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	Filtered	red	network_comparison	green

Results: HTML CSV LaTeX

Showing element 2008 to 2057 of 16578 in total

Value Type  : Ranked
Filtered  : 1

Rank	description	Hugo	Network Comparison Type	Interaction Map	red	network_comparison	green
502	t-cell leukemia homeobox protein 1 (homeobox protein hox-11) (tcl-3 proto-oncogene). [swissprot;acc:p31314]	TLX1	Subtracted	High confidence	237.28	15.212	252.492
503	hect domain containing protein 1 (fragment). [swissprot;acc:q9ult8]	HECTD1
	putative fork head domain transcription factor afx1 (forkhead box protein o4). [swissprot;acc:p98177]	FOXO4		Low confidence	205.157	6.442	198.715
	senescence marker protein-30 (smp-30) (regucalcin) (rc). [swissprot;acc:q15493]	RGN	Divided	High confidence	238.704	1.07112	255.68
	ubiquitin carboxyl-terminal hydrolase 22 (ec 3.1.2.15) (ubiquitin thiolesterase 22) (ubiquitin-specific processing protease 22) (deubiquitinating enzyme 22) (fragment). [swissprot;acc:q9upt9]	USP22		Low confidence	207.407	1.03255	200.869
504	hemoglobin gamma-a and gamma-g chains. [swissprot;acc:p02096]	no value	Subtracted		205.157	6.442	198.715
	homeobox protein barh-like 2. [swissprot;acc:q9umq3]	BARX2		High confidence	237.28	15.212	252.492
	oligophrenin 1. [swissprot;acc:o60890]	OPHN1	Divided		238.704	1.07112	255.68
	zinc finger protein 183. [swissprot;acc:o15541]	RNF113A		Low confidence	205.192	1.03254	198.726
505	ad24 protein. [refseq;acc:nm_022451]	NOC3L		High confidence	251.334	1.071	234.672
	amyloid beta a4 protein precursor (app) (abpp) (alzheimer's disease amyloid protein) (cerebral vascular amyloid peptide) (cvap) (protease nexin-ii) (pn-ii) (appi) (prea4) [contains: soluble app-alpha (s-app- alpha); soluble app-beta (s-app-beta); c99; beta-amyloid protein 42 (beta-app42); beta-amyloid protein 40 (beta-app40); c83; p3(42); p3(40); gamma-ctf(59) (gamma-secretase c-terminal fragment 59) (amyloid intracellular domain 59) (aid(59)); gamma-ctf(57) (gamma- secretase c-terminal fragment 57) (amyloid intracellular domain 57) (aid(57)); gamma-ctf(50) (gamma-secretase c-terminal fragment 50) (amyloid intracellular domain 50) (aid(50)); c31]. [swissprot;acc:p05067]	APP	Subtracted	Low confidence	205.157	6.442	198.715
	proliferating cell nuclear antigen (pcna) (cyclin). [swissprot;acc:p12004]	PCNA	Divided		207.84	1.0325	201.297
	zinc finger protein t86. [swissprot;acc:o00488]	ZNF593	Subtracted	High confidence	246.805	15.009	231.796
506	exosome complex exonuclease rrp41 (ec 3.1.13.-) (ribosomal rna processing protein 41) (p12a). [swissprot;acc:q9npd3]	EXOSC4			215.237	14.833	230.07
	inhibitor of growth family, member 1; inhibitor of growth 1. [refseq;acc:nm_005537]	ING1	Divided		224.535	1.071	240.476
	putative fork head domain transcription factor afx1 (forkhead box protein o4). [swissprot;acc:p98177]	FOXO4		Low confidence	205.157	1.03242	198.715
	tweety homolog 2. [refseq;acc:nm_032646]	TTYH2	Subtracted			6.442
507	exosome complex exonuclease rrp4 (ec 3.1.13.-) (ribosomal rna processing protein 4). [swissprot;acc:q13868]	EXOSC2		High confidence	215.237	14.833	230.07
	hemoglobin gamma-a and gamma-g chains. [swissprot;acc:p02096]	no value	Divided	Low confidence	205.157	1.03242	198.715
	hemoglobin zeta chain (hbaz). [swissprot;acc:p02008]	HBZ	Subtracted			6.442
	wd-repeat protein 12 (ytm1 homolog). [swissprot;acc:q9gzl7]	WDR12	Divided	High confidence	251.299	1.07059	234.729
508	alpha 2 globin. [refseq;acc:nm_000517]	no value	Subtracted	Low confidence	205.157	6.442	198.715
	amyloid beta a4 protein precursor (app) (abpp) (alzheimer's disease amyloid protein) (cerebral vascular amyloid peptide) (cvap) (protease nexin-ii) (pn-ii) (appi) (prea4) [contains: soluble app-alpha (s-app- alpha); soluble app-beta (s-app-beta); c99; beta-amyloid protein 42 (beta-app42); beta-amyloid protein 40 (beta-app40); c83; p3(42); p3(40); gamma-ctf(59) (gamma-secretase c-terminal fragment 59) (amyloid intracellular domain 59) (aid(59)); gamma-ctf(57) (gamma- secretase c-terminal fragment 57) (amyloid intracellular domain 57) (aid(57)); gamma-ctf(50) (gamma-secretase c-terminal fragment 50) (amyloid intracellular domain 50) (aid(50)); c31]. [swissprot;acc:p05067]	APP	Divided			1.03242
