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

Results: HTML CSV LaTeX

Showing element 1230 to 1279 of 8289 in total

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

Rank	Hugo	description	Interaction Map	red	green	network_comparison
615	HOXB9	homeobox protein hox-b9 (hox-2e) (hox-2.5). [swissprot;acc:p17482]	High confidence	214.257	202.132	1.05999
616	HOXA9	homeobox protein hox-a9 (hox-1g). [swissprot;acc:p31269]
	SURF1	surfeit locus protein 1. [swissprot;acc:q15526]	Low confidence	201.211	195.459	1.02943
617	HOXC9	homeobox protein hox-c9 (hox-3b). [swissprot;acc:p31274]	High confidence	214.257	202.135	1.05997
	ZMPSTE24	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]	Low confidence	203.738	197.913	1.02943
618	GABRG3	gamma-aminobutyric-acid receptor gamma-3 subunit precursor (gaba(a) receptor). [swissprot;acc:q99928]	High confidence	214.256	202.139	1.05994
	SSB	lupus la protein (sjogren syndrome type b antigen) (ss-b) (la ribonucleoprotein) (la autoantigen). [swissprot;acc:p05455]	Low confidence	205.472	199.6	1.02942
619	FOXG1	forkhead box protein g1c (forkhead-related protein fkhl3) (hfk3) (fragment). [swissprot;acc:q14488]	High confidence	214.256	202.139	1.05994
	WDFY3	wd repeat and fyve domain containing 3 isoform 1. [refseq;acc:nm_014991]	Low confidence	205.129	199.271	1.0294
620	no value	sterol regulatory element binding protein-2 (srebp-2) (sterol regulatory element-binding transcription factor 2). [swissprot;acc:q12772]		203.68	197.868	1.02937
	GABRG1	gamma-aminobutyric-acid receptor gamma-1 subunit precursor (gaba(a) receptor). [swissprot;acc:q8n1c3]	High confidence	214.256	202.14	1.05994
621	GABRA2	gamma-aminobutyric-acid receptor alpha-2 subunit precursor (gaba(a) receptor). [swissprot;acc:p47869]
	SREBF1	sterol regulatory element binding protein-1 (srebp-1) (sterol regulatory element-binding transcription factor 1). [swissprot;acc:p36956]	Low confidence	203.68	197.868	1.02937
622	GABRA6	gamma-aminobutyric-acid receptor alpha-6 subunit precursor (gaba(a) receptor). [swissprot;acc:q16445]	High confidence	214.256	202.14	1.05994
	GRB2	growth factor receptor-bound protein 2 (grb2 adapter protein) (sh2/sh3 adapter grb2) (ash protein). [swissprot;acc:p29354]	Low confidence	204.479	198.65	1.02934
623	GABRG2	gamma-aminobutyric-acid receptor gamma-2 subunit precursor (gaba(a) receptor). [swissprot;acc:p18507]	High confidence	214.256	202.14	1.05994
	JARID2	jumonji protein. [swissprot;acc:q92833]	Low confidence	207.726	201.813	1.0293
624	no value	interleukin-1 receptor-associated kinase 4; interleukin-1 receptor associated kinase 4. [refseq;acc:nm_016123]	High confidence	214.256	202.139	1.05994
	NHP2L1	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]	Low confidence	205.16	199.322	1.02929
625	CUL1	cullin homolog 1 (cul-1). [swissprot;acc:q13616]		203.853	198.057	1.02926
	GABRA4	gamma-aminobutyric-acid receptor alpha-4 subunit precursor (gaba(a) receptor). [swissprot;acc:p48169]	High confidence	214.256	202.14	1.05994
626	GABRE	gamma-aminobutyric-acid receptor epsilon subunit precursor (gaba(a) receptor). [swissprot;acc:p78334]
	HIST3H3	histone h3.4 (h3t) (h3/t) (h3/g). [swissprot;acc:q16695]	Low confidence	204.239	198.436	1.02924
627	JMJD6	phosphatidylserine receptor; phosphatidylserine receptor beta. [refseq;acc:nm_015167]	High confidence	214.256	202.139	1.05994
	P4HB	protein disulfide isomerase precursor (pdi) (ec 5.3.4.1) (prolyl 4- hydroxylase beta subunit) (cellular thyroid hormone binding protein) (p55). [swissprot;acc:p07237]	Low confidence	204.369	198.564	1.02923
