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 2680 to 2729 of 12912 in total

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

Rank	description	Value Type	red	green	network_comparison
670	tubby related protein 3 (tubby-like protein 3). [swissprot;acc:o75386]	Measured	6374.65	7145.59	1.12094
671	docking protein 2 (p56(dok-2)) (downstream of tyrosine kinase 2). [swissprot;acc:o60496]	Squared	28911	33971.3	1.17503
	nucleotide-binding protein 1 (nbp 1). [swissprot;acc:p53384]	Ranked	210.739	199.398	1.05688
	proline synthetase co-transcribed bacterial homolog protein. [swissprot;acc:o94903]	Rooted	68.6822	73.8955	1.0759
	vacuolar protein sorting 35 (vesicle protein sorting 35) (hvps35) (maternal-embryonic 3). [swissprot;acc:q96qk1]	Measured	6374.65	7145.59	1.12094
672	dna-directed rna polymerase i 135 kda polypeptide (ec 2.7.7.6) (rna polymerase i subunit 2) (rpa135). [swissprot;acc:q9h9y6]	Rooted	51.4203	47.7936	1.07588
	docking protein 1 (p62(dok)) (downstream of tyrosine kinase 1) (pp62). [swissprot;acc:q99704]	Squared	28911	33971.3	1.17503
	nucleotide binding protein 2 (nbp 2). [swissprot;acc:q9y5y2]	Ranked	210.739	199.398	1.05688
	protein kinase c, zeta type (ec 2.7.1.37) (npkc-zeta). [swissprot;acc:q05513]	Measured	6374.65	7145.59	1.12094
673	peripheral plasma membrane protein cask (ec 2.7.1.-) (hcask) (calcium/calmodulin-dependent serine protein kinase) (lin-2 homolog). [swissprot;acc:o14936]	Ranked	226.497	214.355	1.05664
	poly(a) polymerase alpha (ec 2.7.7.19) (pap) (polynucleotide adenylyltransferase alpha) (fragment). [swissprot;acc:p51003]	Rooted	132.156	122.835	1.07588
	transcription factor btf3 (rna polymerase b transcription factor 3). [swissprot;acc:p20290]	Measured	6933.17	7766.54	1.1202
	tyrosine-protein kinase frk (ec 2.7.1.112) (nuclear tyrosine protein kinase rak). [swissprot;acc:p42685]	Squared	28911	33971.3	1.17503
674	apoptosis inhibitor fksg2. [swissprot;acc:q9hau6]		42467.5	36156.7	1.17454
	exocyst complex component sec5. [swissprot;acc:q96kp1]	Rooted	132.114	122.802	1.07583
	hypoxia-inducible factor-3 alpha isoform a; inhibitory pas domain protein. [refseq;acc:nm_152794]	Ranked	226.497	214.355	1.05664
	sprouty homolog 4 (spry-4). [swissprot;acc:q9c004]	Measured	5549.2	6215.42	1.12006
675	poly(a) polymerase gamma (ec 2.7.7.19) (pap gamma) (polynucleotide adenylyltransferase gamma) (srp rna 3' adenylating enzyme). [swissprot;acc:q9bwt3]	Rooted	132.063	122.761	1.07577
	single-minded homolog 1. [swissprot;acc:p81133]	Ranked	226.497	214.355	1.05664
	sprouty homolog 3 (spry-3). [swissprot;acc:o43610]	Measured	5549.2	6215.42	1.12006
	[3-methyl-2-oxobutanoate dehydrogenase [lipoamide]] kinase, mitochondrial precursor (ec 2.7.1.115) (branched-chain alpha-ketoacid dehydrogenase kinase) (bckdhkin) (bckd-kinase). [swissprot;acc:o14874]	Squared	22347.6	26247.3	1.1745
676	cleavage and polyadenylation specificity factor, 73 kda subunit (cpsf 73 kda subunit). [swissprot;acc:q9ukf6]	Rooted	132.467	123.158	1.07559
	dipeptidylpeptidase 10; dipeptidyl peptidase iv-related protein 3. [refseq;acc:nm_020868]	Squared	22337.3	26234.1	1.17445
	dna-directed rna polymerase ii 19 kda polypeptide (ec 2.7.7.6) (rpb7). [swissprot;acc:p52433]	Ranked	232.469	245.613	1.05654
