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

Navigation/Query Panel:
Click on the attribute name to hide/unhide it. The green arrows can be used to shift columns left/right. Exact word match is written as =..., regular expressions can be matched with ~.... To select all values larger or equal than use >.... This would be <... for values smaller or equal than. To select all values within a specific range use [...,...].

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

Results: HTML CSV LaTeX

Showing element 2964 to 3013 of 6456 in total

Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1

Rank	Hugo	description	Network Comparison Type	red	green	network_comparison
1482	LSAMP	limbic system-associated membrane protein precursor (lsamp). [swissprot;acc:q13449]	Divided	224.354	220.15	1.0191
1483	PDHB	pyruvate dehydrogenase e1 component beta subunit, mitochondrial precursor (ec 1.2.4.1) (pdhe1-b). [swissprot;acc:p11177]		198.927	202.726
	RBM10	rna-binding protein 10 (rna binding motif protein 10) (dxs8237e). [swissprot;acc:p98175]	Subtracted	228.419	232.376	3.957
1484	CYCS	cytochrome c. [swissprot;acc:p00001]
	TMEM91	2-oxoisovalerate dehydrogenase alpha subunit, mitochondrial precursor (ec 1.2.4.4) (branched-chain alpha-keto acid dehydrogenase e1 component alpha chain) (bckdh e1-alpha). [swissprot;acc:p12694]	Divided	198.927	202.726	1.0191
1485	HS6ST2	heparan sulfate 6-o-sulfotransferase 2. [refseq;acc:nm_147174]	Subtracted	228.419	232.376	3.957
	RBPJ	j kappa-recombination signal binding protein (rbp-j kappa). [swissprot;acc:q06330]	Divided	207.877	203.989	1.01906
1486	HIVEP3	human immunodeficiency virus type i enhancer binding protein 3. [refseq;acc:nm_024503]
	HS6ST1	heparan sulfate 6-o-sulfotransferase; heparan-sulfate 6-sulfotransferase. [refseq;acc:nm_004807]	Subtracted	228.419	232.376	3.957
1487	FA2H	fatty acid hydroxylase domain containing 1. [refseq;acc:nm_024306]
	HIVEP1	zinc finger protein 40 (human immunodeficiency virus type i enhancer- binding protein 1) (hiv-ep1) (major histocompatibility complex binding protein 1) (mbp-1) (positive regulatory domain ii binding factor 1) (prdii-bf1). [swissprot;acc:p15822]	Divided	207.877	203.989	1.01906
1488	HIVEP2	human immunodeficiency virus type i enhancer-binding protein 2 (hiv-ep2). [swissprot;acc:p31629]
	WBP11	ww domain binding protein 11; npw38-binding protein npwbp; sh3 domain-binding protein snp70. [refseq;acc:nm_016312]	Subtracted	228.419	232.376	3.957
1489	ELAC2	elac homolog 2; putative prostate cancer susceptibility protein; elac (e. coli) homolog 2. [refseq;acc:nm_018127]
	MAP3K7	mitogen-activated protein kinase kinase kinase 7 (ec 2.7.1.-) (transforming growth factor-beta-activated kinase 1) (tgf-beta- activated kinase 1). [swissprot;acc:o43318]	Divided	213.251	209.264	1.01905
1490	PTRH2	protein cgi-147. [swissprot;acc:q9y3e5]		221.961	226.186	1.01903
	RBM5	rna-binding protein 5 (rna binding motif protein 5) (putative tumor suppressor luca15) (g15 protein). [swissprot;acc:p52756]	Subtracted	228.419	232.376	3.957
1491	GPI	glucose-6-phosphate isomerase (ec 5.3.1.9) (gpi) (phosphoglucose isomerase) (pgi) (phosphohexose isomerase) (phi) (neuroleukin) (nlk) (sperm antigen-36) (sa-36). [swissprot;acc:p06744]	Divided	217.704	221.839	1.01899
	PAPOLA	poly(a) polymerase alpha (ec 2.7.7.19) (pap) (polynucleotide adenylyltransferase alpha) (fragment). [swissprot;acc:p51003]	Subtracted	116.71	120.654	3.944
1492	EXOC2	exocyst complex component sec5. [swissprot;acc:q96kp1]		116.771	120.707	3.936
	OPCML	opioid binding protein/cell adhesion molecule precursor (obcam) (opioid-binding cell adhesion molecule) (opcml). [swissprot;acc:q14982]	Divided	224.159	220.017	1.01883
1493	no value	uridine kinase-like 1. [swissprot;acc:q9nwz5]	Subtracted	218.084	214.149	3.935
	PDHA2	pyruvate dehydrogenase e1 component alpha subunit, testis-specific form, mitochondrial precursor (ec 1.2.4.1) (pdhe1-a type ii). [swissprot;acc:p29803]	Divided	204.146	207.988	1.01882
