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 red green network_comparison
Results: HTML CSV LaTeX Showing element 1918 to 1967 of 6456 in total 
Value Type	Ranked
Interaction Map	High confidence
Filtered	1

Rank	description	Network Comparison Type	red	green	network_comparison	
959	probable serine protease htra4 precursor (ec 3.4.21.-). [source:swissprot;acc:p83105]	Subtracted	218.461	211.343	7.118	
960	probable serine protease htra3 precursor (ec 3.4.21.-). [source:swissprot;acc:p83110]	Subtracted	218.462	211.345	7.117	
960	zuotin related factor-1 (m-phase phosphoprotein 11). [source:swissprot;acc:q99543]	Divided	237.558	229.677	1.03431	
961	serine protease htra1 precursor (ec 3.4.21.-) (l56). [source:swissprot;acc:q92743]	Subtracted	218.468	211.357	7.111	
961	serine/threonine protein phosphatase 2a, 56 kda regulatory subunit, epsilon isoform (pp2a, b subunit, b' epsilon isoform) (pp2a, b subunit, b56 epsilon isoform) (pp2a, b subunit, pr61 epsilon isoform) (pp2a, b subunit, r5 epsilon isoform). [source:swissprot;acc:q16537]	Divided	130.066	134.527	1.0343	
962	cyclin g2. [source:swissprot;acc:q16589]	Divided	130.066	134.527	1.0343	
962	mitotic spindle assembly checkpoint protein mad2b (mad2-like 2) (hrev7). [source:swissprot;acc:q9ui95]	Subtracted	219.656	212.547	7.109	
963	cyclin g1 (cyclin g). [source:swissprot;acc:p51959]	Divided	130.066	134.527	1.0343	
963	mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [source:swissprot;acc:q9y6g3]	Subtracted	219.656	212.547	7.109	
964	nuclear pore complex protein nup88 (nucleoporin nup88) (88 kda nuclear pore complex protein). [source:swissprot;acc:q99567]	Subtracted	219.656	212.547	7.109	
964	serine/threonine protein phosphatase 2a, 56 kda regulatory subunit, alpha isoform (pp2a, b subunit, b' alpha isoform) (pp2a, b subunit, b56 alpha isoform) (pp2a, b subunit, pr61 alpha isoform) (pp2a, b subunit, r5 alpha isoform). [source:swissprot;acc:q15172]	Divided	130.066	134.527	1.0343	
965	partitioning defective-6 homolog gamma (par-6 gamma) (par6d). [source:swissprot;acc:q9byg4]	Divided	211.987	204.964	1.03426	
965	tetranectin precursor (tn) (plasminogen-kringle 4 binding protein). [source:swissprot;acc:p05452]	Subtracted	178.514	171.42	7.094	
966	tubby protein homolog. [source:swissprot;acc:p50607]	Divided	211.987	204.964	1.03426	
966	vinexin (sh3-containing adaptor molecule-1) (scam-1). [source:swissprot;acc:o60504]	Subtracted	211.812	204.732	7.08	
967	dna-directed rna polymerase i 16 kda polypeptide (ec 2.7.7.6) (rpa16). [source:swissprot;acc:q9y2s0]	Subtracted	231.277	238.356	7.079	
967	protein kinase c, iota type (ec 2.7.1.37) (npkc-iota) (atypical protein kinase c-lamda/iota) (apkc-lambda/iota). [source:swissprot;acc:p41743]	Divided	211.987	204.964	1.03426	
968	homeobox protein hox-c4 (hox-3e) (cp19). [source:swissprot;acc:p09017]	Subtracted	132.413	125.389	7.024	
968	numb protein homolog (h-numb) (protein s171). [source:swissprot;acc:p49757]	Divided	211.987	204.964	1.03426	
969	homeobox protein hox-b4 (hox-2f) (hox-2.6). [source:swissprot;acc:p17483]	Subtracted	132.413	125.389	7.024	
969	tbc1 domain family member 5. [source:swissprot;acc:q92609]	Divided	211.987	204.964	1.03426	
970	homeobox protein hox-c5 (hox-3d) (cp11). [source:swissprot;acc:q00444]	Subtracted	132.413	125.389	7.024	
970	tubby related protein 1 (tubby-like protein 1). [source:swissprot;acc:o00294]	Divided	211.987	204.964	1.03426	
