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

Results: HTML CSV LaTeX

Showing element 1812 to 1861 of 25824 in total

Interaction Map  : High confidence
Filtered  : 1

Rank	Hugo	Value Type	Network Comparison Type	description	red	green	network_comparison
227	MAGEA2B	Rooted	Divided	melanoma-associated antigen 2 (mage-2 antigen). [swissprot;acc:p43356]	137.446	120.823	1.13758
	METAP1	Ranked	Subtracted	methionine aminopeptidase 1 (ec 3.4.11.18) (metap 1) (map 1) (peptidase m 1). [swissprot;acc:p53582]	244.126	268.604	24.478
	MYH8	Measured	Divided	myosin heavy chain, skeletal muscle, perinatal (myhc-perinatal). [swissprot;acc:p13535]	9035	7279.6	1.24114
	SLC15A1	Squared		oligopeptide transporter, small intestine isoform (peptide transporter 1) (intestinal h+/peptide cotransporter) (solute carrier family 15, member 1). [swissprot;acc:p46059]	73995.1	56003.7	1.32125
	THBS3	Ranked		thrombospondin 3 precursor. [swissprot;acc:p49746]	239.99	269.234	1.12186
228	no value	Rooted		hepatocellular carcinoma-associated protein hca1. [refseq;acc:nm_020932]	137.446	120.823	1.13758
			Subtracted	myosin heavy chain, cardiac muscle alpha isoform (myhc-alpha). [swissprot;acc:p13533]	95.0526	85.3206	9.732
	ECHS1	Squared	Divided	enoyl-coa hydratase, mitochondrial precursor (ec 4.2.1.17) (short chain enoyl-coa hydratase) (sceh) (enoyl-coa hydratase 1). [swissprot;acc:p30084]	57913.5	76336.3	1.31811
	EPB41L3		Subtracted	band 4.1-like protein 3 (4.1b) (differentially expressed in adenocarcinoma of the lung protein 1) (dal-1). [swissprot;acc:q9y2j2]	45986.7	56776.8	10790.1
	METAP2	Ranked		methionine aminopeptidase 2 (ec 3.4.11.18) (metap 2) (peptidase m 2) (initiation factor 2 associated 67 kda glycoprotein) (p67) (p67eif2). [swissprot;acc:p50579]	244.126	268.604	24.478
	MYH2	Measured	Divided	myosin heavy chain, skeletal muscle, adult 2 (myosin heavy chain iia) (myhc-iia). [swissprot;acc:q9ukx2]	9035	7279.6	1.24114
	SH2D3C	Ranked		sh2 domain containing 3c; novel sh2-containing protein 3; sh2 domain-containing 3c; likely ortholog of mouse cas/hef1-associated signal transducer. [refseq;acc:nm_005489]	226.411	202.088	1.12036
	WASL	Measured	Subtracted	neural wiskott-aldrich syndrome protein (n-wasp). [swissprot;acc:o00401]	6417.81	7852.52	1434.71
229	BCAR3	Ranked	Divided	breast cancer antiestrogen resistance 3. [refseq;acc:nm_003567]	226.401	202.094	1.12028
	EPB41L2	Squared	Subtracted	band 4.1-like protein 2 (generally expressed protein 4.1) (4.1g). [swissprot;acc:o43491]	45986	56776.1	10790.1
	MAGEA6	Rooted	Divided	melanoma-associated antigen 6 (mage-6 antigen) (mage3b). [swissprot;acc:p43360]	137.446	120.823	1.13758
	MAPK11	Squared		mitogen-activated protein kinase 12 (ec 2.7.1.37) (extracellular signal-regulated kinase 6) (erk-6) (erk5) (stress-activated protein kinase-3) (mitogen-activated protein kinase p38 gamma) (map kinase p38 gamma). [swissprot;acc:p53778]	42411.6	55802.1	1.31573
	MYH3	Measured		myosin heavy chain, fast skeletal muscle, embryonic (muscle embryonic myosin heavy chain) (smhce). [swissprot;acc:p11055]	9035	7279.6	1.24114
	MYH4	Rooted	Subtracted	myosin heavy chain, skeletal muscle, fetal (myosin heavy chain iib) (myhc-iib). [swissprot;acc:q9y623]	95.0526	85.3206	9.732
	RPL3L	Ranked		60s ribosomal protein l3-like. [swissprot;acc:q92901]	242.195	266.663	24.468
	SGTA	Measured		small glutamine-rich tetratricopeptide repeat-containing protein (vpu-binding protein) (ubp). [swissprot;acc:o43765]	10434.4	11846.2	1411.8
230	CSRP1	Ranked	Divided	cysteine-rich protein 1 (crp1) (crp). [swissprot;acc:p21291]	239.35	267.915	1.11934
	EIF1		Subtracted	protein translation factor sui1 homolog (sui1iso1). [swissprot;acc:p41567]	242.694	267.017	24.323
	MAPK11	Measured		mitogen-activated protein kinase 12 (ec 2.7.1.37) (extracellular signal-regulated kinase 6) (erk-6) (erk5) (stress-activated protein kinase-3) (mitogen-activated protein kinase p38 gamma) (map kinase p38 gamma). [swissprot;acc:p53778]	9649.61	11053.5	1403.89
