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

Results: HTML CSV LaTeX

Showing element 1825 to 1874 of 25824 in total

Interaction Map  : High confidence
Filtered  : 1

Rank	Hugo	description	Value Type	Network Comparison Type	red	green	network_comparison
229	BCAR3	breast cancer antiestrogen resistance 3. [refseq;acc:nm_003567]	Ranked	Divided	226.401	202.094	1.12028
	EPB41L2	band 4.1-like protein 2 (generally expressed protein 4.1) (4.1g). [swissprot;acc:o43491]	Squared	Subtracted	45986	56776.1	10790.1
	MAGEA6	melanoma-associated antigen 6 (mage-6 antigen) (mage3b). [swissprot;acc:p43360]	Rooted	Divided	137.446	120.823	1.13758
	MAPK11	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]	Squared		42411.6	55802.1	1.31573
	MYH3	myosin heavy chain, fast skeletal muscle, embryonic (muscle embryonic myosin heavy chain) (smhce). [swissprot;acc:p11055]	Measured		9035	7279.6	1.24114
	MYH4	myosin heavy chain, skeletal muscle, fetal (myosin heavy chain iib) (myhc-iib). [swissprot;acc:q9y623]	Rooted	Subtracted	95.0526	85.3206	9.732
	RPL3L	60s ribosomal protein l3-like. [swissprot;acc:q92901]	Ranked		242.195	266.663	24.468
	SGTA	small glutamine-rich tetratricopeptide repeat-containing protein (vpu-binding protein) (ubp). [swissprot;acc:o43765]	Measured		10434.4	11846.2	1411.8
230	CSRP1	cysteine-rich protein 1 (crp1) (crp). [swissprot;acc:p21291]	Ranked	Divided	239.35	267.915	1.11934
	EIF1	protein translation factor sui1 homolog (sui1iso1). [swissprot;acc:p41567]		Subtracted	242.694	267.017	24.323
	MAPK11	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]	Measured		9649.61	11053.5	1403.89
	MYH1	myosin heavy chain, skeletal muscle, adult 1 (myosin heavy chain iix/d) (myhc-iix/d). [swissprot;acc:p12882]		Divided	9035	7279.6	1.24114
	MYH8	myosin heavy chain, skeletal muscle, perinatal (myhc-perinatal). [swissprot;acc:p13535]	Rooted	Subtracted	95.0526	85.3206	9.732
	NDN	necdin. [swissprot;acc:q99608]		Divided	137.446	120.823	1.13758
	SDF4	45 kda calcium-binding protein precursor (cab45) (stromal cell-derived factor 4) (sdf-4). [swissprot;acc:q9brk5]	Squared	Subtracted	45987	56777.1	10790.1
	SPHK1	sphingosine kinase 1 (ec 2.7.1.-) (sk 1) (spk 1). [swissprot;acc:q9nya1]		Divided	42411.6	55802.1	1.31573
231	no value	myosin heavy chain, cardiac muscle beta isoform (myhc-beta). [swissprot;acc:p12883]	Measured		9035	7279.6	1.24114
	DPAGT1	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]	Squared		42411.6	55802.1	1.31573
	LGALS9	galectin-9 (hom-hd-21) (ecalectin). [swissprot;acc:o00182]		Subtracted	45960.8	56749.6	10788.8
	MAGED1	melanoma-associated antigen d1 (mage-d1 antigen) (neurotrophin receptor-interacting mage homolog) (pro2292). [swissprot;acc:q9y5v3]	Rooted	Divided	137.446	120.823	1.13758
	MYH2	myosin heavy chain, skeletal muscle, adult 2 (myosin heavy chain iia) (myhc-iia). [swissprot;acc:q9ukx2]		Subtracted	95.0526	85.3206	9.732
	SH2D3C	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]	Ranked		226.411	202.088	24.323
	SHCBP1	likely ortholog of mouse shc sh2-domain binding protein 1. [refseq;acc:nm_024745]		Divided	239.336	267.881	1.11927
	SPHK1	sphingosine kinase 1 (ec 2.7.1.-) (sk 1) (spk 1). [swissprot;acc:q9nya1]	Measured	Subtracted	9649.61	11053.5	1403.89
232	BCAR3	breast cancer antiestrogen resistance 3. [refseq;acc:nm_003567]	Ranked		226.401	202.094	24.307
