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

Results: HTML CSV LaTeX

Showing element 680 to 729 of 6456 in total

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

Rank	description	Hugo	Network Comparison Type	red	green	network_comparison
340	myelin gene expression factor 2. [refseq;acc:nm_016132]	MYEF2	Divided	235.383	258.476	1.09811
341	60s ribosomal protein l9. [swissprot;acc:p32969]	no value		240.243	263.798	1.09805
	ubiquinol-cytochrome c reductase iron-sulfur subunit, mitochondrial precursor (ec 1.10.2.2) (rieske iron-sulfur protein) (risp). [swissprot;acc:p47985]	UQCRFSL1	Subtracted	240.788	261.416	20.628
342	40s ribosomal protein s20. [swissprot;acc:p17075]	RPS20	Divided	243.5	267.21	1.09737
	dna-directed rna polymerase i 40 kda polypeptide (ec 2.7.7.6) (rpa40) (rpa39). [swissprot;acc:o15160]	POLR1C	Subtracted	240.913	261.45	20.537
343	protein arginine n-methyltransferase 3 (ec 2.1.1.-) (fragment). [swissprot;acc:o60678]	PRMT3	Divided	241.625	265.136	1.0973
	rgs19-interacting protein 1 (gaip c-terminus interacting protein gipc) (rgs-gaip interacting protein) (tax interaction protein 2) (tip-2). [swissprot;acc:o14908]	GIPC1	Subtracted	231.73	211.252	20.478
344	40s ribosomal protein s2 (s4) (llrep3 protein). [swissprot;acc:p15880]	no value	Divided	241.625	265.136	1.0973
	dna-directed rna polymerase i 135 kda polypeptide (ec 2.7.7.6) (rna polymerase i subunit 2) (rpa135). [swissprot;acc:q9h9y6]	POLR1B	Subtracted	240.6	261.041	20.441
345	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		224.445	204.044	20.401
	ump-cmp kinase (ec 2.7.4.14) (cytidylate kinase) (deoxycytidylate kinase) (cytidine monophosphate kinase). [swissprot;acc:p30085]	CMPK	Divided	242.14	265.697	1.09729
346	40s ribosomal protein s3. [swissprot;acc:p23396]	RPS3		241.612	265.119
	apical-like protein (apxl protein). [swissprot;acc:q13796]	SHROOM2	Subtracted	231.492	211.136	20.356
347	gtp:amp phosphotransferase mitochondrial (ec 2.7.4.10) (ak3) (adenylate kinase 3 alpha like 1). [swissprot;acc:q9uij7]	AK3	Divided	242.14	265.697	1.09729
	shroom-related protein; f-actin-binding protein; likely ortholog of mouse shroom. [refseq;acc:nm_020859]	SHROOM3	Subtracted	231.481	211.131	20.35
348	adenylate kinase isoenzyme 4, mitochondrial (ec 2.7.4.3) (atp-amp transphosphorylase). [swissprot;acc:p27144]	no value	Divided	242.14	265.696	1.09728
	oligopeptide transporter, kidney isoform (peptide transporter 2) (kidney h+/peptide cotransporter) (solute carrier family 15, member 2). [swissprot;acc:q16348]	SLC15A2	Subtracted	185.969	165.623	20.346
349	ccaat-box-binding transcription factor (ccaat-binding factor) (cbf). [swissprot;acc:q03701]	CEBPZ		255.112	234.804	20.308
	surfeit locus protein 5. [swissprot;acc:q15528]	MED22	Divided	242.14	265.696	1.09728
350	tfiih basal transcription factor complex p44 subunit (basic transcription factor 2 44 kda subunit) (btf2-p44) (general transcription factor iih polypeptide 2). [swissprot;acc:q13888]	no value	Subtracted	233.376	253.539	20.163
	zinc finger protein 291. [swissprot;acc:q9by12]	SCAPER	Divided	242.14	265.696	1.09728
351	peroxisome biogenesis factor 1 (peroxin-1) (peroxisome biogenesis disorder protein 1). [swissprot;acc:o43933]	PEX1
	tfiih basal transcription factor complex p62 subunit (basic transcription factor 62 kda subunit) (btf2-p62) (general transcription factor iih polypeptide 1). [swissprot;acc:p32780]	GTF2H1	Subtracted	233.376	253.539	20.163
