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 2562 to 2611 of 12912 in total

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

Rank	description	Value Type	red	green	network_comparison
641	pram-1 protein; pml-rara target gene encoding an adaptor molecule-1. [refseq;acc:nm_032152]	Ranked	217.67	230.596	1.05938
	synapsin i (brain protein 4.1). [swissprot;acc:p17600]	Rooted	60.0129	64.7371	1.07872
	u6 snrna-associated sm-like protein lsm7. [swissprot;acc:q9uk45]	Squared	18364.9	21653.8	1.17909
642	6-phosphofructokinase, liver type (ec 2.7.1.11) (phosphofructokinase 1) (phosphohexokinase) (phosphofructo-1-kinase isozyme b) (pfk-b). [swissprot;acc:p17858]		16123.9	19009.7	1.17898
	atpase inhibitor, mitochondrial precursor. [swissprot;acc:q9uii2]	Measured	4810.85	5414.23	1.12542
	intersectin 2 (sh3 domain-containing protein 1b) (sh3p18) (sh3p18-like wasp associated protein). [swissprot;acc:q9nzm3]	Ranked	217.67	230.596	1.05938
	ponsin; sh3-domain protein 5 (ponsin). [refseq;acc:nm_015385]	Rooted	64.4857	69.5606	1.0787
643	6-phosphofructokinase, muscle type (ec 2.7.1.11) (phosphofructokinase 1) (phosphohexokinase) (phosphofructo-1-kinase isozyme a) (pfk-a) (phosphofructokinase-m). [swissprot;acc:p08237]	Squared	16126.5	19012.6	1.17897
	autophagy protein 12-like (apg12-like). [swissprot;acc:o94817]	Rooted	87.4586	81.0798	1.07867
	hiv-1 rev binding protein-like; rev/rex activation domain binding protein-related. [refseq;acc:nm_006076]	Ranked	217.67	230.596	1.05938
	polyamine oxidase isoform 1; polyamine oxidase; flavin-containing spermine oxidase; putative cyclin g1 interacting protein; flavin containing amine oxidase. [refseq;acc:nm_019025]	Measured	4810.85	5414.23	1.12542
644	6-phosphofructokinase, type c (ec 2.7.1.11) (phosphofructokinase 1) (phosphohexokinase) (phosphofructo-1-kinase isozyme c) (pfk-c) (6-phosphofructokinase, platelet type). [swissprot;acc:q01813]	Squared	16156.3	19046	1.17886
	cgthba protein (-14 gene protein). [swissprot;acc:q12980]	Ranked	217.67	230.596	1.05938
	cytochrome c-type heme lyase (ec 4.4.1.17) (cchl) (holocytochrome c- type synthase). [swissprot;acc:p53701]	Measured	4810.85	5414.22	1.12542
	rna polymerase i associated factor 53. [refseq;acc:nm_022490]	Rooted	51.1896	47.4617	1.07855
645	glutathione s-transferase theta 1 (ec 2.5.1.18) (gst class-theta) (glutathione transferase t1-1). [swissprot;acc:p30711]	Measured	4810.71	5413.89	1.12538
	hiv tat specific factor 1; cofactor required for tat activation of hiv-1 transcription. [refseq;acc:nm_014500]	Ranked	217.67	230.596	1.05938
	nif3-like protein 1 (amyotrophic lateral sclerosis 2 chromosomal region candidate gene protein 1) (my018 protein) (mds015). [swissprot;acc:q9gzt8]	Squared	22722.5	26786.5	1.17885
	preimplantation protein 3; likely ortholog of preimplantation protein 3. [refseq;acc:nm_015387]	Rooted	63.1463	68.1044	1.07852
646	3-hydroxyisobutyryl-coenzyme a hydrolase. [refseq;acc:nm_014362]	Squared	27898	32866.2	1.17808
	dnaj homolog subfamily b member 11 precursor (er-associated dnaj protein 3) (erj3) (er-associated hsp40 co-chaperone) (hdj9) (pwp1- interacting protein 4). [swissprot;acc:q9ubs4]	Rooted	63.1463	68.1044	1.07852
	fibrillarin (34 kda nucleolar scleroderma antigen). [swissprot;acc:p22087]	Measured	4019.88	4522.61	1.12506
	short coiled-coil protein; short coiled coil protein. [refseq;acc:nm_032547]	Ranked	216.731	229.549	1.05914
