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	Network Comparison Type	Value Type	Interaction Map	Filtered	red	network_comparison	green

Results: HTML CSV LaTeX

Showing element 2451 to 2500 of 16578 in total

Value Type  : Ranked
Filtered  : 1

Rank	Hugo	description	Network Comparison Type	Interaction Map	red	network_comparison	green
613	FAIM2	lifeguard; kiaa0950 protein. [refseq;acc:nm_012306]	Subtracted	Low confidence	203.626	5.846	197.78
	NOL5A	nucleolar protein nop56 (nucleolar protein 5a). [swissprot;acc:o00567]		High confidence	247.769	12.695	235.074
614	BCAR3	breast cancer antiestrogen resistance 3. [refseq;acc:nm_003567]		Low confidence	201.427	5.84	195.587
	CCNA1	cyclin a1. [swissprot;acc:p78396]	Divided		187.808	1.02954	182.419
	HOXA10	homeobox protein hox-a10 (hox-1h) (hox-1.8) (pl). [swissprot;acc:p31260]		High confidence	214.257	1.06002	202.125
	YARS	tyrosyl-trna synthetase (ec 6.1.1.1) (tyrosyl--trna ligase) (tyrrs). [swissprot;acc:p54577]	Subtracted		232.468	12.58	245.048
615	ARPC2	arp2/3 complex 34 kda subunit (p34-arc) (actin-related protein 2/3 complex subunit 2). [swissprot;acc:o15144]	Divided	Low confidence	203.495	1.02952	197.661
	HOXB9	homeobox protein hox-b9 (hox-2e) (hox-2.5). [swissprot;acc:p17482]		High confidence	214.257	1.05999	202.132
	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]	Subtracted	Low confidence	205.16	5.838	199.322
	POLE	dna polymerase epsilon, catalytic subunit a (ec 2.7.7.7) (dna polymerase ii subunit a). [swissprot;acc:q07864]		High confidence	241.907	12.557	229.35
616	ARPC2	arp2/3 complex 34 kda subunit (p34-arc) (actin-related protein 2/3 complex subunit 2). [swissprot;acc:o15144]		Low confidence	203.495	5.834	197.661
	CPA3	mast cell carboxypeptidase a precursor (ec 3.4.17.1) (mc-cpa) (carboxypeptidase a3). [swissprot;acc:p15088]		High confidence	177.698	12.542	190.24
	HOXA9	homeobox protein hox-a9 (hox-1g). [swissprot;acc:p31269]	Divided		214.257	1.05999	202.132
	SURF1	surfeit locus protein 1. [swissprot;acc:q15526]		Low confidence	201.211	1.02943	195.459
617	CPA6	carboxypeptidase b precursor. [refseq;acc:nm_020361]	Subtracted	High confidence	177.698	12.541	190.239
	HOXC9	homeobox protein hox-c9 (hox-3b). [swissprot;acc:p31274]	Divided		214.257	1.05997	202.135
	MEGF6	megf6 (fragment). [sptrembl;acc:o75095]	Subtracted	Low confidence	207.235	5.833	201.402
	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]	Divided		203.738	1.02943	197.913
618	CPB2	plasma carboxypeptidase b2 isoform a preproprotein; carboxypeptidase u; thrombin-activatable fibrinolysis inhibitor; carboxypeptidase b-like protein; thrombin-activable fibrinolysis inhibitor. [refseq;acc:nm_001872]	Subtracted	High confidence	177.699	12.541	190.24
	GABRG3	gamma-aminobutyric-acid receptor gamma-3 subunit precursor (gaba(a) receptor). [swissprot;acc:q99928]	Divided		214.256	1.05994	202.139
	GRB2	growth factor receptor-bound protein 2 (grb2 adapter protein) (sh2/sh3 adapter grb2) (ash protein). [swissprot;acc:p29354]	Subtracted	Low confidence	204.479	5.829	198.65
	SSB	lupus la protein (sjogren syndrome type b antigen) (ss-b) (la ribonucleoprotein) (la autoantigen). [swissprot;acc:p05455]	Divided		205.472	1.02942	199.6
619	FOXG1	forkhead box protein g1c (forkhead-related protein fkhl3) (hfk3) (fragment). [swissprot;acc:q14488]		High confidence	214.256	1.05994	202.139