	mast cell carboxypeptidase a precursor (ec 3.4.17.1) (mc-cpa) (carboxypeptidase a3). [swissprot;acc:p15088]	CPA3		High confidence	177.698	1.07058	190.24
	u6 snrna-associated sm-like protein lsm8. [swissprot;acc:o95777]	LSM8	Subtracted		228.255	14.833	213.422
509	amyloid-like protein 1 precursor (aplp) (aplp-1) [contains: c30]. [swissprot;acc:p51693]	APLP1		Low confidence	205.157	6.442	198.715
	carboxypeptidase b precursor. [refseq;acc:nm_020361]	CPA6	Divided	High confidence	177.698	1.07057	190.239
	exosome complex exonuclease rrp40 (ec 3.1.13.-) (ribosomal rna processing protein 40) (p10) (cgi-102). [swissprot;acc:q9nqt5]	EXOSC3	Subtracted		215.237	14.833	230.07
	tweety homolog 2. [refseq;acc:nm_032646]	TTYH2	Divided	Low confidence	205.157	1.03242	198.715
510	exosome complex exonuclease rrp46 (ec 3.1.13.-) (ribosomal rna processing protein 46) (p12b) (chronic myelogenous leukemia tumor antigen 28). [swissprot;acc:q9nqt4]	EXOSC5	Subtracted	High confidence	215.237	14.833	230.07
	hemoglobin zeta chain (hbaz). [swissprot;acc:p02008]	HBZ	Divided	Low confidence	205.157	1.03242	198.715
	myoglobin. [swissprot;acc:p02144]	no value	Subtracted			6.442
	plasma carboxypeptidase b2 isoform a preproprotein; carboxypeptidase u; thrombin-activatable fibrinolysis inhibitor; carboxypeptidase b-like protein; thrombin-activable fibrinolysis inhibitor. [refseq;acc:nm_001872]	CPB2	Divided	High confidence	177.699	1.07057	190.24
511	alpha 2 globin. [refseq;acc:nm_000517]	no value		Low confidence	205.157	1.03242	198.715
	hemoglobin theta-1 chain. [swissprot;acc:p09105]	HBQ1	Subtracted			6.442
	proliferating-cell nucleolar antigen p120 (proliferation-associated nucleolar protein p120). [swissprot;acc:p46087]	NOL1	Divided	High confidence	250.053	1.06986	233.725
	sqv-7-like protein (fragment). [sptrembl;acc:o95454]	SLC35D2	Subtracted		214.754	14.811	229.565
512	amyloid-like protein 1 precursor (aplp) (aplp-1) [contains: c30]. [swissprot;acc:p51693]	APLP1	Divided	Low confidence	205.157	1.03242	198.715
	block of proliferation 1. [swissprot;acc:q14137]	BOP1		High confidence	250.794	1.06979	234.433
	putative pre-mrna splicing factor rna helicase (deah box protein 15) (atp-dependent rna helicase #46). [swissprot;acc:o43143]	DHX15	Subtracted		229.803	14.502	215.301
	tweety homolog 1; tweety homolog. [refseq;acc:nm_020659]	TTYH1		Low confidence	205.156	6.441	198.715
513	cytoglobin (histoglobin) (hgb) (stellate cell activation-associated protein). [swissprot;acc:q8wwm9]	CYGB
	myoglobin. [swissprot;acc:p02144]	no value	Divided		205.157	1.03242
	segment polarity protein dishevelled homolog dvl-1 (dishevelled-1) (dsh homolog 1). [swissprot;acc:o14640]	DVL1		High confidence	218.596	1.06975	204.344
	u6 snrna-associated sm-like protein lsm6 (sm protein f). [swissprot;acc:q9y4y8]	LSM6	Subtracted		227.483	14.489	212.994
514	forkhead box protein o3a (forkhead in rhabdomyosarcoma-like 1) (af6q21 protein). [swissprot;acc:o43524]	FOXO3		Low confidence	205.156	6.441	198.715
	hemoglobin theta-1 chain. [swissprot;acc:p09105]	HBQ1	Divided		205.157	1.03242
	pleiotropic regulator 1 (prl1homolog, arabidopsis); pleiotropic regulator 1 (prl1, arabidopsis homolog). [refseq;acc:nm_002669]	PLRG1	Subtracted	High confidence	222.893	14.37	208.523
	segment polarity protein dishevelled homolog dvl-2 (dishevelled-2) (dsh homolog 2). [swissprot;acc:o14641]	DVL2	Divided		218.613	1.06963	204.382
515	amyloid-like protein 2 precursor (amyloid protein homolog) (apph) (cdei-box binding protein) (cdebp). [swissprot;acc:q06481]	APLP2	Subtracted	Low confidence	205.156	6.441	198.715

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.