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 3708 to 3757 of 6456 in total 
Value Type	Measured
Interaction Map	High confidence
Filtered	1

Rank	description	Network Comparison Type	red	green	network_comparison	
1854	mln64 n-terminal domain homolog (stard3 n-terminal like protein). [source:swissprot;acc:o95772]	Subtracted	5458.12	5830.76	372.64	
1855	keratin associated protein 4-2; keratin associated protein 4.2. [source:refseq;acc:nm_033062]	Divided	6076.66	6463.14	1.0636	
1855	n-acetylglutamate synthase. [source:refseq;acc:nm_153006]	Subtracted	5162.27	5534.71	372.44	
1856	keratin associated protein 4.3 (fragment). [source:sptrembl;acc:q9byr4]	Divided	6076.66	6463.14	1.0636	
1856	trans-prenyltransferase; polyprenyl pyrophosphate synthetase. [source:refseq;acc:nm_014317]	Subtracted	4413.55	4784.6	371.05	
1857	keratin associated protein 2-4; keratin associated protein 2.4. [source:refseq;acc:nm_033184]	Divided	6076.66	6463.15	1.0636	
1857	transportin-sr; importin 12. [source:refseq;acc:nm_012470]	Subtracted	5184.94	5555.76	370.82	
1858	keratin associated protein 4-14; keratin associated protein 4.14. [source:refseq;acc:nm_033059]	Divided	6076.66	6463.13	1.0636	
1858	ruvb-like 1 (ec 3.6.1.-) (49-kda tata box-binding protein-interacting protein) (49 kda tbp-interacting protein) (tip49a) (pontin 52) (nuclear matrix protein 238) (nmp 238) (54 kda erythrocyte cytosolic protein) (ecp-54) (tip60-associated protein 54-alpha) (tap54-alpha). [source:swissprot;acc:q9y265]	Subtracted	5882.1	6252.66	370.56	
1859	heat shock protein hsp 90-beta (hsp 84) (hsp 90). [source:swissprot;acc:p08238]	Subtracted	5733.71	6104.26	370.55	
1859	keratin associated protein 4.9 (fragment). [source:sptrembl;acc:q9byq8]	Divided	6076.66	6463.13	1.0636	
1860	40s ribosomal protein s24 (s19). [source:swissprot;acc:p16632]	Subtracted	5184.45	5554.97	370.52	
1860	keratin associated protein 4-12; keratin associated protein 4.12. [source:refseq;acc:nm_031854]	Divided	6076.66	6463.13	1.0636	
1861	keratin associated protein 1.5. [source:refseq;acc:nm_031957]	Divided	6076.66	6463.14	1.0636	
1861	splicing factor 3b subunit 4 (spliceosome associated protein 49) (sap 49) (sf3b50) (pre-mrna splicing factor sf3b 49 kda subunit). [source:swissprot;acc:q15427]	Subtracted	4331.35	4700.91	369.56	
1862	26s proteasome non-atpase regulatory subunit 1 (26s proteasome regulatory subunit s1) (26s proteasome subunit p112). [source:swissprot;acc:q99460]	Subtracted	5826	6195.48	369.48	
1862	star-related lipid transfer protein 6 (stard6) (start domain- containing protein 6). [source:swissprot;acc:p59095]	Divided	6076.66	6463.13	1.0636	
1863	adhesion regulating molecule 1 precursor (110 kda cell membrane glycoprotein) (gp110). [source:swissprot;acc:q16186]	Subtracted	5826	6195.48	369.48	
1863	keratin, ultra high-sulfur matrix protein b (uhs keratin b) (uhs kerb). [source:swissprot;acc:o75690]	Divided	6076.66	6463.14	1.0636	
1864	keratin, ultra high-sulfur matrix protein a (uhs keratin a) (uhs kera). [source:swissprot;acc:p26371]	Divided	6076.66	6463.14	1.0636	
1864	ubiquitin carboxyl-terminal hydrolase isozyme l5 (ec 3.4.19.12) (uch- l5) (ubiquitin thiolesterase l5) (ubiquitin c-terminal hydrolase uch37) (cgi-70) (ad-019). [source:swissprot;acc:q9y5k5]	Subtracted	5826	6195.48	369.48	
1865	rna polymerase ii subunit 5-mediating protein (rpb5-mediating protein). [source:swissprot;acc:o94763]	Subtracted	5826	6195.48	369.48	
1865	star-related lipid transfer protein 5 (stard5) (start domain- containing protein 5). [source:swissprot;acc:q9nsy2]	Divided	6076.66	6463.12	1.0636	
1866	keratin associated protein 4.4. [source:refseq;acc:nm_032524]	Divided	6076.66	6463.14	1.0636	
1866	translation initiation factor eif-2b epsilon subunit (eif-2b gdp-gtp exchange factor). [source:swissprot;acc:q13144]	Subtracted	5369.43	5738.73	369.3	
1867	alpha-parvin (calponin-like integrin-linked kinase binding protein) (ch-ilkbp). [source:swissprot;acc:q9nvd7]	Divided	6076.66	6463.12	1.0636	
