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 3101 to 3150 of 6456 in total

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

Rank	Hugo	description	Network Comparison Type	red	green	network_comparison
1551	no value	ba508n22.1 (hspc025) (fragment). [sptrembl;acc:q9hcw5]	Subtracted	221.128	224.767	3.639
	SLC25A4	adp,atp carrier protein, heart/skeletal muscle isoform t1 (adp/atp translocase 1) (adenine nucleotide translocator 1) (ant 1). [swissprot;acc:p12235]	Divided	225.159	221.424	1.01687
1552	no value	lipopolysaccharide-responsive and beige-like anchor protein (cdc4-like protein) (beige-like protein). [swissprot;acc:p50851]	Subtracted	221.128	224.767	3.639
	SLC25A5	adp,atp carrier protein, fibroblast isoform (adp/atp translocase 2) (adenine nucleotide translocator 2) (ant 2). [swissprot;acc:p05141]	Divided	225.159	221.424	1.01687
1553	AHCY	adenosylhomocysteinase (ec 3.3.1.1) (s-adenosyl-l-homocysteine hydrolase) (adohcyase). [swissprot;acc:p23526]		215.389	211.833	1.01679
	SLMO2	protein c20orf45 (cgi-107). [swissprot;acc:q9y3b1]	Subtracted	221.128	224.767	3.639
1554	CTBP1	c-terminal binding protein 1 (ctbp1). [swissprot;acc:q13363]	Divided	196.215	193.018	1.01656
	EIF3EIP	eukaryotic translation initiation factor 3 subunit 6 interacting protein (hspc021/hspc025). [swissprot;acc:q9y262]	Subtracted	221.128	224.767	3.639
1555	PASK	pas domain containing serine/threonine kinase; pas-serine/threonine kinase. [refseq;acc:nm_015148]	Divided	196.192	192.996	1.01656
	RBM7	putative rna-binding protein 7 (rna binding motif protein 7). [swissprot;acc:q9y580]	Subtracted	221.128	224.767	3.639
1556	BCL6	b-cell lymphoma 6 protein (bcl-6) (zinc finger protein 51) (laz-3 protein) (bcl-5). [swissprot;acc:p41182]	Divided	196.192	192.996	1.01656
	VARS	valyl-trna synthetase 2 (ec 6.1.1.9) (valine--trna ligase 2) (valrs 2) (g7a). [swissprot;acc:p26640]	Subtracted	223.589	227.219	3.63
1557	AP1B1	adapter-related protein complex 1 beta 1 subunit (beta-adaptin 1) (adaptor protein complex ap-1 beta-1 subunit) (golgi adaptor ha1/ap1 adaptin beta subunit) (clathrin assembly protein complex 1 beta large chain). [swissprot;acc:q10567]		222.166	225.79	3.624
	SNAI2	zinc finger protein slug (neural crest transcription factor slug) (snail homolog 2). [swissprot;acc:o43623]	Divided	196.192	192.996	1.01656
1558	CTBP2	c-terminal binding protein 2 (ctbp2). [swissprot;acc:p56545]		196.171	192.977	1.01655
	FIP1L1	fip1-like 1; rearranged in hypereosinophilia. [refseq;acc:nm_030917]	Subtracted	115.817	119.432	3.615
1559	BCL6B	b-cell cll/lymphoma 6, member b (zinc finger protein); zinc finger protein 62. [refseq;acc:nm_181844]	Divided	196.191	192.996	1.01655
	TMF1	tata element modulatory factor (tmf). [swissprot;acc:p82094]	Subtracted	222.585	218.982	3.603
1560	GATAD2A	p66 alpha. [refseq;acc:nm_017660]	Divided	167.687	170.455	1.01651
	SCYL1	scy1-like 1; telomerase regulation-associated protein; ht019 protein; telomerase regulation-associated protein; n-terminal kinase-like protein; teratoma-associated tyrosine kinase; n-terminal kinase-like. [refseq;acc:nm_020680]	Subtracted	222.585	218.982	3.603
1561	GATAD2B	transcription repressor p66 beta component of the mecp1 complex. [refseq;acc:nm_020699]	Divided	167.687	170.455	1.01651
	NUP98	nuclear pore complex protein nup98 (nucleoporin nup98) (98 kda nucleoporin). [swissprot;acc:p52948]	Subtracted	222.585	218.982	3.603
1562	no value	tyrosine aminotransferase (ec 2.6.1.5) (l-tyrosine:2-oxoglutarate aminotransferase) (tat). [swissprot;acc:p17735]	Divided	167.687	170.455	1.01651
	AMMECR1	ammecr1 protein. [refseq;acc:nm_015365]	Subtracted	222.585	218.982	3.603
1563	ATP5C1	atp synthase gamma chain, mitochondrial precursor (ec 3.6.3.14). [swissprot;acc:p36542]	Divided	218.277	214.739	1.01648
	RAE1	mrna-associated protein mrnp 41 (rae1 protein homolog). [swissprot;acc:p78406]	Subtracted	222.585	218.982	3.603
1564	ATP5O	atp synthase oligomycin sensitivity conferral protein, mitochondrial precursor (ec 3.6.3.14) (oscp). [swissprot;acc:p48047]	Divided	218.277	214.739	1.01648