	MYH1		Divided	myosin heavy chain, skeletal muscle, adult 1 (myosin heavy chain iix/d) (myhc-iix/d). [swissprot;acc:p12882]	9035	7279.6	1.24114
	MYH8	Rooted	Subtracted	myosin heavy chain, skeletal muscle, perinatal (myhc-perinatal). [swissprot;acc:p13535]	95.0526	85.3206	9.732
	NDN		Divided	necdin. [swissprot;acc:q99608]	137.446	120.823	1.13758
	SDF4	Squared	Subtracted	45 kda calcium-binding protein precursor (cab45) (stromal cell-derived factor 4) (sdf-4). [swissprot;acc:q9brk5]	45987	56777.1	10790.1
	SPHK1		Divided	sphingosine kinase 1 (ec 2.7.1.-) (sk 1) (spk 1). [swissprot;acc:q9nya1]	42411.6	55802.1	1.31573
231	no value	Measured		myosin heavy chain, cardiac muscle beta isoform (myhc-beta). [swissprot;acc:p12883]	9035	7279.6	1.24114
	DPAGT1	Squared		udp-n-acetylglucosamine--dolichyl-phosphate n- acetylglucosaminephosphotransferase (ec 2.7.8.15) (gpt) (g1pt) (n-acetylglucosamine-1-phosphate transferase) (glcnac-1-p transferase). [swissprot;acc:q9h3h5]	42411.6	55802.1	1.31573
	LGALS9		Subtracted	galectin-9 (hom-hd-21) (ecalectin). [swissprot;acc:o00182]	45960.8	56749.6	10788.8
	MAGED1	Rooted	Divided	melanoma-associated antigen d1 (mage-d1 antigen) (neurotrophin receptor-interacting mage homolog) (pro2292). [swissprot;acc:q9y5v3]	137.446	120.823	1.13758
	MYH2		Subtracted	myosin heavy chain, skeletal muscle, adult 2 (myosin heavy chain iia) (myhc-iia). [swissprot;acc:q9ukx2]	95.0526	85.3206	9.732
	SH2D3C	Ranked		sh2 domain containing 3c; novel sh2-containing protein 3; sh2 domain-containing 3c; likely ortholog of mouse cas/hef1-associated signal transducer. [refseq;acc:nm_005489]	226.411	202.088	24.323
	SHCBP1		Divided	likely ortholog of mouse shc sh2-domain binding protein 1. [refseq;acc:nm_024745]	239.336	267.881	1.11927
	SPHK1	Measured	Subtracted	sphingosine kinase 1 (ec 2.7.1.-) (sk 1) (spk 1). [swissprot;acc:q9nya1]	9649.61	11053.5	1403.89
232	BCAR3	Ranked		breast cancer antiestrogen resistance 3. [refseq;acc:nm_003567]	226.401	202.094	24.307
	CSRP2		Divided	smooth muscle cell lim protein (cysteine-rich protein 2) (crp2) (lim-only protein 5). [swissprot;acc:q16527]	239.336	267.879	1.11926
	DLC1	Squared		rho-gtpase-activating protein 7 (rho-type gtpase-activating protein 7) (deleted in liver cancer 1 protein) (dlc-1) (hp protein) (star-related lipid transfer protein 12) (stard12) (start domain-containing protein 12). [swissprot;acc:q96qb1]	42411.6	55802.1	1.31573
	DPAGT1	Measured	Subtracted	udp-n-acetylglucosamine--dolichyl-phosphate n- acetylglucosaminephosphotransferase (ec 2.7.8.15) (gpt) (g1pt) (n-acetylglucosamine-1-phosphate transferase) (glcnac-1-p transferase). [swissprot;acc:q9h3h5]	9649.61	11053.5	1403.89
	HS3ST6	Squared		c439a6.1 (novel protein similar to heparan sulfate (glucosamine) 3-o- sulfotransferases) (fragment). [sptrembl;acc:q96qi5]	41502.9	30836.8	10666.1
	MAGEF1	Rooted	Divided	melanoma-associated antigen f1 (mage-f1 antigen). [swissprot;acc:q9hay2]	137.446	120.823	1.13758
	MYH3		Subtracted	myosin heavy chain, fast skeletal muscle, embryonic (muscle embryonic myosin heavy chain) (smhce). [swissprot;acc:p11055]	95.0526	85.3206	9.732
	MYH7B	Measured	Divided	dj756n5.1.1 (continues in em:al133324 as dj1161h23.3) (fragment). [sptrembl;acc:q9h430]	9035	7279.6	1.24114
233	no value	Ranked	Subtracted	60s ribosomal protein l7. [swissprot;acc:p18124]	235.727	259.984	24.257
	CSRP3		Divided	lim domain protein, cardiac (muscle lim protein) (cysteine-rich protein 3) (crp3). [swissprot;acc:p50461]	239.32	267.842	1.11918
	DLC1	Measured	Subtracted	rho-gtpase-activating protein 7 (rho-type gtpase-activating protein 7) (deleted in liver cancer 1 protein) (dlc-1) (hp protein) (star-related lipid transfer protein 12) (stard12) (start domain-containing protein 12). [swissprot;acc:q96qb1]	9649.61	11053.5	1403.89
	HS3ST3A1	Squared		heparan sulfate d-glucosaminyl 3-o-sulfotransferase 3a1; heparin-glucosamine 3-o-sulfotransferase. [refseq;acc:nm_006042]	41502.9	30836.8	10666.1
	MAGEB6B	Rooted	Divided	melanoma antigen, family b, 6. [refseq;acc:nm_173523]	137.446	120.823	1.13758

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.