352	protein 1-4 (atp binding protein associated with cell differentiation). [swissprot;acc:o14530]	TXNDC9	Divided	242.14	265.696	1.09728
	rna-binding region containing protein 2 (hepatocellular carcinoma protein 1) (splicing factor hcc1). [swissprot;acc:q14498]	RBM39	Subtracted	237.862	217.739	20.123
353	associated molecule with the sh3 domain of stam (amsh) like protein. [refseq;acc:nm_020799]	STAMBPL1		94	114	20
	rgs19-interacting protein 1 (gaip c-terminus interacting protein gipc) (rgs-gaip interacting protein) (tax interaction protein 2) (tip-2). [swissprot;acc:o14908]	GIPC1	Divided	231.73	211.252	1.09694
354	putative breast adenocarcinoma marker (32kd). [refseq;acc:nm_014453]	CHMP2A	Subtracted	94	114	20
	syntaxin 10 (syn10). [swissprot;acc:o60499]	STX10	Divided	234.691	257.442	1.09694
355	associated molecule with the sh3 domain of stam. [refseq;acc:nm_006463]	STAMBP	Subtracted	94	114	20
	syntaxin 6. [swissprot;acc:o43752]	STX6	Divided	234.673	257.414	1.09691
356	60s ribosomal protein l10a (csa-19). [swissprot;acc:p53025]	no value		243.24	266.796	1.09684
	neuroendocrine differentiation factor; comparative gene identification transcript 149. [refseq;acc:nm_016079]	VPS24	Subtracted	94	114	20
357	60s ribosomal protein l10 (qm protein) (tumor suppressor qm) (laminin receptor homolog). [swissprot;acc:p27635]	no value	Divided	243.12	266.661	1.09683
	protein hspc134 (protein cda04). [swissprot;acc:q9by43]	CHMP4A	Subtracted	94	114	20
358	ras-related protein rab-37. [swissprot;acc:q96ax2]	RAB37		240.287	260.193	19.906
	ribosomal protein l10-like protein. [refseq;acc:nm_080746]	RPL10L	Divided	243.12	266.662	1.09683
359	60s ribosomal protein l4 (l1). [swissprot;acc:p36578]	RPL4		239.277	262.434	1.09678
	ras-related protein rab-26. [swissprot;acc:q9ulw5]	RAB26	Subtracted	240.287	260.193	19.906
360	dna-directed rna polymerase ii 33 kda polypeptide (ec 2.7.7.6) (rpb3) (rna polymerase ii subunit 3) (rpb33) (rpb31). [swissprot;acc:p19387]	POLR2C
	protein transport protein sec61 gamma subunit. [swissprot;acc:p38384]	SEC61G	Divided	243.072	266.559	1.09663
361	katanin p60 subunit a 1. [refseq;acc:nm_007044]	KATNA1	Subtracted	232.431	252.238	19.807
	mitochondrial ribosomal protein l17; lyst-interacting protein lip2. [refseq;acc:nm_022061]	MRPL17	Divided	242.83	266.248	1.09644
362	apical-like protein (apxl protein). [swissprot;acc:q13796]	SHROOM2		231.492	211.136	1.09641
	katanin p80 subunit b 1; katanin (80 kda); katanin p80 (wd40-containing) subunit b 1. [refseq;acc:nm_005886]	KATNB1	Subtracted	232.382	252.166	19.784
363	set domain and mariner transposase fusion gene. [refseq;acc:nm_006515]	SETMAR		233.539	253.197	19.658
	shroom-related protein; f-actin-binding protein; likely ortholog of mouse shroom. [refseq;acc:nm_020859]	SHROOM3	Divided	231.481	211.131	1.09639
364	cd209 antigen-like; putative type ii membrane protein. [refseq;acc:nm_014257]	CLEC4M	Subtracted	233.539	253.197	19.658
	dna-directed rna polymerase ii 140 kda polypeptide (ec 2.7.7.6) (rna polymerase ii subunit 2) (rpb2). [swissprot;acc:p30876]	POLR2B	Divided	243.208	266.617	1.09625
365	60s ribosomal protein l36, mitochondrial precursor (l36mt) (brca1- interacting protein 1). [swissprot;acc:q9p0j6]	MRPL36		242.744	266.07	1.09609

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.