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

Results: HTML CSV LaTeX

Showing element 12864 to 12913 of 25824 in total

Interaction Map  : High confidence
Filtered  : 1

Rank	description	Hugo	Value Type	Network Comparison Type	red	network_comparison	green
1608	ubiquitin. [swissprot;acc:p02248]	UBC	Measured	Divided	6158.22	1.07134	6597.55
1609	26s proteasome non-atpase regulatory subunit 10 (26s proteasome regulatory subunit p28) (gankyrin). [swissprot;acc:o75832]	PSMD10			5826.74		6242.44
	apolipoprotein a-i binding protein; apoa-i binding protein. [refseq;acc:nm_144772]	APOA1BP	Ranked	Subtracted	207.916	3.254	204.662
	eukaryotic translation initiation factor 2 subunit 3 (eukaryotic translation initiation factor 2 gamma subunit) (eif-2-gamma). [swissprot;acc:p41091]	EIF2S3	Squared		24291.6	2510.8	26802.4
	proteasome subunit beta type 5 precursor (ec 3.4.25.1) (proteasome epsilon chain) (macropain epsilon chain) (multicatalytic endopeptidase complex epsilon chain) (proteasome subunit x) (proteasome chain 6) (proteasome subunit mb1). [swissprot;acc:p28074]	PSMB5	Rooted	Divided	65.5919	1.03494	67.884
	sal-like protein 4 (zinc finger protein sall4). [swissprot;acc:q9ujq4]	SALL4		Subtracted	61.9701	2.2234	64.1935
	serine/threonine-protein kinase dcamkl1 (ec 2.7.1.-) (doublecortin- like and cam kinase-like 1). [swissprot;acc:o15075]	DCLK1	Measured		6297.05	424.03	6721.08
	utp--glucose-1-phosphate uridylyltransferase 2 (ec 2.7.7.9) (udp- glucose pyrophosphorylase 2) (udpgp 2) (ugpase 2). [swissprot;acc:q16851]	UGP2	Ranked	Divided	208.113	1.0158	204.876
	wilms' tumor 1-associating protein (wt1-associated protein). [swissprot;acc:q15007]	WTAP	Squared		28992.5	1.10876	32145.6
1610	c18b11 homolog (44.9kd). [refseq;acc:nm_152260]	RPUSD2	Ranked	Subtracted	217.446	3.246	214.2
	clathrin coat assembly protein ap180 (clathrin coat associated protein ap180) (91 kda synaptosomal-associated protein). [swissprot;acc:o60641]	SNAP91	Rooted		61.9701	2.2234	64.1935
	eif-5a2 protein. [refseq;acc:nm_020390]	EIF5A2	Measured	Divided	6222.4	1.07126	6665.83
	hiv-1 rev binding protein 2; rev interacting protein. [refseq;acc:nm_007043]	KRR1	Squared		15639.2	1.10866	17338.5
	proto-oncogene tyrosine-protein kinase fes/fps (ec 2.7.1.112) (c-fes). [swissprot;acc:p07332]	FES	Measured	Subtracted	6079.19	423.93	6503.12
	sodium/iodide cotransporter (na(+)/i(-) cotransporter) (sodium-iodide symporter) (na+/i-symporter). [swissprot;acc:q92911]	SLC5A5	Rooted	Divided	67.4766	1.03489	69.831
	tata element modulatory factor (tmf). [swissprot;acc:p82094]	TMF1	Squared	Subtracted	23713.7	2510.1	26223.8
	ubiquitin-conjugating enzyme e2 variant 2; 1 alpha,25-dihydroxyvitamin d3-inducible; enterocyte differentiation promoting factor; methyl methanesulfonate sensitive 2, s. cerevisiae, homolog of. [refseq;acc:nm_003350]	UBE2V2	Ranked	Divided	208.122	1.01579	204.886
1611	arginine-glutamic acid dipeptide (re) repeats; atrophin 1-like; arginine glutamic acid dipeptide re repeats. [refseq;acc:nm_012102]	RERE	Rooted	Subtracted	61.9705	2.2233	64.1938
	cdc42-interacting protein 4 (thyroid receptor interacting protein 10) (trip-10). [swissprot;acc:q15642]	TRIP10	Measured	Divided	5497.73	1.07119	5132.35
	heat shock factor binding protein 1. [swissprot;acc:o75506]	no value	Squared		27263.5	1.10865	30225.7
	kidney and liver proline oxidase 1. [refseq;acc:nm_021232]	PRODH2	Rooted		67.4958	1.03486	69.8487
	molybdenum cofactor synthesis protein 2 large subunit (molybdopterin synthase large subunit) (mpt synthase large subunit) (mocs2b) (moco1- b). [swissprot;acc:o96007]	MOCS2	Measured	Subtracted	6079.19	423.93	6503.12
