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

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Showing element 8241 to 8290 of 16578 in total

Value Type  : Ranked
Filtered  : 1

Rank	Network Comparison Type	description	Hugo	Interaction Map	red	green	network_comparison
2061	Divided	serine/threonine-protein kinase chk1 (ec 2.7.1.-). [swissprot;acc:o14757]	CHEK1	Low confidence	196.875	193.141	1.01933
		tbc1 domain family protein c22orf4-like (fragment). [swissprot;acc:q9nu19]	TBC1D22B	High confidence	218.79	216.981	1.00834
	Subtracted	coronin 2a (wd-repeat protein 2) (ir10). [swissprot;acc:q92828]	CORO2A	Low confidence	202.237	198.427	3.81
		isocitrate dehydrogenase [nad] subunit gamma, mitochondrial precursor (ec 1.1.1.41) (isocitric dehydrogenase) (nad+-specific icdh). [swissprot;acc:p51553]	IDH3G	High confidence	222.58	224.32	1.74
2062	Divided	myosin light chain 1, embryonic muscle/atrial isoform (pro1957). [swissprot;acc:p12829]	no value	Low confidence	200.005	196.213	1.01933
		tbc1 domain family protein c22orf4. [swissprot;acc:q8wua7]	TBC1D22A	High confidence	218.79	216.981	1.00834
	Subtracted	fibrillin 1 precursor. [swissprot;acc:p35555]	FBN1	Low confidence	203.261	199.452	3.809
		polymerase (dna directed) sigma; topoisomerase-related function protein 4-1; polymerase (dna-directed) sigma. [refseq;acc:nm_006999]	POLS	High confidence	229.266	227.53	1.736
2063	Divided	mitochondrial 2-oxodicarboxylate carrier. [swissprot;acc:q9bqt8]	SLC25A21	Low confidence	195.333	191.631	1.01932
		ornithine decarboxylase (ec 4.1.1.17) (odc). [swissprot;acc:p11926]	ODC1	High confidence	207.638	205.923	1.00833
	Subtracted	alpha-fetoprotein enhancer binding protein (at motif-binding factor) (at-binding transcription factor 1). [swissprot;acc:q15911]	ZFHX3	Low confidence	201.219	197.41	3.809
		glucosamine--fructose-6-phosphate aminotransferase [isomerizing] 2 (ec 2.6.1.16) (hexosephosphate aminotransferase 2) (d-fructose-6- phosphate amidotransferase 2) (gfat 2) (gfat2). [swissprot;acc:o94808]	GFPT2	High confidence	222.609	224.344	1.735
2064	Divided	aminoadipate-semialdehyde synthase; lysine-ketoglutarate reductase /saccharopine dehydrogenase; lysine-2-oxoglutarate reductase; aminoadipic semialdehyde synthase. [refseq;acc:nm_005763]	AASS		207.655	205.939	1.00833
		ubiquitin-conjugating enzyme e2 n (ec 6.3.2.19) (ubiquitin-protein ligase n) (ubiquitin carrier protein n) (ubc13) (bendless-like ubiquitin conjugating enzyme). [swissprot;acc:q16781]	UBE2N	Low confidence	200.396	196.597	1.01932
	Subtracted	coronin 2b (coronin-like protein c) (clipinc) (protein fc96). [swissprot;acc:q9uq03]	CORO2B		202.237	198.428	3.809
		dna polymerase gamma subunit 1 (ec 2.7.7.7) (mitochondrial dna polymerase catalytic subunit) (polg-alpha). [swissprot;acc:p54098]	POLG	High confidence	216.324	214.599	1.725
2065	Divided	heat shock-related 70 kda protein 2 (heat shock 70 kda protein 2). [swissprot;acc:p54652]	HSPA2	Low confidence	201.894	198.068	1.01932
		ubiquitin-conjugating enzyme e2 n (ec 6.3.2.19) (ubiquitin-protein ligase n) (ubiquitin carrier protein n) (ubc13) (bendless-like ubiquitin conjugating enzyme). [swissprot;acc:q16781]	UBE2N	High confidence	214.328	212.561	1.00831
	Subtracted	ornithine decarboxylase antizyme inhibitor. [swissprot;acc:o14977]	AZIN1		207.667	205.95	1.717
		serine/threonine-protein kinase pak 7 (ec 2.7.1.-) (p21-activated kinase 7) (pak-7) (pak-5). [swissprot;acc:q9p286]	PAK7	Low confidence	202.369	198.56	3.809
2066	Divided	heat shock 70 kda protein 1 (hsp70.1) (hsp70-1/hsp70-2). [swissprot;acc:p08107]	no value		201.894	198.068	1.01932
		proliferating cell nuclear antigen (pcna) (cyclin). [swissprot;acc:p12004]	PCNA	High confidence	229.102	231.001	1.00829
	Subtracted	leukocyte receptor cluster (lrc) member 8. [refseq;acc:nm_052925]	LENG8	Low confidence	202.349	198.541	3.808