647	calcium-dependent protease, small subunit (calpain regulatory subunit) (calcium-activated neutral proteinase) (canp). [swissprot;acc:p04632]	Rooted	64.5657	69.6237	1.07834
	cathepsin b precursor (ec 3.4.22.1) (cathepsin b1) (app secretase). [swissprot;acc:p07858]	Squared	33384.2	39324.9	1.17795
	dynein light chain 2. [refseq;acc:nm_080677]	Ranked	216.731	229.549	1.05914
	short transient receptor potential channel 4 (trpc4) (trp-related protein 4) (htrp-4) (htrp4). [swissprot;acc:q9ubn4]	Measured	5167.88	4594.43	1.12481
648	methionyl-trna synthetase (ec 6.1.1.10) (methionine--trna ligase) (metrs). [swissprot;acc:p56192]	Ranked	218.227	206.078	1.05895
	retinoblastoma-like protein 1 (107 kda retinoblastoma-associated protein) (prb1) (p107). [swissprot;acc:p28749]	Squared	29174	34363.5	1.17788
	splicing factor 3a subunit 3 (spliceosome associated protein 61) (sap 61) (sf3a60). [swissprot;acc:q12874]	Measured	5248.07	5901.72	1.12455
	swi/snf-related, matrix-associated, actin-dependent regulator of chromatin subfamily f member 1 (swi-snf complex protein p270) (b120). [swissprot;acc:o14497]	Rooted	64.5685	69.6269	1.07834
649	eukaryotic translation initiation factor 4e (eif-4e) (eif4e) (mrna cap-binding protein) (eif-4f 25 kda subunit). [swissprot;acc:p06730]	Ranked	233.725	220.751	1.05877
	grancalcin. [swissprot;acc:p28676]	Rooted	64.5659	69.624	1.07834
	retinoblastoma-like protein 2 (130 kda retinoblastoma-associated protein) (prb2) (p130) (rbr-2). [swissprot;acc:q08999]	Squared	29173.8	34362.7	1.17786
	splicing factor 3 subunit 1 (spliceosome associated protein 114) (sap 114) (sf3a120). [swissprot;acc:q15459]	Measured	5248.07	5901.72	1.12455
650	chromodomain y-like protein 2. [refseq;acc:nm_152342]	Squared	29016.1	34169.2	1.17759
	golgi reassembly stacking protein 2; golgi reassembly stacking protein 2, 55 kda. [refseq;acc:nm_015530]	Measured	8362.81	9402.7	1.12435
	sorcin (22 kda protein) (cp-22) (v19). [swissprot;acc:p30626]	Rooted	64.566	69.6241	1.07834
	u6 snrna-associated sm-like protein lsm7. [swissprot;acc:q9uk45]	Ranked	228.986	216.276	1.05877
651	bai1-associated protein 3; bai-associated protein 3. [refseq;acc:nm_003933]		233.725	220.751
	ebp50-pdz interactor of 64 kda (epi64 protein). [swissprot;acc:q9bxi6]	Measured	5168.43	4597.44	1.1242
	programmed cell death protein 6 (probable calcium-binding protein alg- 2). [swissprot;acc:o75340]	Rooted	64.5685	69.6269	1.07834
	testis-specific chromodomain y protein 1. [swissprot;acc:q9y6f8]	Squared	29012.2	34163.9	1.17757
652	brg1-binding protein eld/osa1; eld (eyelid)/osa protein. [refseq;acc:nm_020732]	Rooted	64.5672	69.6254	1.07834
	chromodomain protein, y chromosome-like isoform a; cdy-like, autosomal; testis-specific chromodomain y-like protein. [refseq;acc:nm_004824]	Squared	29012.2	34163.9	1.17757
	short transient receptor potential channel 5 (trpc5) (htrp-5) (htrp5). [swissprot;acc:q9ul62]	Measured	5168.43	4597.44	1.1242
	tgf beta-inducible nuclear protein 1; hairy cell leukemia protein 1. [refseq;acc:nm_014886]	Ranked	248.994	235.255	1.0584
653	arg/abl-interacting protein 2 isoform 2; arg binding protein 2. [refseq;acc:nm_021069]	Rooted	64.4927	69.539	1.07825
	dok-like protein. [refseq;acc:nm_024872]	Ranked	216.504	204.622	1.05807
	methionyl-trna synthetase (ec 6.1.1.10) (methionine--trna ligase) (metrs). [swissprot;acc:p56192]	Measured	5560.06	6248.27	1.12378

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.