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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Rank Gene description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 501 to 550 of 6456 in total 
Value Type	Measured
Interaction Map	High confidence
Filtered	1

Rank	description	Network Comparison Type	red	green	network_comparison	
251	breast cancer antiestrogen resistance 3. [source:refseq;acc:nm_003567]	Subtracted	4579.34	5940.64	1361.3	
251	tyrosine-protein kinase hck (ec 2.7.1.112) (p59-hck/p60-hck) (hemopoietic cell kinase). [source:swissprot;acc:p08631]	Divided	6417.18	7859.6	1.22477	
252	crk-like protein. [source:swissprot;acc:p46109]	Divided	6417.18	7859.6	1.22477	
252	glycogen [starch] synthase, muscle (ec 2.4.1.11). [source:swissprot;acc:p13807]	Subtracted	9648.27	10994.9	1346.63	
253	endo-beta-n-acetylglucosaminidase. [source:refseq;acc:nm_022759]	Subtracted	9642.22	10986.4	1344.18	
253	proto-oncogene tyrosine-protein kinase abl1 (ec 2.7.1.112) (p150) (c-abl). [source:swissprot;acc:p00519]	Divided	6417.18	7859.59	1.22477	
254	glycogen [starch] synthase, liver (ec 2.4.1.11). [source:swissprot;acc:p54840]	Subtracted	9634.98	10976.2	1341.22	
254	proto-oncogene tyrosine-protein kinase fyn (ec 2.7.1.112) (p59-fyn) (syn) (slk). [source:swissprot;acc:p06241]	Divided	6417.18	7859.6	1.22477	
255	mad protein (max dimerizer). [source:swissprot;acc:q05195]	Subtracted	4455.95	5774.03	1318.08	
255	proto-oncogene tyrosine-protein kinase fgr (ec 2.7.1.112) (p55-fgr) (c-fgr). [source:swissprot;acc:p09769]	Divided	6417.18	7859.6	1.22477	
256	grb2-related adaptor protein 2 (gads protein) (growth factor receptor binding protein) (grblg) (grf40 adaptor protein) (grf-40) (grb-2-like protein) (grb2l) (grbx) (p38) (hematopoietic cell-associated adaptor protein grpl) (adapter protein grid) (sh3-sh2-sh3 adaptor mona). [source:swissprot;acc:o75791]	Divided	6417.19	7859.51	1.22476	
256	max interacting protein 1 (mxi1 protein). [source:swissprot;acc:p50539]	Subtracted	4456.67	5773.77	1317.1	
257	ccaat displacement protein (cdp) (cut-like 1). [source:swissprot;acc:p39880]	Divided	6417.31	7858.12	1.22452	
257	max-interacting transcriptional repressor mad4 (max-associated protein 4) (max dimerization protein 4). [source:swissprot;acc:q14582]	Subtracted	4456.93	5773.67	1316.74	
258	homeobox protein cux-2 (cut-like 2) (fragment). [source:swissprot;acc:o14529]	Divided	6417.33	7857.93	1.22449	
258	max dimerization protein 3; likely ortholog of mouse max dimerization protein 3. [source:refseq;acc:nm_031300]	Subtracted	4457.06	5773.63	1316.57	
259	neural wiskott-aldrich syndrome protein (n-wasp). [source:swissprot;acc:o00401]	Divided	6417.81	7852.52	1.22355	
259	small nuclear ribonucleoprotein sm d3 (snrnp core protein d3) (sm-d3). [source:swissprot;acc:p43331]	Subtracted	4569.48	5885.79	1316.31	
260	cytidine triphosphate synthase ii; ctp synthetase type 2; utp-ammonia ligase; ctp synthetase isoform; cytidine 5'-triphosphate synthetase 2. [source:refseq;acc:nm_019857]	Subtracted	12515.4	11221.1	1294.3	
260	signal recognition particle 9 kda protein (srp9). [source:swissprot;acc:p49458]	Divided	4244.95	5193.42	1.22343	
261	signal recognition particle 9 kda protein (srp9). [source:swissprot;acc:p49458]	Divided	4247.36	5192.61	1.22255	
261	source of immunodominant mhc-associated peptides; homolog of yeast stt3 gene. [source:refseq;acc:nm_178862]	Subtracted	4571.89	5864.86	1292.97	
262	cleavage and polyadenylation specific factor 4, 30kd subunit; cleavage-polyadenylation specificity factor, 30kd; no arches-like (zebrafish) zinc finger protein; cleavage-polyadenylation specificity factor. [source:refseq;acc:nm_006693]	Divided	24896.4	20431.7	1.21852	
262	oligosaccharyl transferase stt3 subunit homolog (b5) (integral membrane protein 1) (tmc). [source:swissprot;acc:p46977]	Subtracted	4571.89	5864.86	1292.97	