		ornithine decarboxylase-like protein (ec 4.1.1.17) (odc-paralogue) (odc-p). [swissprot;acc:q96a70]	ADC	High confidence	207.665	205.948	1.717
2067	Divided	adenylosuccinate lyase (ec 4.3.2.2) (adenylosuccinase) (asl) (asase). [swissprot;acc:p30566]	ADSL		193.226	191.639	1.00828
		dehydrodolichyl diphosphate synthase. [refseq;acc:nm_024887]	DHDDS	Low confidence	199.843	196.055	1.01932
	Subtracted	aminoadipate-semialdehyde synthase; lysine-ketoglutarate reductase /saccharopine dehydrogenase; lysine-2-oxoglutarate reductase; aminoadipic semialdehyde synthase. [refseq;acc:nm_005763]	AASS	High confidence	207.655	205.939	1.716
		similar to smhs1 protein. [refseq;acc:nm_145244]	DDIT4L	Low confidence	200.456	196.648	3.808
2068	Divided	38 kda fk-506 binding protein homolog (fkbpr38) (fk506-binding protein 8). [swissprot;acc:q14318]	FKBP8		203.696	207.631	1.01932
		fas apoptotic inhibitory molecule. [refseq;acc:nm_018147]	FAIM	High confidence	220.8	222.61	1.0082
	Subtracted	eukaryotic translation initiation factor 3 subunit 4 (eif-3 delta) (eif3 p44) (eif-3 rna-binding subunit) (eif3 p42) (eif3g). [swissprot;acc:o75821]	EIF3G	Low confidence	199.773	195.965	3.808
		ornithine decarboxylase (ec 4.1.1.17) (odc). [swissprot;acc:p11926]	ODC1	High confidence	207.638	205.923	1.715
2069	Divided	dual specificity mitogen-activated protein kinase kinase 1 (ec 2.7.1.-) (map kinase kinase 1) (mapkk 1) (erk activator kinase 1) (mapk/erk kinase 1) (mek1). [swissprot;acc:q02750]	MAP2K1		217.555	215.807	1.0081
		syntaxin 7. [swissprot;acc:o15400]	STX7	Low confidence	200.695	196.892	1.01932
	Subtracted	fibrillin 3. [refseq;acc:nm_032447]	FBN3		203.258	199.451	3.807
		fidgetin-like 1. [refseq;acc:nm_022116]	FIGNL1	High confidence	215.511	213.814	1.697
2070	Divided	rac gtpase activating protein 1; gtpase activating protein. [refseq;acc:nm_013277]	RACGAP1		223.199	225.008	1.0081
		retinal short chain dehydrogenase reductase. [refseq;acc:nm_138969]	no value	Low confidence	200.105	196.315	1.01931
	Subtracted	maguk p55 subfamily member 3 (mpp3 protein) (discs, large homolog 3). [swissprot;acc:q13368]	MPP3	High confidence	218.124	216.433	1.691
		syntaxin 12. [refseq;acc:nm_177424]	STX12	Low confidence	200.566	196.759	3.807
2071	Divided	golgi-associated microtubule-binding protein hook3; hook3 protein. [refseq;acc:nm_032410]	HOOK3		199.443	195.665	1.01931
		similar to kinase suppressor of ras (fragment). [sptrembl;acc:q8ivt5]	KSR1	High confidence	217.555	215.807	1.0081
	Subtracted	adapter-related protein complex 3 beta 1 subunit (beta-adaptin 3a) (ap-3 complex beta-3a subunit) (beta-3a-adaptin). [swissprot;acc:o00203]	AP3B1		199.928	198.24	1.688
		dnaj (hsp40) homolog, subfamily c, member 6; dnaj (hsp40) homolog, subfamily b, member 6. [refseq;acc:nm_014787]	DNAJC6	Low confidence	201.84	198.033	3.807
2072	Divided	dual specificity mitogen-activated protein kinase kinase 2 (ec 2.7.1.-) (map kinase kinase 2) (mapkk 2) (erk activator kinase 2) (mapk/erk kinase 2) (mek2). [swissprot;acc:p36507]	MAP2K2	High confidence	217.555	215.807	1.0081
		transcription initiation factor iia alpha and beta chains (tfiia p35 and p19 subunits) (tfiia-42) (tfiial). [swissprot;acc:p52655]	GTF2A1	Low confidence	202.663	198.824	1.01931
	Subtracted	ny-ren-24 antigen (fragment). [sptrembl;acc:q9y5a4]	C19orf29	High confidence	199.928	198.24	1.688
		putative pre-mrna splicing factor rna helicase (atp-dependent rna helicase #3) (deah-box protein 16). [swissprot;acc:o60231]	no value	Low confidence	203.817	200.011	3.806
2073	Divided	importin-alpha re-exporter (chromosome segregation 1-like protein) (cellular apoptosis susceptibility protein). [swissprot;acc:p55060]	CSE1L		201.666	197.846	1.01931
		topoisomerase-related function protein 4-2. [refseq;acc:nm_022447]	PAPD5	High confidence	229.267	227.433	1.00806

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.