	CSRP2	smooth muscle cell lim protein (cysteine-rich protein 2) (crp2) (lim-only protein 5). [swissprot;acc:q16527]		Divided	239.336	267.879	1.11926
	DLC1	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]	Squared		42411.6	55802.1	1.31573
	DPAGT1	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]	Measured	Subtracted	9649.61	11053.5	1403.89
	HS3ST6	c439a6.1 (novel protein similar to heparan sulfate (glucosamine) 3-o- sulfotransferases) (fragment). [sptrembl;acc:q96qi5]	Squared		41502.9	30836.8	10666.1
	MAGEF1	melanoma-associated antigen f1 (mage-f1 antigen). [swissprot;acc:q9hay2]	Rooted	Divided	137.446	120.823	1.13758
	MYH3	myosin heavy chain, fast skeletal muscle, embryonic (muscle embryonic myosin heavy chain) (smhce). [swissprot;acc:p11055]		Subtracted	95.0526	85.3206	9.732
	MYH7B	dj756n5.1.1 (continues in em:al133324 as dj1161h23.3) (fragment). [sptrembl;acc:q9h430]	Measured	Divided	9035	7279.6	1.24114
233	no value	60s ribosomal protein l7. [swissprot;acc:p18124]	Ranked	Subtracted	235.727	259.984	24.257
	CSRP3	lim domain protein, cardiac (muscle lim protein) (cysteine-rich protein 3) (crp3). [swissprot;acc:p50461]		Divided	239.32	267.842	1.11918
	DLC1	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]	Measured	Subtracted	9649.61	11053.5	1403.89
	HS3ST3A1	heparan sulfate d-glucosaminyl 3-o-sulfotransferase 3a1; heparin-glucosamine 3-o-sulfotransferase. [refseq;acc:nm_006042]	Squared		41502.9	30836.8	10666.1
	MAGEB6B	melanoma antigen, family b, 6. [refseq;acc:nm_173523]	Rooted	Divided	137.446	120.823	1.13758
	MAPKAPK2	map kinase-activated protein kinase 2 (ec 2.7.1.-) (mapk-activated protein kinase 2) (mapkap kinase 2) (mapkapk-2). [swissprot;acc:p49137]	Squared		42411.6	55802.1	1.31573
	MYH1	myosin heavy chain, skeletal muscle, adult 1 (myosin heavy chain iix/d) (myhc-iix/d). [swissprot;acc:p12882]	Rooted	Subtracted	95.0526	85.3206	9.732
	MYH13	myosin heavy chain, skeletal muscle, extraocular (myhc-eo). [swissprot;acc:q9ukx3]	Measured	Divided	9035	7279.6	1.24114
234	no value	melanoma-associated antigen 4 (mage-4 antigen) (mage-x2) (mage-41). [swissprot;acc:p43358]	Rooted		137.446	120.823	1.13758
		myosin heavy chain, cardiac muscle beta isoform (myhc-beta). [swissprot;acc:p12883]		Subtracted	95.0526	85.3206	9.732
	CHRAC1	chromatin accessibility complex protein 1 (chrac-1) (chrac-15) (huchrac15) (dna polymerase epsilon subunit p15). [swissprot;acc:q9nrg0]	Ranked	Divided	287.41	256.835	1.11905
	CHRNA6	neuronal acetylcholine receptor protein, alpha-6 chain precursor. [swissprot;acc:q15825]	Squared		42411.6	55802.1	1.31573
	HS3ST3B1	heparan sulfate d-glucosaminyl 3-o-sulfotransferase 3b1. [refseq;acc:nm_006041]		Subtracted	41502.9	30836.8	10666.1
	MAPKAPK2	map kinase-activated protein kinase 2 (ec 2.7.1.-) (mapk-activated protein kinase 2) (mapkap kinase 2) (mapkapk-2). [swissprot;acc:p49137]	Measured		9649.61	11053.5	1403.89
	RPS23	40s ribosomal protein s23. [swissprot;acc:p39028]	Ranked		243.944	268.195	24.251
	RPS6KC1	ribosomal protein s6 kinase, 52kda, polypeptide 1; ribosomal protein s6 kinase, 52kd, polypeptide 1. [refseq;acc:nm_012424]	Measured	Divided	5181.2	6410.58	1.23728
235	no value	ribosomal protein s6 kinase-like 1. [refseq;acc:nm_031464]
	CHRNA6	neuronal acetylcholine receptor protein, alpha-6 chain precursor. [swissprot;acc:q15825]		Subtracted	9649.61	11053.5	1403.89

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.