1867	translation initiation factor eif-2b gamma subunit (eif-2b gdp-gtp exchange factor). [source:swissprot;acc:q9nr50]	Subtracted	5369.43	5738.73	369.3	
1868	pinch protein (particularly interesting new cys-his protein) (lim and senescent cell antigen-like domains 1). [source:swissprot;acc:p48059]	Divided	6076.66	6463.12	1.0636	
1868	rad17 homolog isoform 1; rad17-like protein; cell cycle checkpoint protein (rad17); rf-c activator 1 homolog. [source:refseq;acc:nm_002873]	Subtracted	5739.49	6108.72	369.23	
1869	atp-dependent dna helicase ii, 70 kda subunit (lupus ku autoantigen protein p70) (ku70) (70 kda subunit of ku antigen) (thyroid-lupus autoantigen) (tlaa) (ctc box binding factor 75 kda subunit) (ctcbf) (ctc75). [source:swissprot;acc:p12956]	Subtracted	5739.49	6108.72	369.23	
1869	integrin-linked protein kinase 1 (ec 2.7.1.-) (ilk-1) (59 kda serine/threonine protein kinase) (p59ilk). [source:swissprot;acc:q13418]	Divided	6076.66	6463.12	1.0636	
1870	atp-dependent dna helicase ii, 80 kda subunit (lupus ku autoantigen protein p86) (ku86) (ku80) (86 kda subunit of ku antigen) (thyroid- lupus autoantigen) (tlaa) (ctc box binding factor 85 kda subunit) (ctcbf) (ctc85) (nuclear factor iv) (dna-repair protein xrcc5). [source:swissprot;acc:p13010]	Subtracted	5739.49	6108.72	369.23	
1870	star-related lipid transfer protein 4 (stard4) (start domain- containing protein 4). [source:swissprot;acc:q96dr4]	Divided	6076.66	6463.13	1.0636	
1871	nuclease sensitive element binding protein 1 (y box binding protein-1) (y-box transcription factor) (yb-1) (ccaat-binding transcription factor i subunit a) (cbf-a) (enhancer factor i subunit a) (efi-a) (dna-binding protein b) (dbpb). [source:swissprot;acc:p16991]	Subtracted	6682.05	7051.02	368.97	
1871	ras suppressor protein 1 (rsu-1) (rsp-1). [source:swissprot;acc:q15404]	Divided	6076.66	6463.12	1.0636	
1872	dna-binding protein a (cold shock domain protein a) (single-strand dna binding protein nf-gmb). [source:swissprot;acc:p16989]	Subtracted	6682.05	7051.02	368.97	
1872	ras-gtpase-activating protein binding protein 1 (gap sh3-domain binding protein 1) (g3bp-1). [source:swissprot;acc:q13283]	Divided	6076.66	6463.12	1.0636	
1873	40s ribosomal protein s11. [source:swissprot;acc:p04643]	Divided	3618.46	3402.09	1.0636	
1873	germ cell specific y-box binding protein; contrin. [source:refseq;acc:nm_015982]	Subtracted	6682.05	7051.02	368.97	
1874	heat shock protein hsp 90-alpha (hsp 86). [source:swissprot;acc:p07900]	Subtracted	5746.06	6113.79	367.73	
1874	ras-gtpase-activating protein binding protein 2 (gap sh3-domain binding protein 2) (g3bp-2). [source:swissprot;acc:q9un86]	Divided	6076.66	6463.12	1.0636	
1875	atp-dependent clp protease atp-binding subunit clpx-like, mitochondrial precursor. [source:swissprot;acc:o76031]	Subtracted	5106.13	5472.96	366.83	
1875	keratin associated protein 1-3; keratin associated protein 1.3. [source:refseq;acc:nm_030966]	Divided	6076.66	6463.14	1.0636	
1876	dna polymerase delta p38 subunit. [source:refseq;acc:nm_015584]	Subtracted	5106.13	5472.96	366.83	
1876	espin. [source:refseq;acc:nm_031475]	Divided	6076.66	6463.12	1.0636	
1877	cdc42-interacting protein 4 (thyroid receptor interacting protein 10) (trip-10). [source:swissprot;acc:q15642]	Subtracted	5497.73	5132.35	365.38	
1877	cytochrome p450 2d6 (ec 1.14.14.1) (cypiid6) (p450-db1) (debrisoquine 4-hydroxylase). [source:swissprot;acc:p10635]	Divided	6076.66	6463.12	1.0636	
1878	dna-directed rna polymerases iii 12.5 kda polypeptide (ec 2.7.7.6) (rna polymerase iii c11 subunit) (hsc11p) (hrpc11) (my010 protein). [source:swissprot;acc:q9y2y1]	Subtracted	5501.3	5866.02	364.72	
1878	pleckstrin homology domain containing, family c (with ferm domain) member 1; mitogen inducible 2; kindlin 2. [source:refseq;acc:nm_006832]	Divided	6076.66	6463.12	1.0636	
1879	lim and senescent cell antigen-like domains 2; ilk-binding protein. [source:refseq;acc:nm_017980]	Divided	6076.66	6463.12	1.0636	

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/