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 80 to 129 of 321 in total

Hugo  : no value
Value Type  : Ranked
Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1

Rank	description	red	green	network_comparison
724	dj1099d15.1 (putative dnaj protein). [sptrembl;acc:q9h4j9]	244.842	232.577	1.05274
729	huntingtin interacting protein e; huntingtin interactor protein e. [refseq;acc:nm_007076]	208.874	219.708	1.05187
734	presenilin-like protein 2 (ec 3.4.99.-) (sppl2a protein). [swissprot;acc:q8tct8]	232.601	244.534	1.0513
736	presenilin-like protein 1 (ec 3.4.99.-) (sppl2b protein). [swissprot;acc:q8tct7]
747	trinucleotide repeat containing 15. [refseq;acc:nm_015575]	250.465	238.38	1.0507
751	u2 small nuclear ribonucleoprotein auxiliary factor 35 kda subunit related-protein 1. [swissprot;acc:q15695]	223.463	212.875	1.04974
767	rho interacting protein 3. [refseq;acc:nm_015134]	213.803	224.224	1.04874
775	histone deacetylase 2 (hd2). [swissprot;acc:q92769]	226.003	215.541	1.04854
776	dj153g14.2 (possible ca binding protein similar to nefa) (fragment). [sptrembl;acc:q9ujn8]	225.996	215.535
782	translin. [swissprot;acc:q15631]	224.385	235.131	1.04789
789	40s ribosomal protein sa (p40) (34/67 kda laminin receptor) (colon carcinoma laminin-binding protein) (nem/1chd4) (multidrug resistance- associated protein mgr1-ag). [swissprot;acc:p08865]	224.244	234.511	1.04578
792	maspin precursor (protease inhibitor 5). [swissprot;acc:p36952]
795	serpin b11. [swissprot;acc:q96p15]
797	cytoplasmic antiproteinase 2 (cap2) (cap-2) (protease inhibitor 8) (serpin b8). [swissprot;acc:p50452]
831	hepatoma-derived growth factor-related protein 2. [refseq;acc:nm_032631]	231.734	222.222	1.0428
832	cgi-142; hepatoma-derived growth factor 2. [refseq;acc:nm_016073]
846	methyltransferase like 2. [refseq;acc:nm_018396]	147.211	153.371	1.04184
859	60s ribosomal protein l39. [swissprot;acc:p02404]	234.025	224.958	1.04031
860	60s ribosomal protein l18a. [swissprot;acc:q02543]
867	40s ribosomal protein s3a. [swissprot;acc:p49241]	225.689	234.674	1.03981
870	transcription factor btf3 homolog 3. [swissprot;acc:q13892]	211.908	203.832	1.03962
884	ga binding protein beta-2 chain (gabp-beta-2 subunit) (transcription factor e4tf1-47) (gapbp-2) (nuclear respiratory factor-2 subunit gamma). [swissprot;acc:q06545]	227.596	219.017	1.03917
888	nascent-polypeptide-associated complex alpha polypeptide. [refseq;acc:nm_005594]	212.027	204.05	1.03909
889	alpha-nac protein. [sptrembl;acc:q9h009]	212.028	204.053	1.03908
898	60s acidic ribosomal protein p1. [swissprot;acc:p05386]	229.171	238.048	1.03874
905	dna directed rna polymerase ii polypeptide j-related gene isoform 3; rpb11b1alpha protein; rpb11b1beta; dna-directed rna polymerase ii subunit 11. [refseq;acc:nm_032959]	230.768	239.632	1.03841
906	dna directed rna polymerase ii polypeptide j-related gene isoform 1; rpb11b1alpha protein; rpb11b1beta; dna-directed rna polymerase ii subunit 11. [refseq;acc:nm_145325]	230.764	239.62	1.03838
908	tax interaction protein 1. [refseq;acc:nm_014604]	223.906	215.653	1.03827
910	uba/ubx 33.3 kda protein. [swissprot;acc:q04323]	217.168	209.207	1.03805
911	ero1-like. [refseq;acc:nm_014584]
927	microsomal signal peptidase 18 kda subunit (ec 3.4.-.-) (spase 18 kda subunit) (spc18) (endopeptidase sp18). [swissprot;acc:p21378]	217.942	210.139	1.03713
935	sirtuin 7; sir2-related protein type 7; sirtuin type 7; sirtuin (silent mating type information regulation 2, s.cerevisiae, homolog) 7; silent mating type information regulation 2, s.cerevisiae, homolog 7; sirtuin silent mating type information regulation 2 homolog 7 (s. cerevisiae). [refseq;acc:nm_016538]	232.473	224.372	1.03611
936	casein kinase ii beta chain (ck ii) (phosvitin) (g5a). [swissprot;acc:p13862]
946	histone h4. [swissprot;acc:p02304]	227.765	219.902	1.03576
949	huntingtin-associated protein-interacting protein (duo protein). [swissprot;acc:o60229]	217.253	209.826	1.0354
959	guanine nucleotide-binding protein beta subunit-like protein 12.3 (p205) (receptor of activated protein kinase c 1) (rack1) (receptor for activated c kinase). [swissprot;acc:p25388]	237.558	229.677	1.03431
978	prefoldin subunit 6 (protein ke2). [swissprot;acc:o15212]	228.953	221.421	1.03402
996	mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]	219.656	212.547	1.03345
1000	sprouty homolog 4 (spry-4). [swissprot;acc:q9c004]	225.167	217.922	1.03325
1004	sh2 domain binding protein 1; tpr-containing, sh2-binding phosphoprotein. [refseq;acc:nm_014633]	238.725	231.059	1.03318
1009	dihydropyrimidine dehydrogenase [nadp+] precursor (ec 1.3.1.2) (dpd) (dhpdhase) (dihydrouracil dehydrogenase) (dihydrothymine dehydrogenase). [swissprot;acc:q12882]	229.116	221.823	1.03288
1038	1-acyl-sn-glycerol-3-phosphate acyltransferase alpha (ec 2.3.1.51) (1- agp acyltransferase 1) (1-agpat 1) (lysophosphatidic acid acyltransferase-alpha) (lpaat-alpha) (1-acylglycerol-3-phosphate o- acyltransferase 1) (g15 protein). [swissprot;acc:q99943]	186.741	181.041	1.03148
1042	estrogen-related receptor gamma (estrogen receptor related protein 3) (err gamma-2). [swissprot;acc:o75454]	186.799	181.127	1.03132
1049	adenine phosphoribosyltransferase (ec 2.4.2.7) (aprt). [swissprot;acc:p07741]	211.449	217.998	1.03097
1051	17 beta-hydroxysteroid dehydrogenase. [sptrembl;acc:q13034]
1054	60s ribosomal protein l21. [swissprot;acc:p46778]	223.958	217.263	1.03082
1059	ataxin 2; olivopontocerebellar ataxia 2, autosomal dominant. [refseq;acc:nm_002973]	228.105	221.293	1.03078
1063	zinc finger imprinted 2. [swissprot;acc:q9nzv7]	269.96	278.232	1.03064
1071	dna-directed rna polymerase i 16 kda polypeptide (ec 2.7.7.6) (rpa16). [swissprot;acc:q9y2s0]	231.277	238.356	1.03061
1086	similar to zinc finger protein 277. [sptrembl;acc:q8wwa6]	236.679	243.679	1.02958

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.