MK5 Microarray Data

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.

Proteome Analysis

Below the proteome analysis is presented. The analysis methods are presented in the paper Propagating Differential Gene Expression in Protein Interaction Networks. If you are interested in the most reliable results choose the

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Rank	Gene	description	Hugo	Value Type	Network Comparison Type	Interaction Map	red	Filtered	green	network_comparison

Results: HTML CSV LaTeX

Showing element 1212 to 1261 of 8289 in total

Value Type  : Ranked
Network Comparison Type  : Divided
Filtered  : 1

Rank	description	Hugo	Interaction Map	red	green	network_comparison
606	histone h2b.q (h2b/q) (h2b-gl105). [swissprot;acc:q16778]	HIST2H2BA	High confidence	247.47	233.441	1.0601
607	histone h3.1 (h3/a) (h3/c) (h3/d) (h3/f) (h3/h) (h3/i) (h3/j) (h3/k) (h3/l). [swissprot;acc:p16106]	no value
	probable rna-dependent helicase p68 (dead-box protein p68) (dead-box protein 5). [swissprot;acc:p17844]	DDX5	Low confidence	204.832	198.916	1.02974
608	ba161i19.3 (similar to ribosomal protein l36). [sptrembl;acc:q8wx03]	no value		205.117	211.213	1.02972
	histone h2b. [refseq;acc:nm_175055]		High confidence	247.47	233.441	1.0601
609	histone h2b.s (h2b/s). [swissprot;acc:p57053]
	tumor protein p73-like; tumor protein 63 kda with strong homology to p53; tumor protein p63. [refseq;acc:nm_003722]	TP63	Low confidence	191.867	186.346	1.02963
610	histone h2b.d (h2b/d). [swissprot;acc:q99877]	no value	High confidence	247.47	233.441	1.0601
	tumor protein p73 (p53-like transcription factor) (p53-related protein). [swissprot;acc:o15350]	TP73	Low confidence	191.871	186.351	1.02962
611	cellular tumor antigen p53 (tumor suppressor p53) (phosphoprotein p53) (antigen ny-co-13). [swissprot;acc:p04637]	TP53		191.875	186.357	1.02961
	histone h3.4 (h3t) (h3/t) (h3/g). [swissprot;acc:q16695]	HIST3H3	High confidence	247.47	233.441	1.0601
612	protein disulfide isomerase a4 precursor (ec 5.3.4.1) (protein erp-72) (erp72). [swissprot;acc:p13667]	PDIA4	Low confidence	204.388	198.518	1.02957
	testis-specific histone h2b; h2b histone family, member u, (testis-specific). [refseq;acc:nm_170610]	HIST1H2BA	High confidence	247.47	233.441	1.0601
613	histone h2b.e (h2b/e). [swissprot;acc:q99879]	no value
	lifeguard; kiaa0950 protein. [refseq;acc:nm_012306]	FAIM2	Low confidence	203.626	197.78	1.02956
614	cyclin a1. [swissprot;acc:p78396]	CCNA1		187.808	182.419	1.02954
	homeobox protein hox-a10 (hox-1h) (hox-1.8) (pl). [swissprot;acc:p31260]	HOXA10	High confidence	214.257	202.125	1.06002
615	arp2/3 complex 34 kda subunit (p34-arc) (actin-related protein 2/3 complex subunit 2). [swissprot;acc:o15144]	ARPC2	Low confidence	203.495	197.661	1.02952
	homeobox protein hox-b9 (hox-2e) (hox-2.5). [swissprot;acc:p17482]	HOXB9	High confidence	214.257	202.132	1.05999
616	homeobox protein hox-a9 (hox-1g). [swissprot;acc:p31269]	HOXA9
	surfeit locus protein 1. [swissprot;acc:q15526]	SURF1	Low confidence	201.211	195.459	1.02943
617	caax prenyl protease 1 homolog (ec 3.4.24.-) (prenyl protein-specific endoprotease 1) (farnesylated-proteins converting enzyme 1) (face-1) (zinc metalloproteinase ste24 homolog). [swissprot;acc:o75844]	ZMPSTE24		203.738	197.913
	homeobox protein hox-c9 (hox-3b). [swissprot;acc:p31274]	HOXC9	High confidence	214.257	202.135	1.05997
618	gamma-aminobutyric-acid receptor gamma-3 subunit precursor (gaba(a) receptor). [swissprot;acc:q99928]	GABRG3		214.256	202.139	1.05994
	lupus la protein (sjogren syndrome type b antigen) (ss-b) (la ribonucleoprotein) (la autoantigen). [swissprot;acc:p05455]	SSB	Low confidence	205.472	199.6	1.02942
619	forkhead box protein g1c (forkhead-related protein fkhl3) (hfk3) (fragment). [swissprot;acc:q14488]	FOXG1	High confidence	214.256	202.139	1.05994