628	no value	histone h3.1 (h3/a) (h3/c) (h3/d) (h3/f) (h3/h) (h3/i) (h3/j) (h3/k) (h3/l). [swissprot;acc:p16106]		204.234	198.433
	GABRA1	gamma-aminobutyric-acid receptor alpha-1 subunit precursor (gaba(a) receptor). [swissprot;acc:p14867]	High confidence	214.256	202.14	1.05994
629	GABRA3	gamma-aminobutyric-acid receptor alpha-3 subunit precursor (gaba(a) receptor). [swissprot;acc:p34903]
	P4HA1	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]	Low confidence	204.369	198.564	1.02923
630	NDUFA6	nadh-ubiquinone oxidoreductase b14 subunit (ec 1.6.5.3) (ec 1.6.99.3) (complex i-b14) (ci-b14). [swissprot;acc:p56556]	High confidence	214.256	202.141	1.05993
	P4HA2	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]	Low confidence	204.369	198.564	1.02923
631	no value	histone h3.3 (h3.a) (h3.b) (h3.3q). [swissprot;acc:p06351]		204.242	198.448	1.0292
	PDXDC1	similar to expressed sequence aa415817. [sptrembl;acc:q8n4q9]	High confidence	214.256	202.141	1.05993
632	no value	dj1099d15.1 (putative dnaj protein). [sptrembl;acc:q9h4j9]	Low confidence	204.242	198.448	1.0292
	HOXD9	homeobox protein hox-d9 (hox-4c) (hox-5.2). [swissprot;acc:p28356]	High confidence	214.254	202.166	1.05979
633	AARS	alanyl-trna synthetase (ec 6.1.1.7) (alanine--trna ligase) (alars). [swissprot;acc:p49588]		234.106	248.104
	TMBIM1	pp1201 protein. [refseq;acc:nm_022152]	Low confidence	203.734	197.956	1.02919
634	no value	dead-box protein abstrakt homolog. [swissprot;acc:q9ujv9]	High confidence	226.523	213.786	1.05958
	TSC22D4	tsc22-related inducible leucine zipper protein 2 (tsc-22-like protein thg-1). [swissprot;acc:q9y3q8]	Low confidence	203.726	197.955	1.02915
635	BBS7	bardet-biedl syndrome 7 protein isoform a; bbs2-like 1. [refseq;acc:nm_176824]		207.763	201.882	1.02913
	RPL37	60s ribosomal protein l37 (g1.16). [swissprot;acc:p02403]	High confidence	228.639	242.258	1.05957
636	RBM19	probable rna-binding protein kiaa0682. [swissprot;acc:q9y4c8]	Low confidence	206.001	200.193	1.02901
	SFRS1	splicing factor, arginine/serine-rich 1 (pre-mrna splicing factor sf2, p33 subunit) (alternative splicing factor asf-1). [swissprot;acc:q07955]	High confidence	228.639	242.258	1.05957
637	AGPAT3	1-acyl-sn-glycerol-3-phosphate acyltransferase gamma (ec 2.3.1.51) (1- agp acyltransferase 3) (1-agpat 3) (lysophosphatidic acid acyltransferase-gamma) (lpaat-gamma) (1-acylglycerol-3-phosphate o- acyltransferase 3). [swissprot;acc:q9nrz7]	Low confidence	192.166	186.751	1.029
	PPAT	amidophosphoribosyltransferase precursor (ec 2.4.2.14) (glutamine phosphoribosylpyrophosphate amidotransferase) (atase) (gpat). [swissprot;acc:q06203]	High confidence	228.639	242.258	1.05957
638	NUFIP1	nuclear fragile x mental retardation protein interacting protein 1; nuclear fragile x mental retardation intercating protein 1; nuclear fragile x mental retardation protein-interacting protein 1. [refseq;acc:nm_012345]	Low confidence	203.825	198.081	1.029
	SNX17	sorting nexin 17. [swissprot;acc:q15036]	High confidence	228.639	242.258	1.05957
639	HRB	nucleoporin-like protein rip (hiv-1 rev-binding protein) (rev interacting protein) (rev/rex activation domain-binding protein). [swissprot;acc:p52594]		217.67	230.596	1.05938
	N6AMT1	putative n6-dna-methyltransferase (ec 2.1.1.-) (protein pred28) (m.hsahemk2p). [swissprot;acc:q9y5n5]	Low confidence	204.933	199.164	1.02897
640	no value	intersectin 1 (sh3 domain-containing protein 1a) (sh3p17). [swissprot;acc:q15811]	High confidence	217.67	230.596	1.05938

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.