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

Results: HTML CSV LaTeX

Showing element 325 to 374 of 3228 in total

Value Type  : Ranked
Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1

Rank	description	Hugo	red	green	network_comparison
325	28s ribosomal protein s12, mitochondrial precursor (mpr-s12) (mt- rps12). [swissprot;acc:o15235]	MRPS12	243.944	268.195	1.09941
326	60s ribosomal protein l5. [swissprot;acc:p46777]	RPL5	241.899	265.924	1.09932
327	dna-directed rna polymerase ii largest subunit (ec 2.7.7.6) (rpb1). [swissprot;acc:p24928]	POLR2A	243.817	267.962	1.09903
328	atp-dependent rna helicase ddx24 (dead-box protein 24). [swissprot;acc:q9gzr7]	DDX24	258.437	235.183	1.09888
329	neurogenic differentiation factor 2 (neurod2). [swissprot;acc:q15784]	NEUROD2	312	284	1.09859
330	chromodomain helicase-dna-binding protein 3 (chd-3) (mi-2 autoantigen 240 kda protein) (mi2-alpha). [swissprot;acc:q12873]	CHD3
331	doc-1 related protein (doc-1r). [swissprot;acc:o75956]	CDK2AP2
332	neurogenic differentiation factor 6 (neurod6) (my051 protein). [swissprot;acc:q96nk8]	NEUROD6
333	neurogenic differentiation factor 1 (neurod1) (neurod). [swissprot;acc:q13562]	NEUROD1
334	neurogenic differentiation factor 4 (neurod4). [swissprot;acc:q9hd90]	NEUROD4
335	chromodomain helicase dna binding protein 5. [refseq;acc:nm_015557]	CHD5
336	cyclin-dependent kinase 2-associated protein 1 (cdk2-associated protein 1) (putative oral cancer suppressor) (deleted in oral cancer- 1) (doc-1). [swissprot;acc:o14519]	CDK2AP1
337	60s ribosomal protein l12. [swissprot;acc:p30050]	no value	243.583	267.527	1.0983
338	60s ribosomal protein l12 like protein. [sptrembl;acc:o60886]			267.528
339	dj999l4.1 (novel protein similar to ribosomal protein l12 (rpl12)). [sptrembl;acc:q9nq02]			267.527
340	myelin gene expression factor 2. [refseq;acc:nm_016132]	MYEF2	235.383	258.476	1.09811
341	60s ribosomal protein l9. [swissprot;acc:p32969]	no value	240.243	263.798	1.09805
342	40s ribosomal protein s20. [swissprot;acc:p17075]	RPS20	243.5	267.21	1.09737
343	protein arginine n-methyltransferase 3 (ec 2.1.1.-) (fragment). [swissprot;acc:o60678]	PRMT3	241.625	265.136	1.0973
344	40s ribosomal protein s2 (s4) (llrep3 protein). [swissprot;acc:p15880]	no value
345	ump-cmp kinase (ec 2.7.4.14) (cytidylate kinase) (deoxycytidylate kinase) (cytidine monophosphate kinase). [swissprot;acc:p30085]	CMPK	242.14	265.697	1.09729
346	40s ribosomal protein s3. [swissprot;acc:p23396]	RPS3	241.612	265.119
347	gtp:amp phosphotransferase mitochondrial (ec 2.7.4.10) (ak3) (adenylate kinase 3 alpha like 1). [swissprot;acc:q9uij7]	AK3	242.14	265.697
348	adenylate kinase isoenzyme 4, mitochondrial (ec 2.7.4.3) (atp-amp transphosphorylase). [swissprot;acc:p27144]	no value		265.696	1.09728
349	surfeit locus protein 5. [swissprot;acc:q15528]	MED22
350	zinc finger protein 291. [swissprot;acc:q9by12]	SCAPER
351	peroxisome biogenesis factor 1 (peroxin-1) (peroxisome biogenesis disorder protein 1). [swissprot;acc:o43933]	PEX1
352	protein 1-4 (atp binding protein associated with cell differentiation). [swissprot;acc:o14530]	TXNDC9
353	rgs19-interacting protein 1 (gaip c-terminus interacting protein gipc) (rgs-gaip interacting protein) (tax interaction protein 2) (tip-2). [swissprot;acc:o14908]	GIPC1	231.73	211.252	1.09694
354	syntaxin 10 (syn10). [swissprot;acc:o60499]	STX10	234.691	257.442
355	syntaxin 6. [swissprot;acc:o43752]	STX6	234.673	257.414	1.09691
356	60s ribosomal protein l10a (csa-19). [swissprot;acc:p53025]	no value	243.24	266.796	1.09684
357	60s ribosomal protein l10 (qm protein) (tumor suppressor qm) (laminin receptor homolog). [swissprot;acc:p27635]		243.12	266.661	1.09683
358	ribosomal protein l10-like protein. [refseq;acc:nm_080746]	RPL10L		266.662
359	60s ribosomal protein l4 (l1). [swissprot;acc:p36578]	RPL4	239.277	262.434	1.09678
360	protein transport protein sec61 gamma subunit. [swissprot;acc:p38384]	SEC61G	243.072	266.559	1.09663
361	mitochondrial ribosomal protein l17; lyst-interacting protein lip2. [refseq;acc:nm_022061]	MRPL17	242.83	266.248	1.09644
362	apical-like protein (apxl protein). [swissprot;acc:q13796]	SHROOM2	231.492	211.136	1.09641
363	shroom-related protein; f-actin-binding protein; likely ortholog of mouse shroom. [refseq;acc:nm_020859]	SHROOM3	231.481	211.131	1.09639
364	dna-directed rna polymerase ii 140 kda polypeptide (ec 2.7.7.6) (rna polymerase ii subunit 2) (rpb2). [swissprot;acc:p30876]	POLR2B	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
366	40s ribosomal protein s5. [swissprot;acc:p46782]	RPS5	242.473	265.756	1.09602
367	heterogeneous nuclear ribonucleoprotein m (hnrnp m). [swissprot;acc:p52272]	HNRPM	234.146	256.627	1.09601
368	trna pseudouridine synthase a (ec 4.2.1.70) (pseudouridylate synthase i) (pseudouridine synthase i) (uracil hydrolyase). [swissprot;acc:q9y606]	PUS1	242.66	265.715	1.09501
369	60s ribosomal protein l12, mitochondrial precursor (l12mt) (5c5-2). [swissprot;acc:p52815]	MRPL12	242.159	265.104	1.09475
370	nudix (nucleoside diphosphate linked moiety x)-type motif 12. [refseq;acc:nm_031438]	NUDT12
371	ribosomal protein s6 kinase, 52kda, polypeptide 1; ribosomal protein s6 kinase, 52kd, polypeptide 1. [refseq;acc:nm_012424]	RPS6KC1	186.52	170.42	1.09447
372	ribosomal protein s6 kinase-like 1. [refseq;acc:nm_031464]	no value
373	60s ribosomal protein l11, mitochondrial precursor (l11mt) (cgi-113). [swissprot;acc:q9y3b7]	MRPL11	242.37	265.255	1.09442
374	transcription factor dp-2 (e2f dimerization partner 2). [swissprot;acc:q14188]	TFDP2	267.208	244.168	1.09436

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.