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

Results: HTML CSV LaTeX

Showing element 1630 to 1679 of 33156 in total

Network Comparison Type  : Divided
Filtered  : 1

Rank	description	Hugo	red	Value Type	Interaction Map	green	network_comparison
204	small nuclear ribonucleoprotein e (snrnp-e) (sm protein e) (sm-e) (sme). [swissprot;acc:p08578]	no value	55.8956	Rooted	High confidence	63.9636	1.14434
			4512.19	Measured		5655.52	1.25339
	source of immunodominant mhc-associated peptides; homolog of yeast stt3 gene. [refseq;acc:nm_178862]	STT3B	12326.4	Squared		16522.9	1.34045
205	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 subunit. [swissprot;acc:p30670]	GNG5	211.475	Ranked	Low confidence	222.177	1.05061
	luc7-like 2; cgi-74 protein; cgi-59 protein. [refseq;acc:nm_016019]	LUC7L2	228.1		High confidence	200.968	1.13501
	oligosaccharyl transferase stt3 subunit homolog (b5) (integral membrane protein 1) (tmc). [swissprot;acc:p46977]	STT3A	12326.4	Squared		16522.9	1.34045
	platelet glycoprotein v precursor (gpv) (cd42d). [swissprot;acc:p40197]	GP5	10374.8	Measured	Low confidence	9672.51	1.07261
	single-stranded dna-binding protein 2 (sequence-specific single- stranded-dna-binding protein 2). [swissprot;acc:p81877]	SSBP2	52164.4	Squared		47095.3	1.10763
	small nuclear ribonucleoprotein f (snrnp-f) (sm protein f) (sm-f) (smf). [swissprot;acc:q15356]	SNRPF	55.8956	Rooted	High confidence	63.9636	1.14434
			4512.19	Measured		5655.52	1.25339
	solute carrier family 9, member 7; nonselective sodium potassium/proton exchanger; sodium/hydrogen exchanger 7. [refseq;acc:nm_032591]	SLC9A7	66.3503	Rooted	Low confidence	70.3749	1.06066
206	atlastin; guanylate-binding protein 3. [refseq;acc:nm_015915]	no value	5720.25	Measured	High confidence	4577.5	1.24965
	dolichyl-diphosphooligosaccharide--protein glycosyltransferase 48 kda subunit precursor (ec 2.4.1.119) (oligosaccharyl transferase 48 kda subunit) (ddost 48 kda subunit). [swissprot;acc:p39656]	DDOST	12326.4	Squared		16522.9	1.34045
	gaba-a receptor-associated protein. [sptrembl;acc:q9by60]	no value	140.508	Rooted		122.878	1.14348
	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 like subunit. [swissprot;acc:q9y3k8]		211.457	Ranked	Low confidence	222.138	1.05051
	luc7-like; sarcoplasmic reticulum protein luc7b1. [refseq;acc:nm_018032]	LUC7L	228.085		High confidence	201.006	1.13472
	oligopeptide transporter, kidney isoform (peptide transporter 2) (kidney h+/peptide cotransporter) (solute carrier family 15, member 2). [swissprot;acc:q16348]	SLC15A2	7583.48	Measured	Low confidence	8133.08	1.07247
	oligosaccharyl transferase stt3 subunit homolog (b5) (integral membrane protein 1) (tmc). [swissprot;acc:p46977]	STT3A	70.4583	Rooted		74.7299	1.06063
	single-stranded dna-binding protein 4. [swissprot;acc:q9bwg4]	SSBP4	52164.3	Squared		47095.3	1.10763
207	anaphase-promoting complex subunit 10; anaphase-promoting complex 10. [refseq;acc:nm_014885]	ANAPC10	213.495	Ranked		203.244	1.05044
	apg3p; pc3-96 protein. [refseq;acc:nm_022488]	ATG3	140.508	Rooted	High confidence	122.878	1.14348
	asparagine synthetase [glutamine-hydrolyzing] (ec 6.3.5.4) (glutamine- dependent asparagine synthetase) (ts11 cell cycle control protein). [swissprot;acc:p08243]	ASNS	9818	Measured	Low confidence	10529.5	1.07247
	cathepsin l2 precursor (ec 3.4.22.43) (cathepsin v) (cathepsin u). [swissprot;acc:o60911]	CTSL2	67.6503	Rooted		71.7486	1.06058
	presenilin 2 (ps-2) (stm-2) (e5-1) (ad3lp) (ad5). [swissprot;acc:p49810]	PSEN2	285.684	Ranked	High confidence	252.234	1.13261
	solute carrier family 4 (anion exchanger), member 1, adaptor protein; kidney anion exchanger adaptor protein; kanadaptin; lung cancer oncogene 3. [refseq;acc:nm_018158]	SLC4A1AP	70525.9	Squared		52678.7	1.33879
	splicing factor 3b subunit 3 (spliceosome associated protein 130) (sap 130) (sf3b130) (pre-mrna splicing factor sf3b 130 kda subunit). [swissprot;acc:q15393]	no value	4771.21	Measured		5961.43	1.24946
	tenascin n precursor (fragment). [sptrembl;acc:q9uqp3]	TNN	52163.9	Squared	Low confidence	47095	1.10763
