Scientific

MK5 Microarray Data

Affected Genes - Ontology Breakdown - Gene Enrichment - Proteome Analysis

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.

MK5 Proteome Analysis - Divided Values

Type II network, divided values. Interestingly most of the proteins in the first 100 positions in this table would occur in the divided ranks table between position 100 and 200, indicating a difference in emphasis between the two simulations but not in the overall function. The fully annotated table, include Ensembl gene identifiers and network values can be found in the supplementary data.

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Click on the attribute name to hide/unhide it. The green arrows can be used to shift columns left/right. Exact word match is written as =..., regular expressions can be matched with ~.... To select all values larger or equal than use >.... This would be <... for values smaller or equal than. To select all values within a specific range use [...,...].

Filtered green Value Type Network Comparison Type Gene red Interaction Map network_comparison Rank description

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Showing element 501 to 550 of 77072 in total

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green	Value Type	Network Comparison Type	red	Interaction Map	network_comparison	Rank	description
5.39669	Squared	Divided	1.22698	High confidence	4.39835	52	selenide,water dikinase 2 (ec 2.7.9.3) (selenophosphate synthetase 2) (selenium donor protein 2). [swissprot;acc:q99611]
			1.22698	Low confidence	4.39835	56
			33.64	High confidence	6.23345	42	nanos (fragment). [sptrembl;acc:q8wy41]
		Subtracted	1.22698	High confidence	4.16971	420	selenide,water dikinase 2 (ec 2.7.9.3) (selenophosphate synthetase 2) (selenium donor protein 2). [swissprot;acc:q99611]
			1.22698	Low confidence	4.16971	774
			33.64	High confidence	28.2433	358	nanos (fragment). [sptrembl;acc:q8wy41]
5.42219		Divided	12.5892		2.32179	91	lats homolog 1. [refseq;acc:nm_004690]
						92	sh3 domain-binding glutamic acid-rich-like protein 2 (fovea-associated sh3 domain binding protein). [swissprot;acc:q9ujc5]
				Low confidence		90	lats homolog 1. [refseq;acc:nm_004690]
				Low confidence		91	sh3 domain-binding glutamic acid-rich-like protein 2 (fovea-associated sh3 domain binding protein). [swissprot;acc:q9ujc5]
		Subtracted		High confidence	7.16701	400	lats homolog 1. [refseq;acc:nm_004690]
				High confidence		401	sh3 domain-binding glutamic acid-rich-like protein 2 (fovea-associated sh3 domain binding protein). [swissprot;acc:q9ujc5]
				Low confidence		761	lats homolog 1. [refseq;acc:nm_004690]
				Low confidence		762	sh3 domain-binding glutamic acid-rich-like protein 2 (fovea-associated sh3 domain binding protein). [swissprot;acc:q9ujc5]
5.56738	Measured	Divided	199.549	High confidence	35.8425	11	serpin b12. [swissprot;acc:q96p63]
		Divided		Low confidence	35.8425	10
		Subtracted		High confidence	193.982	168
		Subtracted		Low confidence	193.982	280
5.56776	Rooted	Divided	5.83095		1.04727	544	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]
5.56776	Rooted	Subtracted	5.83095		0.26319	768
5.58446	Squared	Divided	23.0581		4.12898	61	laminin beta-1 chain precursor (laminin b1 chain). [swissprot;acc:p07942]
5.58446	Squared	Subtracted	23.0581		17.4736	732
5.66499	Rooted	Divided	9.92134	High confidence	1.75134	43	40s ribosomal protein s26. [swissprot;acc:p02383]
5.66499	Rooted	Subtracted	9.92134		4.25635	115	40s ribosomal protein s26. [swissprot;acc:p02383]
5.71669	Measured	Divided	199.249		34.8539	12	hurpin (hacat uv-repressible serpin) (protease inhibitor 13) (headpin) (serpin b13). [swissprot;acc:q9uiv8]
		Divided		Low confidence	34.8539	11
		Subtracted		High confidence	193.532	169
		Subtracted		Low confidence	193.532	281
5.76	Squared	Divided	0.0236686	High confidence	243.36	21	succinate dehydrogenase [ubiquinone] cytochrome b small subunit, mitochondrial precursor (cybs) (succinate-ubiquinone reductase membrane anchor subunit) (qps2) (cii-4) (succinate dehydrogenase complex subunit d) (succinate-ubiquinone oxidoreductase cytochrome b small subunit). [swissprot;acc:o14521]
5.76		Subtracted	0.0236686	High confidence	5.73633	407
5.80317		Divided	0.0279126	Low confidence	207.905	15	fk506-binding protein 6 (ec 5.2.1.8) (peptidyl-prolyl cis-trans isomerase) (ppiase) (rotamase) (36 kda fk506 binding protein) (fkbp- 36) (immunophilin fkbp36). [swissprot;acc:o75344]
5.80317		Subtracted	0.0279126		5.77526	766
5.80678	Rooted	Divided	9.84765		1.69589	32	melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [refseq;acc:nm_030801]
						33	melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [swissprot;acc:p43357]
						34	melanoma-associated antigen 11 (mage-11 antigen). [swissprot;acc:p43364]
						35	melanoma-associated antigen 2 (mage-2 antigen). [swissprot;acc:p43356]
						36	hepatocellular carcinoma-associated protein hca1. [refseq;acc:nm_020932]
						37	melanoma-associated antigen 6 (mage-6 antigen) (mage3b). [swissprot;acc:p43360]
						39	melanoma-associated antigen f1 (mage-f1 antigen). [swissprot;acc:q9hay2]
						40	melanoma-associated antigen 4 (mage-4 antigen) (mage-x2) (mage-41). [swissprot;acc:p43358]
						41	melanoma-associated antigen 9 (mage-9 antigen). [swissprot;acc:p43362]
						42	melanoma-associated antigen 8 (mage-8 antigen). [swissprot;acc:p43361]
						43	melanoma-associated antigen c1 (mage-c1 antigen) (cancer-testis antigen ct7). [swissprot;acc:o60732]
						44	melanoma-associated antigen 12 (mage-12 antigen) (mage12f). [swissprot;acc:p43365]
						45	melanoma-associated antigen 1 (mage-1 antigen) (antigen mz2-e). [swissprot;acc:p43355]
						47	melanoma-associated antigen b1 (mage-b1 antigen) (mage-xp antigen) (dss-ahc critical interval mage superfamily 10) (dam10). [swissprot;acc:p43366]
						48	melanoma-associated antigen d2 (mage-d2 antigen) (breast cancer associated gene 1 protein) (bcg-1) (11b6) (hepatocellular carcinoma associated protein jcl-1). [swissprot;acc:q9unf1]
		Subtracted			4.04087	196	melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [refseq;acc:nm_030801]
						197	melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [swissprot;acc:p43357]
						198	melanoma-associated antigen 11 (mage-11 antigen). [swissprot;acc:p43364]

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.

- http://analysis.yellowcouch.org/