263	dolichyl-diphosphooligosaccharide--protein glycosyltransferase 48 kda subunit precursor (ec 2.4.1.119) (oligosaccharyl transferase 48 kda subunit) (ddost 48 kda subunit). [source:swissprot;acc:p39656]	Subtracted	4571.89	5864.86	1292.97	
263	trs85 homolog. [source:swissprot;acc:q9y2l5]	Divided	24896.4	20431.7	1.21852	
264	cop9 constitutive photomorphogenic homolog subunit 3; cop9 complex subunit 3; jab1-containing signalosome subunit 3. [source:refseq;acc:nm_003653]	Divided	4987.58	4094.57	1.2181	
264	ctp synthase (ec 6.3.4.2) (utp--ammonia ligase) (ctp synthetase). [source:swissprot;acc:p17812]	Subtracted	12503.3	11212	1291.3	
265	splicing factor 3b subunit 1 (spliceosome associated protein 155) (sap 155) (sf3b155) (pre-mrna splicing factor sf3b 155 kda subunit). [source:swissprot;acc:o75533]	Subtracted	4638.1	5923.4	1285.3	
265	wd-repeat protein wdc146. [source:swissprot;acc:q9c0j8]	Divided	24806.9	20369.9	1.21782	
266	cleavage and polyadenylation specificity factor, 160 kda subunit (cpsf 160 kda subunit). [source:swissprot;acc:q10570]	Divided	24806.9	20369.9	1.21782	
266	solute carrier family 4 (anion exchanger), member 1, adaptor protein; kidney anion exchanger adaptor protein; kanadaptin; lung cancer oncogene 3. [source:refseq;acc:nm_018158]	Subtracted	11222.2	9948.93	1273.27	
267	cyclin-dependent kinases regulatory subunit 2 (cks-2). [source:swissprot;acc:p33552]	Subtracted	11222.2	9948.93	1273.27	
267	ral guanine nucleotide dissociation stimulator (ralgef) (ralgds). [source:swissprot;acc:q12967]	Divided	14021.4	11523	1.21682	
268	catenin (cadherin-associated protein), alpha-like 1; alpha-catulin. [source:refseq;acc:nm_003798]	Subtracted	11222.2	9948.93	1273.27	
268	cleavage and polyadenylation specificity factor, 100 kda subunit (cpsf 100 kda subunit) (fragment). [source:swissprot;acc:q9p2i0]	Divided	24473.9	20127.8	1.21593	
269	crk-associated substrate (p130cas) (breast cancer anti-estrogen resistance 1 protein). [source:swissprot;acc:p56945]	Subtracted	4808.79	6074.21	1265.42	
269	u6 snrna-associated sm-like protein lsm8. [source:swissprot;acc:o95777]	Divided	4590.18	5575.52	1.21466	
270	fip1-like 1; rearranged in hypereosinophilia. [source:refseq;acc:nm_030917]	Divided	23640.2	19479.8	1.21358	
270	t-complex protein 1, delta subunit (tcp-1-delta) (cct-delta) (stimulator of tar rna binding). [source:swissprot;acc:p50991]	Subtracted	4810.22	6075.04	1264.82	
271	chromatin accessibility complex protein 1 (chrac-1) (chrac-15) (huchrac15) (dna polymerase epsilon subunit p15). [source:swissprot;acc:q9nrg0]	Divided	2554.89	3093.78	1.21092	
271	enhancer of filamentation 1 (hef1) (crk-associated substrate-related protein) (cas-l) (casl) (pp105) (neural precursor cell expressed developmentally down-regulated 9). [source:swissprot;acc:q14511]	Subtracted	4812.01	6076.09	1264.08	
272	histone acetyltransferase type b catalytic subunit (ec 2.3.1.48). [source:swissprot;acc:o14929]	Divided	3858.52	4669.27	1.21012	
272	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]	Subtracted	1991.03	3221.38	1230.35	
273	eukaryotic translation initiation factor 5 (eif-5). [source:swissprot;acc:p55010]	Divided	3199.4	3870.8	1.20985	
273	ribosomal protein s6 kinase, 52kda, polypeptide 1; ribosomal protein s6 kinase, 52kd, polypeptide 1. [source:refseq;acc:nm_012424]	Subtracted	5181.2	6410.58	1229.38	
274	chromosome 3p21.1 gene sequence. [source:refseq;acc:nm_013286]	Divided	3119.98	2579.49	1.20953	
274	ribosomal protein s6 kinase-like 1. [source:refseq;acc:nm_031464]	Subtracted	5181.2	6410.58	1229.38	
275	deoxyuridine 5'-triphosphate nucleotidohydrolase, mitochondrial precursor (ec 3.6.1.23) (dutpase) (dutp pyrophosphatase). [source:swissprot;acc:p33316]	Subtracted	10264.9	9043.51	1221.39	
275	regulator of g-protein signaling 19 (rgs19) (g-alpha interacting protein) (gaip protein). [source:swissprot;acc:p49795]	Divided	3119.98	2579.49	1.20953	

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/