	p10-binding protein. [refseq;acc:nm_024491]	CEP70	Ranked	Divided	221.313	1.01577	217.877
	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]	SCYL1	Squared	Subtracted	23713.7	2510.1	26223.8
	z-protein (protein cgi-119) (s1r protein). [swissprot;acc:q9hc24]	TMBIM4	Ranked		217.446	3.246	214.2
1612	anaphase-promoting complex subunit 10; anaphase-promoting complex 10. [refseq;acc:nm_014885]	ANAPC10	Measured		6079.19	423.93	6503.12
	brain protein 16. [refseq;acc:nm_016458]	no value	Squared	Divided	26202.2	1.10845	29043.8
	enthoprotin; epsin 4; clathrin interacting protein localized in the trans-golgi region. [refseq;acc:nm_014666]		Ranked		221.426	1.0157	224.902
	eukaryotic translation initiation factor 5a (eif-5a) (eif-4d) (rev- binding factor). [swissprot;acc:p10159]	EIF5AP1	Measured		6212.98	1.07116	6655.12
	nuclear pore complex protein nup98 (nucleoporin nup98) (98 kda nucleoporin). [swissprot;acc:p52948]	NUP98	Squared	Subtracted	23713.7	2510.1	26223.8
	pp1201 protein. [refseq;acc:nm_022152]	TMBIM1	Ranked		217.446	3.246	214.2
	solute carrier family 5 (iodide transporter), member 8; apical iodide transporter. [refseq;acc:nm_145913]	SLC5A8	Rooted	Divided	67.5045	1.03485	69.8568
	ubiquitin carboxyl-terminal hydrolase 8 (ec 3.1.2.15) (ubiquitin thiolesterase 8) (ubiquitin-specific processing protease 8) (deubiquitinating enzyme 8). [swissprot;acc:p40818]	USP8		Subtracted	61.9703	2.2233	64.1936
1613	60s ribosomal protein l29 (cell surface heparin binding protein hip). [swissprot;acc:p47914]	RPL29	Measured		6079.19	423.93	6503.12
	ammecr1 protein. [refseq;acc:nm_015365]	AMMECR1	Squared		23713.7	2510.1	26223.8
	hiv-1 tat interactive protein 2, 30kda; tat-interacting protein (30kd); hiv-1 tat interactive protein 2, 30 kda; hiv-1 tat interactive protein 2, 30 kd. [refseq;acc:nm_006410]	HTATIP2	Ranked	Divided	182.378	1.0157	185.241
	lifeguard; kiaa0950 protein. [refseq;acc:nm_012306]	FAIM2		Subtracted	217.446	3.246	214.2
	mitochondrial 28s ribosomal protein s22 (s22mt) (mrp-s22) (gk002). [swissprot;acc:p82650]	MRPS22	Measured	Divided	6035.6	1.07106	6464.5
	neuropilin- and tolloid-like protein 2 precursor. [refseq;acc:nm_018092]	NETO2	Squared		15399.5	1.10834	17067.9
	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]	ROD1	Rooted	Subtracted	61.9703	2.2233	64.1936
	sodium-dependent multivitamin transporter (na(+)-dependent multivitamin transporter). [swissprot;acc:q9y289]	SLC5A6		Divided	67.511	1.03484	69.8628
1614	hepatocyte nuclear factor 3-beta (hnf-3b) (forkhead box protein a2). [swissprot;acc:q9y261]	FOXA2	Ranked		217.233	1.0156	213.897
	mrna-associated protein mrnp 41 (rae1 protein homolog). [swissprot;acc:p78406]	RAE1	Squared	Subtracted	23713.7	2510.1	26223.8
	nefa-interacting nuclear protein nip30. [refseq;acc:nm_024946]	no value	Measured	Divided	6035.6	1.07106	6464.5
	neuropilin- and tolloid-like protein 1 isoform 3 precursor. [refseq;acc:nm_138966]	NETO1	Squared		15399.5	1.10834	17067.9
	polypyrimidine tract binding protein 2; neural polypyrimidine tract binding protein; ptb-like protein. [refseq;acc:nm_021190]	PTBP2	Rooted	Subtracted	61.9703	2.2233	64.1936
	proto-oncogene tyrosine-protein kinase fer (ec 2.7.1.112) (p94-fer) (c-fer). [swissprot;acc:p16591]	FER	Measured		6079.19	423.93	6503.12
	sterol regulatory element binding protein-2 (srebp-2) (sterol regulatory element-binding transcription factor 2). [swissprot;acc:q12772]	no value	Ranked		217.446	3.246	214.2
	trans-prenyltransferase; polyprenyl pyrophosphate synthetase. [refseq;acc:nm_014317]	PDSS1	Rooted	Divided	54.1932	1.03482	56.0802
1615	adaptor-associated kinase 1. [refseq;acc:nm_014911]	AAK1		Subtracted	61.9703	2.2233	64.1936

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.