	JPH4	adapter-related protein complex 1 gamma 2 subunit (gamma2-adaptin) (adaptor protein complex ap-1 gamma-2 subunit) (g2ad). [swissprot;acc:o75843]	Subtracted	222.133	225.731	3.598
1565	no value	adapter-related protein complex 1 sigma 1b subunit (sigma-adaptin 1b) (adaptor protein complex ap-1 sigma-1b subunit) (golgi adaptor ha1/ap1 adaptin sigma-1b subunit) (clathrin assembly protein complex 1 sigma- 1b small chain) (sigma 1b subunit of ap-1 clathrin) (dc22). [swissprot;acc:p56377]		222.134		3.597
	EIF3K	eukaryotic translation initiation factor 3 subunit 11 (eif-3 p25) (eif3k) (muscle specific gene m9 protein) (ptd001) (hspc029) (arg134). [swissprot;acc:q9ubq5]	Divided	221.128	224.767	1.01646
1566	AP1G1	adapter-related protein complex 1 gamma 1 subunit (gamma-adaptin) (adaptor protein complex ap-1 gamma-1 subunit) (golgi adaptor ha1/ap1 adaptin gamma-1 subunit) (clathrin assembly protein complex 1 gamma-1 large chain). [swissprot;acc:o43747]	Subtracted	222.134	225.731	3.597
	SLMO1	erythroid differentiation and denucleation factor 1. [swissprot;acc:o60584]	Divided	221.128	224.767	1.01646
1567	AP1S3	adapter-related protein complex 1 sigma 1c subunit (sigma-adaptin 1c) (adaptor protein complex ap-1 sigma-1c subunit) (golgi adaptor ha1/ap1 adaptin sigma-1c subunit) (clathrin assembly protein complex 1 sigma- 1c small chain) (sigma 1c subunit of ap-1 clathrin). [swissprot;acc:q96pc3]	Subtracted	222.134	225.731	3.597
	BBS7	bardet-biedl syndrome 7 protein isoform a; bbs2-like 1. [refseq;acc:nm_176824]	Divided	221.128	224.767	1.01646
1568	no value	ba508n22.1 (hspc025) (fragment). [sptrembl;acc:q9hcw5]
	AP1S1	adapter-related protein complex 1 sigma 1a subunit (sigma-adaptin 1a) (adaptor protein complex ap-1 sigma-1a subunit) (golgi adaptor ha1/ap1 adaptin sigma-1a subunit) (clathrin assembly protein complex 1 sigma- 1a small chain) (clathrin coat assembly protein ap19) (ha1 19 kda subunit) (sigma 1a subunit of ap-1 clathrin). [swissprot;acc:q00382]	Subtracted	222.134	225.731	3.597
1569	no value	lipopolysaccharide-responsive and beige-like anchor protein (cdc4-like protein) (beige-like protein). [swissprot;acc:p50851]	Divided	221.128	224.767	1.01646
	GYS1	glycogen [starch] synthase, muscle (ec 2.4.1.11). [swissprot;acc:p13807]	Subtracted	159.75	156.153	3.597
1570	no value	endo-beta-n-acetylglucosaminidase. [refseq;acc:nm_022759]		159.86	156.275	3.585
	SLMO2	protein c20orf45 (cgi-107). [swissprot;acc:q9y3b1]	Divided	221.128	224.767	1.01646
1571	EIF3EIP	eukaryotic translation initiation factor 3 subunit 6 interacting protein (hspc021/hspc025). [swissprot;acc:q9y262]
	TMLHE	trimethyllysine dioxygenase, mitochondrial precursor (ec 1.14.11.8) (epsilon-trimethyllysine 2-oxoglutarate dioxygenase) (tml-alpha- ketoglutarate dioxygenase) (tml hydroxylase) (tml dioxygenase) (tmld). [swissprot;acc:q9nvh6]	Subtracted	213.546	209.965	3.581
1572	ERAL1	gtp-binding protein era homolog (hera) (fragment). [swissprot;acc:o75616]
	RBM7	putative rna-binding protein 7 (rna binding motif protein 7). [swissprot;acc:q9y580]	Divided	221.128	224.767	1.01646
1573	CSTF3	cleavage stimulation factor subunit 3; cleavage stimulation factor, 3' pre-rna, subunit 3, 77kd. [refseq;acc:nm_001326]	Subtracted	121.428	125.004	3.576
	R3HDM1	r3h domain protein 1. [swissprot;acc:q15032]	Divided	218.105	214.573	1.01646
1574	GYS2	glycogen [starch] synthase, liver (ec 2.4.1.11). [swissprot;acc:p54840]	Subtracted	159.993	156.421	3.572
	TMF1	tata element modulatory factor (tmf). [swissprot;acc:p82094]	Divided	222.585	218.982	1.01645
1575	AP2B1	adapter-related protein complex 2 beta 1 subunit (beta-adaptin) (plasma membrane adaptor ha2/ap2 adaptin beta subunit) (clathrin assembly protein complex 2 beta large chain) (ap105b). [swissprot;acc:p21851]	Subtracted	222.103	225.675	3.572
	SCYL1	scy1-like 1; telomerase regulation-associated protein; ht019 protein; telomerase regulation-associated protein; n-terminal kinase-like protein; teratoma-associated tyrosine kinase; n-terminal kinase-like. [refseq;acc:nm_020680]	Divided	222.585	218.982	1.01645

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.