin heavy chain, skeletal muscle, adult 1 (myosin heavy chain iix/d) (myhc-iix/d). [source:swissprot;acc:p12882]	0	7697.5	8125.5	1.0556	
336	cyclin-dependent kinase 2-associated protein 1 (cdk2-associated protein 1) (putative oral cancer suppressor) (deleted in oral cancer- 1) (doc-1). [source:swissprot;acc:o14519]	1	284	312	1.09859	
336	myosin heavy chain, skeletal muscle, extraocular (myhc-eo). [source:swissprot;acc:q9ukx3]	0	7697.5	8125.5	1.0556	
337	60s ribosomal protein l12. [source:swissprot;acc:p30050]	1	267.527	243.583	1.0983	
337	glucosamine--fructose-6-phosphate aminotransferase [isomerizing] 1 (ec 2.6.1.16) (hexosephosphate aminotransferase 1) (d-fructose-6- phosphate amidotransferase 1) (gfat 1) (gfat1). [source:swissprot;acc:q06210]	0	12273.2	12953.2	1.05541	

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/