	sprouty homolog 1 (spry-1) (fragment). [swissprot;acc:o43609]	Measured	5549.2	6215.42	1.12006
677	cytochrome c oxidase assembly protein cox11, mitochondrial precursor. [swissprot;acc:q9y6n1]	Squared	22335.8	26232.2	1.17445
	lymphoid enhancer binding factor 1 (lef-1) (t cell-specific transcription factor 1-alpha) (tcf1-alpha). [swissprot;acc:q9uju2]	Rooted	59.2629	63.7418	1.07558
	sprouty homolog 2 (spry-2). [swissprot;acc:o43597]	Measured	5549.2	6215.42	1.12006
	u6 snrna-associated sm-like protein lsm4 (glycine-rich protein) (grp). [swissprot;acc:q9y4z0]	Ranked	228.944	216.745	1.05628
678	myelin gene expression factor 2. [refseq;acc:nm_016132]	Rooted	56.8369	52.8585	1.07527
	sorting nexin 5. [swissprot;acc:q9y5x3]	Ranked	208.482	220.175	1.05609
	surfeit locus protein 1. [swissprot;acc:q15526]	Squared	22335.8	26232.2	1.17445
	transcription factor btf3 homolog 3. [swissprot;acc:q13892]	Measured	6938.22	7770.65	1.11998
679	adenylosuccinate synthase-like 1. [refseq;acc:nm_152328]		6503.1	7282.94	1.11992
	dipeptidyl aminopeptidase-like protein 6 (dipeptidylpeptidase vi) (dipeptidylpeptidase 6) (dipeptidyl peptidase iv like protein) (dipeptidyl aminopeptidase-related protein) (dppx). [swissprot;acc:p42658]	Squared	22337.3	26234.1	1.17445
	homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]	Ranked	132.413	125.389	1.05602
	putative pre-mrna splicing factor rna helicase (atp-dependent rna helicase #3) (deah-box protein 16). [swissprot;acc:o60231]	Rooted	61.5558	66.1861	1.07522
680	adenylosuccinate synthetase (ec 6.3.4.4) (imp--aspartate ligase) (adss) (ampsase). [swissprot;acc:p30520]	Measured	6503.03	7282.5	1.11986
	homeobox protein hox-b4 (hox-2f) (hox-2.6). [swissprot;acc:p17483]	Ranked	132.413	125.389	1.05602
	seprase (ec 3.4.21.-) (fibroblast activation protein alpha) (integral membrane serine protease) (170-kda melanoma membrane-bound gelatinase). [swissprot;acc:q12884]	Squared	22336.8	26233.5	1.17445
	t54 protein. [swissprot;acc:q92917]	Rooted	61.5558	66.1861	1.07522
681	cox15 homolog isoform 2 precursor; cytochrome c oxidase subunit 15; cytochrome c oxidase assembly protein. [refseq;acc:nm_004376]	Squared	22335.8	26232.2	1.17445
	homeobox protein hox-c5 (hox-3d) (cp11). [swissprot;acc:q00444]	Ranked	132.413	125.389	1.05602
	oligopeptide transporter, kidney isoform (peptide transporter 2) (kidney h+/peptide cotransporter) (solute carrier family 15, member 2). [swissprot;acc:q16348]	Rooted	80.2562	86.277	1.07502
	ribosomal protein l24-like; 60s ribosomal protein l30 isolog; my024 protein; homolog of yeast ribosomal like protein 24. [refseq;acc:nm_016304]	Measured	7170.83	8029.64	1.11976
682	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]	Ranked	132.413	125.389	1.05602
	protoheme ix farnesyltransferase, mitochondrial precursor (ec 2.5.1.-) (heme o synthase). [swissprot;acc:q12887]	Squared	22335.8	26232.2	1.17445
	stem cell growth factor; lymphocyte secreted c-type lectin; lymphocyte secreted c-type lectin. [refseq;acc:nm_002975]	Rooted	86.5959	93.0684	1.07474
	syntaxin 12. [refseq;acc:nm_177424]	Measured	5552.92	6217.59	1.1197
683	homeobox protein hox-d4 (hox-4b) (hox-5.1) (hho.c13). [swissprot;acc:p09016]	Ranked	132.413	125.389	1.05602

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.