	VPS39	vam6/vps39-like protein (hvam6p). [swissprot;acc:q96jc1]	Subtracted		206.274	12.518	218.792
	WDFY3	wd repeat and fyve domain containing 3 isoform 1. [refseq;acc:nm_014991]	Divided	Low confidence	205.129	1.0294	199.271
	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]	Subtracted		203.738	5.825	197.913
620	no value	sterol regulatory element binding protein-2 (srebp-2) (sterol regulatory element-binding transcription factor 2). [swissprot;acc:q12772]	Divided		203.68	1.02937	197.868
			Subtracted			5.812
	GABRG1	gamma-aminobutyric-acid receptor gamma-1 subunit precursor (gaba(a) receptor). [swissprot;acc:q8n1c3]	Divided	High confidence	214.256	1.05994	202.14
	MAP4	microtubule-associated protein 4 (map 4). [swissprot;acc:p27816]	Subtracted		206.274	12.518	218.792
621	GABRA2	gamma-aminobutyric-acid receptor alpha-2 subunit precursor (gaba(a) receptor). [swissprot;acc:p47869]	Divided		214.256	1.05994	202.14
	RPLP2	60s acidic ribosomal protein p2. [swissprot;acc:p05387]	Subtracted		231.92	12.515	244.435
	SREBF1	sterol regulatory element binding protein-1 (srebp-1) (sterol regulatory element-binding transcription factor 1). [swissprot;acc:p36956]	Divided	Low confidence	203.68	1.02937	197.868
			Subtracted			5.812
622	GABRA6	gamma-aminobutyric-acid receptor alpha-6 subunit precursor (gaba(a) receptor). [swissprot;acc:q16445]	Divided	High confidence	214.256	1.05994	202.14
	GRB2	growth factor receptor-bound protein 2 (grb2 adapter protein) (sh2/sh3 adapter grb2) (ash protein). [swissprot;acc:p29354]		Low confidence	204.479	1.02934	198.65
	RBM19	probable rna-binding protein kiaa0682. [swissprot;acc:q9y4c8]	Subtracted		206.001	5.808	200.193
	SYN3	synapsin iii. [swissprot;acc:o14994]		High confidence	229.072	12.496	216.576
623	no value	aspartate beta-hydroxylase isoform b; junctin isoform 1; junctate; aspartyl/asparaginyl-beta-hydroxylase; peptide-aspartate beta-dioxygenase; humbug. [refseq;acc:nm_032468]
	GABRG2	gamma-aminobutyric-acid receptor gamma-2 subunit precursor (gaba(a) receptor). [swissprot;acc:p18507]	Divided		214.256	1.05994	202.14
	JARID2	jumonji protein. [swissprot;acc:q92833]		Low confidence	207.726	1.0293	201.813
	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]	Subtracted		204.369	5.805	198.564
624	no value	interleukin-1 receptor-associated kinase 4; interleukin-1 receptor associated kinase 4. [refseq;acc:nm_016123]	Divided	High confidence	214.256	1.05994	202.139
	HEY1	hairy/enhancer-of-split related with yrpw motif 1 (hairy and enhancer of split related-1) (hesr-1) (cardiovascular helix-loop-helix factor 2) (hes-related repressor protein 2 herp2). [swissprot;acc:q9y5j3]	Subtracted		229.072	12.496	216.576
	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]	Divided	Low confidence	205.16	1.02929	199.322
	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]	Subtracted		204.369	5.805	198.564
625	ABLIM2	actin binding lim protein 2. [refseq;acc:nm_032432]		High confidence	229.072	12.496	216.576
	CUL1	cullin homolog 1 (cul-1). [swissprot;acc:q13616]	Divided	Low confidence	203.853	1.02926	198.057
	GABRA4	gamma-aminobutyric-acid receptor alpha-4 subunit precursor (gaba(a) receptor). [swissprot;acc:p48169]		High confidence	214.256	1.05994	202.14
	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]	Subtracted	Low confidence	204.369	5.805	198.564

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.