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 686 to 735 of 8289 in total

Value Type  : Ranked
Network Comparison Type  : Divided
Filtered  : 1

Rank	Hugo	description	Interaction Map	red	green	network_comparison
343	PRMT3	protein arginine n-methyltransferase 3 (ec 2.1.1.-) (fragment). [swissprot;acc:o60678]	High confidence	241.625	265.136	1.0973
344	no value	40s ribosomal protein s2 (s4) (llrep3 protein). [swissprot;acc:p15880]
	MRPL44	mitochondrial ribosomal protein l44. [refseq;acc:nm_022915]	Low confidence	216.283	208.173	1.03896
345	CMPK	ump-cmp kinase (ec 2.7.4.14) (cytidylate kinase) (deoxycytidylate kinase) (cytidine monophosphate kinase). [swissprot;acc:p30085]	High confidence	242.14	265.697	1.09729
	KCNIP2	kv channel interacting protein 2 isoform 4; a-type potassium channel modulatory protein 2; cardiac voltage gated potassium channel modulatory subunit. [refseq;acc:nm_173193]	Low confidence	213.976	222.312	1.03896
346	DYNC1I2	dynein intermediate chain 2, cytosolic (dh ic-2) (cytoplasmic dynein intermediate chain 2). [swissprot;acc:q13409]		209.221	201.38	1.03894
	RPS3	40s ribosomal protein s3. [swissprot;acc:p23396]	High confidence	241.612	265.119	1.09729
347	AK3	gtp:amp phosphotransferase mitochondrial (ec 2.7.4.10) (ak3) (adenylate kinase 3 alpha like 1). [swissprot;acc:q9uij7]		242.14	265.697
	NME7	nucleoside diphosphate kinase 7 (ec 2.7.4.6) (ndk 7) (ndp kinase 7) (nm23-h7). [swissprot;acc:q9y5b8]	Low confidence	210.796	202.935	1.03874
348	no value	adenylate kinase isoenzyme 4, mitochondrial (ec 2.7.4.3) (atp-amp transphosphorylase). [swissprot;acc:p27144]	High confidence	242.14	265.696	1.09728
	SPG20	spartin; trans-activated by hepatitis c virus core protein 1. [refseq;acc:nm_015087]	Low confidence	210.796	202.935	1.03874
349	AP2A2	adapter-related protein complex 2 alpha 2 subunit (alpha-adaptin c) (clathrin assembly protein complex 2 alpha-c large chain) (100 kda coated vesicle protein c) (plasma membrane adaptor ha2/ap2 adaptin alpha c subunit) (huntingtin-interacting protein hypj). [swissprot;acc:o94973]		204.762	197.135	1.03869
	MED22	surfeit locus protein 5. [swissprot;acc:q15528]	High confidence	242.14	265.696	1.09728
350	PUF60	fuse-binding protein-interacting repressor isoform b; siah binding protein 1; pyrimidine tract binding splicing factor; ro ribonucleoprotein-binding protein 1; poly-u binding splicing factor puf60. [refseq;acc:nm_014281]	Low confidence	204.762	197.135	1.03869
	SCAPER	zinc finger protein 291. [swissprot;acc:q9by12]	High confidence	242.14	265.696	1.09728
351	AP2S1	clathrin coat assembly protein ap17 (clathrin coat associated protein ap17) (plasma membrane adaptor ap-2 17 kda protein) (ha2 17 kda subunit) (clathrin assembly protein 2 small chain). [swissprot;acc:p53680]	Low confidence	204.762	197.135	1.03869
	PEX1	peroxisome biogenesis factor 1 (peroxin-1) (peroxisome biogenesis disorder protein 1). [swissprot;acc:o43933]	High confidence	242.14	265.696	1.09728
352	no value	adapter-related protein complex 2 alpha 1 subunit (alpha-adaptin a) (adaptor protein complex ap-2 alpha-1 subunit) (clathrin assembly protein complex 2 alpha-a large chain) (100 kda coated vesicle protein a) (plasma membrane adaptor ha2/ap2 adaptin alpha a subunit). [swissprot;acc:o95782]	Low confidence	204.762	197.135	1.03869
	TXNDC9	protein 1-4 (atp binding protein associated with cell differentiation). [swissprot;acc:o14530]	High confidence	242.14	265.696	1.09728
353	GIPC1	rgs19-interacting protein 1 (gaip c-terminus interacting protein gipc) (rgs-gaip interacting protein) (tax interaction protein 2) (tip-2). [swissprot;acc:o14908]		231.73	211.252	1.09694
	UBE2G1	ubiquitin-conjugating enzyme e2 g1 (ec 6.3.2.19) (ubiquitin-protein ligase g1) (ubiquitin carrier protein g1) (e217k) (ubc7). [swissprot;acc:q99462]	Low confidence	202.962	195.416	1.03862
