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

Results: HTML CSV LaTeX

Showing element 430 to 479 of 12912 in total

Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1

Rank	description	Hugo	Value Type	red	green	network_comparison
108	homer, neuronal immediate early gene, 3. [refseq;acc:nm_004838]	HOMER3	Ranked	252.296	201.995	1.24902
	myosin heavy chain, cardiac muscle alpha isoform (myhc-alpha). [swissprot;acc:p13533]	no value	Squared	19321	12542.6	1.54043
	voltage-dependent calcium channel gamma-2 subunit (neuronal voltage- gated calcium channel gamma-2 subunit). [swissprot;acc:q9y698]	CACNG2	Rooted	49.2925	62.397	1.26585
109	guanine nucleotide-binding protein beta subunit 4 (transducin beta chain 4). [swissprot;acc:q9hav0]	GNB4	Ranked	266.933	333.281	1.24856
	myosin heavy chain, skeletal muscle, fetal (myosin heavy chain iib) (myhc-iib). [swissprot;acc:q9y623]	MYH4	Squared	19321	12542.6	1.54043
	rev1-like; rev1 protein; rev1 (yeast homolog)- like. [refseq;acc:nm_016316]	REV1	Measured	4366.44	5899.76	1.35116
	voltage-dependent calcium channel gamma-8 subunit (neuronal voltage- gated calcium channel gamma-8 subunit). [swissprot;acc:q8wxs5]	CACNG8	Rooted	49.2923	62.3969	1.26585
110	deltex 2. [refseq;acc:nm_020892]	DTX2	Ranked	333.144	267.393	1.2459
	myosin heavy chain, skeletal muscle, perinatal (myhc-perinatal). [swissprot;acc:p13535]	MYH8	Squared	19321	12542.6	1.54043
	protein arginine n-methyltransferase 1 (ec 2.1.1.-) (interferon receptor 1-bound protein 4). [swissprot;acc:q99873]	PRMT1	Measured	4366.44	5899.76	1.35116
	voltage-dependent calcium channel gamma-4 subunit (neuronal voltage- gated calcium channel gamma-4 subunit). [swissprot;acc:q9ubn1]	CACNG4	Rooted	49.293	62.3973	1.26585
111	deltex homolog 1; hdx-1. [refseq;acc:nm_004416]	DTX1	Ranked	332.925	267.274	1.24563
	myosin heavy chain, skeletal muscle, adult 2 (myosin heavy chain iia) (myhc-iia). [swissprot;acc:q9ukx2]	MYH2	Squared	19321	12542.6	1.54043
	protein arginine n-methyltransferase 4 (ec 2.1.1.-). [swissprot;acc:q9nr22]	PRMT8	Measured	4366.44	5899.76	1.35116
	voltage-dependent calcium channel gamma-3 subunit (neuronal voltage- gated calcium channel gamma-3 subunit). [swissprot;acc:o60359]	CACNG3	Rooted	49.2923	62.3969	1.26585
112	myosin heavy chain, fast skeletal muscle, embryonic (muscle embryonic myosin heavy chain) (smhce). [swissprot;acc:p11055]	MYH3	Squared	19321	12542.6	1.54043
	t-lak cell-originated protein kinase; spermatogenesis-related protein kinase; pdz-binding kinase; pbk; mapkk-like protein kinase; serine/threonine protein kinase. [refseq;acc:nm_018492]	PBK	Ranked	332.874	267.246	1.24557
	u1 small nuclear ribonucleoprotein 70 kda (u1 snrnp 70 kda) (snrnp70) (u1-70k). [swissprot;acc:p08621]	SNRP70	Measured	4366.44	5899.76	1.35116
	voltage-dependent calcium channel gamma-5 subunit (neuronal voltage- gated calcium channel gamma-5 subunit). [swissprot;acc:q9uf02]	CACNG5	Rooted	49.3267	62.4167	1.26537