971	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [source:swissprot;acc:p09630]	Subtracted	132.413	125.389	7.024	
971	vacuolar protein sorting 29 (vesicle protein sorting 29) (hvps29) (mds007) (pep11) (dc7/dc15). [source:swissprot;acc:q9ubq0]	Divided	211.987	204.964	1.03426	
972	homeobox protein hox-d4 (hox-4b) (hox-5.1) (hho.c13). [source:swissprot;acc:p09016]	Subtracted	132.413	125.389	7.024	
972	numb-like protein (numb-r). [source:swissprot;acc:q9y6r0]	Divided	211.987	204.964	1.03426	
973	homeobox protein hox-b5 (hox-2a) (hho.c10) (hu-1). [source:swissprot;acc:p09067]	Subtracted	132.413	125.389	7.024	
973	tubby related protein 3 (tubby-like protein 3). [source:swissprot;acc:o75386]	Divided	211.987	204.964	1.03426	
974	homeobox protein hox-a5 (hox-1c). [source:swissprot;acc:p20719]	Subtracted	132.413	125.389	7.024	
974	vacuolar protein sorting 35 (vesicle protein sorting 35) (hvps35) (maternal-embryonic 3). [source:swissprot;acc:q96qk1]	Divided	211.987	204.964	1.03426	
975	homeobox protein hox-a4 (hox-1d) (hox-1.4). [source:swissprot;acc:q00056]	Subtracted	132.413	125.389	7.024	
975	protein kinase c, zeta type (ec 2.7.1.37) (npkc-zeta). [source:swissprot;acc:q05513]	Divided	211.987	204.964	1.03426	
976	retinal short-chain dehydrogenase/reductase 3. [source:refseq;acc:nm_016246]	Subtracted	132.413	125.389	7.024	
976	t-cell activation wd repeat protein. [source:refseq;acc:nm_139281]	Divided	243.34	235.322	1.03407	
977	partitioning defective-6 homolog gamma (par-6 gamma) (par6d). [source:swissprot;acc:q9byg4]	Subtracted	211.987	204.964	7.023	
977	prefoldin subunit 5 (c-myc binding protein mm-1) (myc modulator 1). [source:swissprot;acc:q99471]	Divided	228.953	221.421	1.03402	
978	prefoldin subunit 6 (protein ke2). [source:swissprot;acc:o15212]	Divided	228.953	221.421	1.03402	
978	tubby protein homolog. [source:swissprot;acc:p50607]	Subtracted	211.987	204.964	7.023	
979	gcn5-like protein 1 (rt14 protein). [source:swissprot;acc:p78537]	Divided	202.027	195.386	1.03399	
979	protein kinase c, iota type (ec 2.7.1.37) (npkc-iota) (atypical protein kinase c-lamda/iota) (apkc-lambda/iota). [source:swissprot;acc:p41743]	Subtracted	211.987	204.964	7.023	
980	b-raf proto-oncogene serine/threonine-protein kinase (ec 2.7.1.-) (p94) (v-raf murine sarcoma viral oncogene homolog b1). [source:swissprot;acc:p15056]	Divided	130.289	134.713	1.03396	
980	numb protein homolog (h-numb) (protein s171). [source:swissprot;acc:p49757]	Subtracted	211.987	204.964	7.023	
981	exocyst complex component sec6. [source:swissprot;acc:o60645]	Divided	207.186	200.398	1.03387	
981	tbc1 domain family member 5. [source:swissprot;acc:q92609]	Subtracted	211.987	204.964	7.023	
982	cirhin; testis expressed gene 292; cirrhosis, autosomal recessive 1a. [source:refseq;acc:nm_032830]	Divided	243.312	235.351	1.03383	
982	tubby related protein 1 (tubby-like protein 1). [source:swissprot;acc:o00294]	Subtracted	211.987	204.964	7.023	
983	pbk1 protein. [source:sptrembl;acc:o76021]	Divided	243.312	235.353	1.03382	
983	vacuolar protein sorting 29 (vesicle protein sorting 29) (hvps29) (mds007) (pep11) (dc7/dc15). [source:swissprot;acc:q9ubq0]	Subtracted	211.987	204.964	7.023	
984	numb-like protein (numb-r). [source:swissprot;acc:q9y6r0]	Subtracted	211.987	204.964	7.023	

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/