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	Network Comparison Type	Value Type	Interaction Map	Filtered	red	green	network_comparison

Results: HTML CSV LaTeX

Showing element 1844 to 1893 of 25824 in total

Interaction Map  : High confidence
Filtered  : 1

Rank	Hugo	description	Network Comparison Type	Value Type	red	green	network_comparison
231	MAGED1	melanoma-associated antigen d1 (mage-d1 antigen) (neurotrophin receptor-interacting mage homolog) (pro2292). [swissprot;acc:q9y5v3]	Divided	Rooted	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]	Subtracted	Measured	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]	Subtracted	Measured	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]	Divided	Rooted	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]	Divided	Measured	9035	7279.6	1.24114
233	no value	60s ribosomal protein l7. [swissprot;acc:p18124]	Subtracted	Ranked	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]	Subtracted	Measured	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]	Divided	Rooted	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]	Subtracted	Rooted	95.0526	85.3206	9.732
	MYH13	myosin heavy chain, skeletal muscle, extraocular (myhc-eo). [swissprot;acc:q9ukx3]	Divided	Measured	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]	Divided	Ranked	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]	Divided	Measured	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
	HS3ST2	heparan sulfate d-glucosaminyl 3-o-sulfotransferase 2; heparin-glucosamine 3-o-sulfotransferase. [refseq;acc:nm_006043]		Squared	41502.9	30836.8	10666.1
	ISCU	nitrogen fixation cluster-like. [refseq;acc:nm_014301]	Divided		42411.6	55802.1	1.31573
	MAGEA9	melanoma-associated antigen 9 (mage-9 antigen). [swissprot;acc:p43362]		Rooted	137.446	120.823	1.13758
	MRPS12	28s ribosomal protein s12, mitochondrial precursor (mpr-s12) (mt- rps12). [swissprot;acc:o15235]	Subtracted	Ranked	243.944	268.195	24.251
	MYH7B	dj756n5.1.1 (continues in em:al133324 as dj1161h23.3) (fragment). [sptrembl;acc:q9h430]		Rooted	95.0526	85.3206	9.732
	PAH	phenylalanine-4-hydroxylase (ec 1.14.16.1) (pah) (phe-4- monooxygenase). [swissprot;acc:p00439]	Divided	Ranked	227.357	254.15	1.11785
236	DCPS	mrna decapping enzyme; histidine triad protein member 5; heat shock-like protein 1. [refseq;acc:nm_014026]	Subtracted	Squared	41502.9	30836.8	10666.1
	DUS1L	pp3111 protein. [refseq;acc:nm_022156]	Divided	Ranked	227.357	254.15	1.11785
	ISCU	nitrogen fixation cluster-like. [refseq;acc:nm_014301]	Subtracted	Measured	9649.61	11053.5	1403.89
	MAGEA8	melanoma-associated antigen 8 (mage-8 antigen). [swissprot;acc:p43361]	Divided	Rooted	137.446	120.823	1.13758
	MYH13	myosin heavy chain, skeletal muscle, extraocular (myhc-eo). [swissprot;acc:q9ukx3]	Subtracted		95.0526	85.3206	9.732
	RBBP7	histone acetyltransferase type b subunit 2 (retinoblastoma binding protein p46) (retinoblastoma-binding protein 7) (rbbp-7). [swissprot;acc:q16576]		Ranked	252.644	228.42	24.224
	STARD13	star-related lipid transfer protein 13 (stard13) (start domain- containing protein 13) (46h23.2). [swissprot;acc:q9y3m8]	Divided	Squared	42411.6	55802.1	1.31573
	TXNL4A	spliceosomal u5 snrnp-specific 15 kda protein (dim1 protein homolog) (thioredoxin-like u5 snrnp protein u5-15kd). [swissprot;acc:o14834]		Measured	4723.53	5828.46	1.23392
237	FIP1L1	fip1-like 1; rearranged in hypereosinophilia. [refseq;acc:nm_030917]	Subtracted	Rooted	133.216	123.627	9.589
	LSM5	u6 snrna-associated sm-like protein lsm5. [swissprot;acc:q9y4y9]	Divided	Measured	4567.04	5631.2	1.23301
	MAGEC1	melanoma-associated antigen c1 (mage-c1 antigen) (cancer-testis antigen ct7). [swissprot;acc:o60732]		Rooted	137.446	120.823	1.13758
	MRPL3	mitochondrial 60s ribosomal protein l3 (l3mt). [swissprot;acc:p09001]	Subtracted	Ranked	242.011	266.18	24.169
	MTX2	metaxin 2. [swissprot;acc:o75431]		Squared	41236	51807	10571

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.