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	Value Type	Network Comparison Type	Interaction Map	Filtered	red	green	network_comparison

Results: HTML CSV LaTeX

Showing element 6264 to 6313 of 12912 in total

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

Rank	description	Value Type	red	green	network_comparison
1566	protein phosphatase 1, regulatory (inhibitor) subunit 12b isoform a; myosin phosphatase regulatory subunit; myosin phosphatase, target subunit 2. [refseq;acc:nm_002481]	Measured	5846.67	6269.41	1.0723
1567	26s protease regulatory subunit 6b (mip224) (mb67 interacting protein) (tat-binding protein-7) (tbp-7). [swissprot;acc:p43686]		5822.25	6242.94	1.07226
	bardet-biedl syndrome 7 protein isoform a; bbs2-like 1. [refseq;acc:nm_176824]	Ranked	221.128	224.767	1.01646
	megf11 protein. [refseq;acc:nm_032445]	Squared	29503.9	32791.7	1.11144
	sal-like protein 2 (zinc finger protein sall2) (hsal2). [swissprot;acc:q9y467]	Rooted	61.97	64.1935	1.03588
1568	ba508n22.1 (hspc025) (fragment). [sptrembl;acc:q9hcw5]	Ranked	221.128	224.767	1.01646
	megf10 protein. [refseq;acc:nm_032446]	Squared	29503.5	32791.2	1.11143
	protein phosphatase 1, regulatory (inhibitor) subunit 12a; myosin phosphatase, target subunit 1. [refseq;acc:nm_002480]	Measured	5845.22	6267.34	1.07222
	sal-like protein 3 (zinc finger protein sall3) (hsall3). [swissprot;acc:q9bxa9]	Rooted	61.9702	64.1936	1.03588
1569	arginine-glutamic acid dipeptide (re) repeats; atrophin 1-like; arginine glutamic acid dipeptide re repeats. [refseq;acc:nm_012102]		61.9705	64.1938
	beta adducin (erythrocyte adducin beta subunit). [swissprot;acc:p35612]	Squared	29502.7	32790.1	1.11143
	lipopolysaccharide-responsive and beige-like anchor protein (cdc4-like protein) (beige-like protein). [swissprot;acc:p50851]	Ranked	221.128	224.767	1.01646
	traf and tnf receptor-associated protein; ets1-associated protein 2. [refseq;acc:nm_016614]	Measured	5819.37	6239.55	1.0722
1570	26s proteasome non-atpase regulatory subunit 13 (26s proteasome regulatory subunit s11) (26s proteasome regulatory subunit p40.5). [swissprot;acc:q9unm6]	Squared	26688.8	29658.6	1.11128
	n-acetylglutamate synthase. [refseq;acc:nm_153006]	Measured	5162.27	5534.71	1.07215
	protein c20orf45 (cgi-107). [swissprot;acc:q9y3b1]	Ranked	221.128	224.767	1.01646
	ubiquitin carboxyl-terminal hydrolase 8 (ec 3.1.2.15) (ubiquitin thiolesterase 8) (ubiquitin-specific processing protease 8) (deubiquitinating enzyme 8). [swissprot;acc:p40818]	Rooted	61.9703	64.1936	1.03588
1571	26s proteasome non-atpase regulatory subunit 7 (26s proteasome regulatory subunit s12) (proteasome subunit p40) (mov34 protein homolog). [swissprot;acc:p51665]	Measured	5851.64	6273.4	1.07208
	eukaryotic translation initiation factor 3 subunit 6 interacting protein (hspc021/hspc025). [swissprot;acc:q9y262]	Ranked	221.128	224.767	1.01646
	phenylalanyl-trna synthetase alpha chain (ec 6.1.1.20) (phenylalanine- -trna ligase alpha chain) (phers) (cml33). [swissprot;acc:q9y285]	Squared	22613.3	25129.4	1.11127
	rod1 regulator of differentiation 1; fission yeast differentiation regulator; regulator of differentiation (in s. pombi) 1; regulator of differentiation (in s. pombe) 1. [refseq;acc:nm_005156]	Rooted	61.9703	64.1936	1.03588
1572	phenylalanine-trna synthetase. [refseq;acc:nm_006567]	Squared	22613.3	25129.4	1.11127
	polypyrimidine tract binding protein 2; neural polypyrimidine tract binding protein; ptb-like protein. [refseq;acc:nm_021190]	Rooted	61.9703	64.1936	1.03588