	wd repeat and fyve domain containing 3 isoform 1. [refseq;acc:nm_014991]	WDFY3	Low confidence	205.129	199.271	1.0294
620	gamma-aminobutyric-acid receptor gamma-1 subunit precursor (gaba(a) receptor). [swissprot;acc:q8n1c3]	GABRG1	High confidence	214.256	202.14	1.05994
	sterol regulatory element binding protein-2 (srebp-2) (sterol regulatory element-binding transcription factor 2). [swissprot;acc:q12772]	no value	Low confidence	203.68	197.868	1.02937
621	gamma-aminobutyric-acid receptor alpha-2 subunit precursor (gaba(a) receptor). [swissprot;acc:p47869]	GABRA2	High confidence	214.256	202.14	1.05994
	sterol regulatory element binding protein-1 (srebp-1) (sterol regulatory element-binding transcription factor 1). [swissprot;acc:p36956]	SREBF1	Low confidence	203.68	197.868	1.02937
622	gamma-aminobutyric-acid receptor alpha-6 subunit precursor (gaba(a) receptor). [swissprot;acc:q16445]	GABRA6	High confidence	214.256	202.14	1.05994
	growth factor receptor-bound protein 2 (grb2 adapter protein) (sh2/sh3 adapter grb2) (ash protein). [swissprot;acc:p29354]	GRB2	Low confidence	204.479	198.65	1.02934
623	gamma-aminobutyric-acid receptor gamma-2 subunit precursor (gaba(a) receptor). [swissprot;acc:p18507]	GABRG2	High confidence	214.256	202.14	1.05994
	jumonji protein. [swissprot;acc:q92833]	JARID2	Low confidence	207.726	201.813	1.0293
624	interleukin-1 receptor-associated kinase 4; interleukin-1 receptor associated kinase 4. [refseq;acc:nm_016123]	no value	High confidence	214.256	202.139	1.05994
	nhp2-like protein 1 (high mobility group-like nuclear protein 2 homolog 1) ([u4/u6.u5] tri-snrnp 15.5 kda protein) (otk27). [swissprot;acc:p55769]	NHP2L1	Low confidence	205.16	199.322	1.02929
625	cullin homolog 1 (cul-1). [swissprot;acc:q13616]	CUL1		203.853	198.057	1.02926
	gamma-aminobutyric-acid receptor alpha-4 subunit precursor (gaba(a) receptor). [swissprot;acc:p48169]	GABRA4	High confidence	214.256	202.14	1.05994
626	gamma-aminobutyric-acid receptor epsilon subunit precursor (gaba(a) receptor). [swissprot;acc:p78334]	GABRE
	histone h3.4 (h3t) (h3/t) (h3/g). [swissprot;acc:q16695]	HIST3H3	Low confidence	204.239	198.436	1.02924
627	phosphatidylserine receptor; phosphatidylserine receptor beta. [refseq;acc:nm_015167]	JMJD6	High confidence	214.256	202.139	1.05994
	protein disulfide isomerase precursor (pdi) (ec 5.3.4.1) (prolyl 4- hydroxylase beta subunit) (cellular thyroid hormone binding protein) (p55). [swissprot;acc:p07237]	P4HB	Low confidence	204.369	198.564	1.02923
628	gamma-aminobutyric-acid receptor alpha-1 subunit precursor (gaba(a) receptor). [swissprot;acc:p14867]	GABRA1	High confidence	214.256	202.14	1.05994
	histone h3.1 (h3/a) (h3/c) (h3/d) (h3/f) (h3/h) (h3/i) (h3/j) (h3/k) (h3/l). [swissprot;acc:p16106]	no value	Low confidence	204.234	198.433	1.02923
629	gamma-aminobutyric-acid receptor alpha-3 subunit precursor (gaba(a) receptor). [swissprot;acc:p34903]	GABRA3	High confidence	214.256	202.14	1.05994
	prolyl 4-hydroxylase alpha-1 subunit precursor (ec 1.14.11.2) (4-ph alpha-1) (procollagen-proline,2-oxoglutarate-4-dioxygenase alpha-1 subunit). [swissprot;acc:p13674]	P4HA1	Low confidence	204.369	198.564	1.02923
630	nadh-ubiquinone oxidoreductase b14 subunit (ec 1.6.5.3) (ec 1.6.99.3) (complex i-b14) (ci-b14). [swissprot;acc:p56556]	NDUFA6	High confidence	214.256	202.141	1.05993
	prolyl 4-hydroxylase alpha-2 subunit precursor (ec 1.14.11.2) (4-ph alpha-2) (procollagen-proline,2-oxoglutarate-4-dioxygenase alpha-2 subunit). [swissprot;acc:o15460]	P4HA2	Low confidence	204.369	198.564	1.02923
631	histone h3.3 (h3.a) (h3.b) (h3.3q). [swissprot;acc:p06351]	no value		204.242	198.448	1.0292

Legend:
- Rank is the rank after comparing the two networks
- Gene is the ensembl human gene identifier measured by 1 or more probes on the microarray
- Hugo is the HGNC identifier if it exists
- 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.