208	atp-dependent rna helicase ddx24 (dead-box protein 24). [swissprot;acc:q9gzr7]	DDX24	46.901	Rooted	High confidence	53.624	1.14334
	cathepsin l precursor (ec 3.4.22.15) (major excreted protein) (mep). [swissprot;acc:p07711]	CTSL1	67.647		Low confidence	71.7367	1.06046
	cyclin-dependent kinases regulatory subunit 2 (cks-2). [swissprot;acc:p33552]	CKS2	70525.9	Squared	High confidence	52678.7	1.33879
	putative dimethylaniline monooxygenase [n-oxide forming] 6 (ec 1.14.13.8) (flavin-containing monooxygenase 6) (fmo 6) (dimethylaniline oxidase 6). [swissprot;acc:o60774]	FMO6P	209.792	Ranked	Low confidence	199.758	1.05023
	s-phase kinase-associated protein 1a (cyclin a/cdk2-associated protein p19) (p19a) (p19skp1) (rna polymerase ii elongation factor-like protein) (organ of corti protein 2) (ocp-ii protein) (ocp-2) (transcription elongation factor b) (siii). [swissprot;acc:p34991]	SKP1A	285.684		High confidence	252.234	1.13261
	tenascin r (restrictin, janusin). [refseq;acc:nm_003285]	TNR	52163.9	Squared	Low confidence	47095	1.10763
	transcription factor dp-1 (e2f dimerization partner 1) (drtf1- polypeptide-1) (drtf1). [swissprot;acc:q14186]	no value	6557.13	Measured		7028.46	1.07188
	voltage-dependent calcium channel gamma-8 subunit (neuronal voltage- gated calcium channel gamma-8 subunit). [swissprot;acc:q8wxs5]	CACNG8	4068.78		High confidence	5082.18	1.24907
209	b-raf proto-oncogene serine/threonine-protein kinase (ec 2.7.1.-) (p94) (v-raf murine sarcoma viral oncogene homolog b1). [swissprot;acc:p15056]	BRAF	10348.7		Low confidence	9656.36	1.0717
	calpain 2, large [catalytic] subunit precursor (ec 3.4.22.17) (calcium-activated neutral proteinase) (canp) (m-type) (m-calpain) (millimolar-calpain) (calpain large polypeptide l2). [swissprot;acc:p17655]	CAPN2	46.8525	Rooted	High confidence	53.5324	1.14257
	catenin (cadherin-associated protein), alpha-like 1; alpha-catulin. [refseq;acc:nm_003798]	CTNNAL1	70525.9	Squared		52678.7	1.33879
	dimethylaniline monooxygenase [n-oxide forming] 3 (ec 1.14.13.8) (hepatic flavin-containing monooxygenase 3) (fmo 3) (dimethylaniline oxidase 3) (fmo form 2) (fmo ii). [swissprot;acc:p31513]	FMO3	209.778	Ranked	Low confidence	199.757	1.05017
	f-box protein fbw7 isoform 2; archipelago, drosophila, homolog of; f-box protein fbw7; f-box protein sel-10; homolog of c elegans sel-10. [refseq;acc:nm_018315]	FBXW7	285.684		High confidence	252.234	1.13261
	heat-shock 20 kda like-protein p20. [swissprot;acc:o14558]	HSPB6	65.7756	Rooted	Low confidence	69.742	1.0603
	tenascin precursor (tn) (hexabrachion) (cytotactin) (neuronectin) (gmem) (ji) (miotendinous antigen) (glioma-associated-extracellular matrix antigen) (gp 150-225) (tenascin-c) (tn-c). [swissprot;acc:p24821]	TNC	52164.7	Squared		47095.6	1.10763
	voltage-dependent calcium channel gamma-3 subunit (neuronal voltage- gated calcium channel gamma-3 subunit). [swissprot;acc:o60359]	CACNG3	4068.78	Measured	High confidence	5082.18	1.24907
210	alpha crystallin a chain. [swissprot;acc:p02489]	CRYAA	65.7815	Rooted	Low confidence	69.7461	1.06027
	calpain 1, large [catalytic] subunit (ec 3.4.22.17) (calcium-activated neutral proteinase) (canp) (mu-type) (mucanp) (micromolar-calpain). [swissprot;acc:p07384]	CAPN1	46.8525		High confidence	53.5316	1.14256
	cullin homolog 2 (cul-2). [swissprot;acc:q13617]	CUL2	285.684	Ranked		252.234	1.13261
	dimethylaniline monooxygenase [n-oxide forming] 2 (ec 1.14.13.8) (pulmonary flavin-containing monooxygenase 2) (fmo 2) (dimethylaniline oxidase 2) (fmo 1b1). [swissprot;acc:q99518]	FMO2	209.782		Low confidence	199.761	1.05016
	hairy/enhancer-of-split related with yrpw motif 2; gridlock; hes-related repressor protein 1. [refseq;acc:nm_012259]	HEY2	52137.6	Squared		47078.4	1.10746
	ras-related gtp binding c; rag c protein. [refseq;acc:nm_022157]	RRAGC	9371.08	Measured		10040.2	1.0714
	small glutamine-rich tetratricopeptide repeat-containing protein (vpu-binding protein) (ubp). [swissprot;acc:o43765]	SGTA	69549	Squared	High confidence	92953.5	1.33652

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.