	proteasome subunit alpha type 1 (ec 3.4.25.1) (proteasome component c2) (macropain subunit c2) (multicatalytic endopeptidase complex subunit c2) (proteasome nu chain) (30 kda prosomal protein) (pros-30). [swissprot;acc:p25786]	Measured	6068.03	6504.59	1.07194
	putative rna-binding protein 7 (rna binding motif protein 7). [swissprot;acc:q9y580]	Ranked	221.128	224.767	1.01646
1573	adaptor-associated kinase 1. [refseq;acc:nm_014911]	Rooted	61.9703	64.1936	1.03588
	epoxide hydrolase 1 (ec 3.3.2.3) (microsomal epoxide hydrolase) (epoxide hydratase). [swissprot;acc:p07099]	Measured	11785.4	10995.3	1.07186
	r3h domain protein 1. [swissprot;acc:q15032]	Ranked	218.105	214.573	1.01646
	sh2 domain binding protein 1; tpr-containing, sh2-binding phosphoprotein. [refseq;acc:nm_014633]	Squared	17375.5	19308.1	1.11123
1574	alpha adducin (erythrocyte adducin alpha subunit). [swissprot;acc:p35611]		29470.8	32748.2	1.11121
	atp-dependent clp protease atp-binding subunit clpx-like, mitochondrial precursor. [swissprot;acc:o76031]	Measured	5106.13	5472.96	1.07184
	atrophin-1 (dentatorubral-pallidoluysian atrophy protein). [swissprot;acc:p54259]	Rooted	61.9701	64.1935	1.03588
	tata element modulatory factor (tmf). [swissprot;acc:p82094]	Ranked	222.585	218.982	1.01645
1575	dead (asp-glu-ala-asp) box polypeptide 47; hqp0256 protein. [refseq;acc:nm_016355]	Rooted	61.9703	64.1936	1.03588
	dna polymerase delta p38 subunit. [refseq;acc:nm_015584]	Measured	5106.13	5472.96	1.07184
	glycogenin-1 (ec 2.4.1.186). [swissprot;acc:p46976]	Squared	28606.1	31783.4	1.11107
	scy1-like 1; telomerase regulation-associated protein; ht019 protein; telomerase regulation-associated protein; n-terminal kinase-like protein; teratoma-associated tyrosine kinase; n-terminal kinase-like. [refseq;acc:nm_020680]	Ranked	222.585	218.982	1.01645
1576	adenosine kinase (ec 2.7.1.20) (ak) (adenosine 5'-phosphotransferase). [swissprot;acc:p55263]	Squared	28606.1	31783.4	1.11107
	mitochondrial ribosomal protein l30 isoform a. [refseq;acc:nm_145212]	Measured	5923.66	6349.04	1.07181
	nuclear pore complex protein nup98 (nucleoporin nup98) (98 kda nucleoporin). [swissprot;acc:p52948]	Ranked	222.585	218.982	1.01645
	rho-gtpase activating protein 10. [refseq;acc:nm_020824]	Rooted	61.9703	64.1936	1.03588
1577	26s protease regulatory subunit s10b (proteasome subunit p42) (p44) (conserved atpase domain protein 44) (cadp44). [swissprot;acc:q92524]	Measured	5923.66	6349.04	1.07181
	ammecr1 protein. [refseq;acc:nm_015365]	Ranked	222.585	218.982	1.01645
	protein x 0001. [refseq;acc:nm_016302]	Squared	28606.1	31783.4	1.11107
	sal-like protein 1 (zinc finger protein sall1) (spalt-like transcription factor 1) (hsal1). [swissprot;acc:q9nsc2]	Rooted	61.9705	64.1938	1.03588
1578	glycogenin-2 (ec 2.4.1.186) (gn-2) (gn2). [swissprot;acc:o15488]	Squared	28606.1	31783.4	1.11107
	mrna-associated protein mrnp 41 (rae1 protein homolog). [swissprot;acc:p78406]	Ranked	222.585	218.982	1.01645
	proteasome subunit alpha type 4 (ec 3.4.25.1) (proteasome component c9) (macropain subunit c9) (multicatalytic endopeptidase complex subunit c9) (proteasome subunit l). [swissprot;acc:p25789]	Measured	6213.27	6659.39	1.0718
	sal-like protein 4 (zinc finger protein sall4). [swissprot;acc:q9ujq4]	Rooted	61.9701	64.1935	1.03588
1579	2-oxoisovalerate dehydrogenase beta subunit, mitochondrial precursor (ec 1.2.4.4) (branched-chain alpha-keto acid dehydrogenase e1 component beta chain) (bckdh e1-beta). [swissprot;acc:p21953]		61.9705	64.1938

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
- 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.