354	COG3	conserved oligomeric golgi complex component 3 (vesicle docking protein sec34 homolog) (p94). [swissprot;acc:q96jb2]		206.433	198.781	1.03849
	STX10	syntaxin 10 (syn10). [swissprot;acc:o60499]	High confidence	234.691	257.442	1.09694
355	RPP30	ribonuclease p protein subunit p30 (ec 3.1.26.5) (rnasep protein p30) (rnase p subunit 2). [swissprot;acc:p78346]	Low confidence	202.542	210.311	1.03836
	STX6	syntaxin 6. [swissprot;acc:o43752]	High confidence	234.673	257.414	1.09691
356	no value	60s ribosomal protein l10a (csa-19). [swissprot;acc:p53025]		243.24	266.796	1.09684
	SF3A3	splicing factor 3a subunit 3 (spliceosome associated protein 61) (sap 61) (sf3a60). [swissprot;acc:q12874]	Low confidence	202.387	194.949	1.03815
357	no value	60s ribosomal protein l10 (qm protein) (tumor suppressor qm) (laminin receptor homolog). [swissprot;acc:p27635]	High confidence	243.12	266.661	1.09683
	SF3A1	splicing factor 3 subunit 1 (spliceosome associated protein 114) (sap 114) (sf3a120). [swissprot;acc:q15459]	Low confidence	202.387	194.949	1.03815
358	MOCS2	molybdenum cofactor synthesis protein 2 large subunit (molybdopterin synthase large subunit) (mpt synthase large subunit) (mocs2b) (moco1- b). [swissprot;acc:o96007]		207.531	199.938	1.03798
	RPL10L	ribosomal protein l10-like protein. [refseq;acc:nm_080746]	High confidence	243.12	266.662	1.09683
359	MOCS3	molybdenum cofactor synthesis protein 3 (molybdopterin synthase sulfurylase) (mpt synthase sulfurylase). [swissprot;acc:o95396]	Low confidence	207.531	199.938	1.03798
	RPL4	60s ribosomal protein l4 (l1). [swissprot;acc:p36578]	High confidence	239.277	262.434	1.09678
360	no value	secreted modular calcium-binding protein 1. [refseq;acc:nm_022137]	Low confidence	204.231	196.773	1.0379
	SEC61G	protein transport protein sec61 gamma subunit. [swissprot;acc:p38384]	High confidence	243.072	266.559	1.09663
361	MRPL17	mitochondrial ribosomal protein l17; lyst-interacting protein lip2. [refseq;acc:nm_022061]		242.83	266.248	1.09644
	PFDN1	prefoldin subunit 1. [swissprot;acc:o60925]	Low confidence	204.231	196.773	1.0379
362	SHROOM2	apical-like protein (apxl protein). [swissprot;acc:q13796]	High confidence	231.492	211.136	1.09641
	SMOC2	secreted modular calcium-binding protein 2; smooth muscle associated protein 2. [refseq;acc:nm_022138]	Low confidence	204.231	196.773	1.0379
363	CHDH	choline dehydrogenase. [refseq;acc:nm_018397]
	SHROOM3	shroom-related protein; f-actin-binding protein; likely ortholog of mouse shroom. [refseq;acc:nm_020859]	High confidence	231.481	211.131	1.09639
364	DGCR14	dgcr14 protein (digeorge syndrome critical region 14) (es2 protein). [swissprot;acc:q96df8]	Low confidence	212.235	204.495	1.03785
	POLR2B	dna-directed rna polymerase ii 140 kda polypeptide (ec 2.7.7.6) (rna polymerase ii subunit 2) (rpb2). [swissprot;acc:p30876]	High confidence	243.208	266.617	1.09625
365	MRPL36	60s ribosomal protein l36, mitochondrial precursor (l36mt) (brca1- interacting protein 1). [swissprot;acc:q9p0j6]		242.744	266.07	1.09609
	SPAG7	sperm associated antigen 7. [refseq;acc:nm_004890]	Low confidence	117.525	121.959	1.03773
366	RPS5	40s ribosomal protein s5. [swissprot;acc:p46782]	High confidence	242.473	265.756	1.09602
	ZMIZ1	retinoic acid induced 17; pias-like protein hzimp10. [refseq;acc:nm_020338]	Low confidence	207.433	199.944	1.03746
367	HNRPM	heterogeneous nuclear ribonucleoprotein m (hnrnp m). [swissprot;acc:p52272]	High confidence	234.146	256.627	1.09601
	SORBS1	ponsin; sh3-domain protein 5 (ponsin). [refseq;acc:nm_015385]	Low confidence	206.945	199.503	1.0373
368	PUS1	trna pseudouridine synthase a (ec 4.2.1.70) (pseudouridylate synthase i) (pseudouridine synthase i) (uracil hydrolyase). [swissprot;acc:q9y606]	High confidence	242.66	265.715	1.09501

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.