1494	PAPOLG	poly(a) polymerase gamma (ec 2.7.7.19) (pap gamma) (polynucleotide adenylyltransferase gamma) (srp rna 3' adenylating enzyme). [swissprot;acc:q9bwt3]	Subtracted	116.845	120.772	3.927
	PDHA1	pyruvate dehydrogenase e1 component alpha subunit, somatic form, mitochondrial precursor (ec 1.2.4.1) (pdhe1-a type i). [swissprot;acc:p08559]	Divided	204.133	207.967	1.01878
1495	CDC23	cell division cycle protein 23; anaphase-promoting complex subunit 8. [refseq;acc:nm_004661]	Subtracted	208.432	204.516	3.916
	CSNK1A1L	casein kinase i alpha s-like. [refseq;acc:nm_145203]	Divided	229.459	225.237	1.01874
1496	CSNK1A1	casein kinase i, alpha isoform (ec 2.7.1.-) (cki-alpha) (ck1). [swissprot;acc:p48729]
	KIFC3	kinesin family member c3. [refseq;acc:nm_005550]	Subtracted	214.727	210.838	3.889
1497	RBPJ	j kappa-recombination signal binding protein (rbp-j kappa). [swissprot;acc:q06330]		207.877	203.989	3.888
	XPO1	exportin 1; exportin-1 (required for chromosome region maintenance); exportin 1 (crm1, yeast, homolog); crm1, yeast, homolog. [refseq;acc:nm_003400]	Divided	224.476	220.363	1.01866
1498	no value	neurotrimin precursor (hnt). [swissprot;acc:q9p121]		224.022	219.924	1.01863
	HIVEP3	human immunodeficiency virus type i enhancer binding protein 3. [refseq;acc:nm_024503]	Subtracted	207.877	203.989	3.888
1499	DCP1A	transcription factor smif; decapping enzyme hdcp1a. [refseq;acc:nm_018403]	Divided	224.509	220.411	1.01859
	HIVEP1	zinc finger protein 40 (human immunodeficiency virus type i enhancer- binding protein 1) (hiv-ep1) (major histocompatibility complex binding protein 1) (mbp-1) (positive regulatory domain ii binding factor 1) (prdii-bf1). [swissprot;acc:p15822]	Subtracted	207.877	203.989	3.888
1500	COPS4	cop9 complex subunit 4; likely ortholog of mouse cop9 (constitutive photomorphogenic), subunit 4 (arabidopsis); cop9 (constitutive photomorphogenic, arabidopsis, homolog) subunit 4. [refseq;acc:nm_016129]	Divided	213.398	209.52	1.01851
	HIVEP2	human immunodeficiency virus type i enhancer-binding protein 2 (hiv-ep2). [swissprot;acc:p31629]	Subtracted	207.877	203.989	3.888
1501	COPS4	cop9 complex subunit 4; likely ortholog of mouse cop9 (constitutive photomorphogenic), subunit 4 (arabidopsis); cop9 (constitutive photomorphogenic, arabidopsis, homolog) subunit 4. [refseq;acc:nm_016129]		213.398	209.52	3.878
	KIFC3	kinesin family member c3. [refseq;acc:nm_005550]	Divided	214.727	210.838	1.01845
1502	no value	uridine kinase-like 1. [swissprot;acc:q9nwz5]		218.084	214.149	1.01838
	MPI	mannose-6-phosphate isomerase (ec 5.3.1.8) (phosphomannose isomerase) (pmi) (phosphohexomutase). [swissprot;acc:p34949]	Subtracted	219.306	223.179	3.873
1503	no value	putative ankyrin-repeat containing protein. [refseq;acc:nm_025185]
	KRR1	hiv-1 rev binding protein 2; rev interacting protein. [refseq;acc:nm_007043]	Divided	242.181	237.834	1.01828
1504	CDC25C	m-phase inducer phosphatase 3 (ec 3.1.3.48) (dual specificity phosphatase cdc25c). [swissprot;acc:p30307]		259.439	254.797	1.01822
	STARD3	mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [swissprot;acc:q14849]	Subtracted	219.306	223.179	3.873
1505	CCDC53	protein ad-016 (protein cgi-116) (x0009). [swissprot;acc:q9y3c0]	Divided	216.158	212.316	1.0181
	FAT2	protocadherin fat 2 precursor (hfat2) (multiple epidermal growth factor-like domains 1). [swissprot;acc:q9nyq8]	Subtracted	219.306	223.179	3.873
1506	C16orf42	c316g12.2 (novel protein similar to predicted yeast, worm and archae- bacterial proteins) (similar to und313) (s. cervisiae) (hypothetical protein). [sptrembl;acc:q9ujk0]	Divided	212.103	208.339	1.01807
	FAT	cadherin-related tumor suppressor homolog precursor (fat protein homolog). [swissprot;acc:q14517]	Subtracted	219.306	223.179	3.873
1507	PDK1	[pyruvate dehydrogenase [lipoamide]] kinase isozyme 1, mitochondrial precursor (ec 2.7.1.99) (pyruvate dehydrogenase kinase isoform 1). [swissprot;acc:q15118]	Divided	213.274	209.5	1.01801

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.