113	beta-arrestin 2 (arrestin, beta 2). [swissprot;acc:p32121]	ARRB2		80.4705	101.526	1.26165
	filamin a (alpha-filamin) (filamin 1) (endothelial actin-binding protein) (abp-280) (nonmuscle filamin). [swissprot;acc:p21333]	no value	Measured	4366.44	5899.76	1.35116
	kh domain containing, rna binding, signal transduction associated 3; sam68-like phosphotyrosine protein, t-star. [refseq;acc:nm_006558]	KHDRBS3	Ranked	332.874	267.246	1.24557
	myosin heavy chain, skeletal muscle, adult 1 (myosin heavy chain iix/d) (myhc-iix/d). [swissprot;acc:p12882]	MYH1	Squared	19321	12542.6	1.54043
114	beta-arrestin 1 (arrestin, beta 1). [swissprot;acc:p49407]	ARRB1	Rooted	80.4705	101.526	1.26165
	huntingtin interacting protein c. [refseq;acc:nm_012272]	PRPF40B	Measured	4300.47	5807.72	1.35048
	kh domain containing, rna binding, signal transduction associated 1; gap-associated tyrosine phosphoprotein p62 (sam68). [refseq;acc:nm_006559]	KHDRBS1	Ranked	332.874	267.246	1.24557
	myosin heavy chain, cardiac muscle beta isoform (myhc-beta). [swissprot;acc:p12883]	no value	Squared	19321	12542.6	1.54043
115	28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5]	MRPS17	Measured	21185	28492	1.34491
	dj756n5.1.1 (continues in em:al133324 as dj1161h23.3) (fragment). [sptrembl;acc:q9h430]	MYH7B	Squared	19321	12542.6	1.54043
	kh domain-containing, rna-binding, signal transduction-associated protein 2; sam68-like mammalian protein 1. [refseq;acc:nm_152688]	KHDRBS2	Ranked	332.874	267.246	1.24557
	spermatogenesis associated 6. [refseq;acc:nm_019073]	SPATA6	Rooted	80.4705	101.526	1.26165
116	amp deaminase 2 (ec 3.5.4.6) (amp deaminase isoform l). [swissprot;acc:q01433]	AMPD2
	guanine nucleotide-binding protein g(i)/g(s)/g(t) beta subunit 3 (transducin beta chain 3). [swissprot;acc:p16520]	GNB3	Ranked	268.565	334.483	1.24545
	myosin heavy chain, skeletal muscle, extraocular (myhc-eo). [swissprot;acc:q9ukx3]	MYH13	Squared	19321	12542.6	1.54043
	pantothenate kinase 1 (ec 2.7.1.33) (pantothenic acid kinase 1) (hpank1) (hpank). [swissprot;acc:q8te04]	PANK1	Measured	21185	28492	1.34491
117	cleavage and polyadenylation specificity factor, 73 kda subunit (cpsf 73 kda subunit). [swissprot;acc:q9ukf6]	CPSF3	Squared	211446	137422	1.53866
	neuralized-like. [refseq;acc:nm_004210]	NEURL	Ranked	332.326	266.948	1.24491
	pantothenate kinase 2, mitochondrial precursor (ec 2.7.1.33) (pantothenic acid kinase 2) (hpank2). [swissprot;acc:q9bz23]	PANK2	Measured	21185	28492	1.34491
	transcription factor jun-b. [swissprot;acc:p17275]	JUNB	Rooted	63.4173	79.5311	1.25409
118	homer, neuronal immediate early gene, 2; homer homolog 3 (drosophila). [refseq;acc:nm_004839]	HOMER2		50.3065	62.9788	1.2519
	nadh-ubiquinone oxidoreductase subunit b17.2 (ec 1.6.5.3) (ec 1.6.99.3) (complex i-b17.2) (ci-b17.2) (cib17.2) (13 kda differentiation-associated protein). [swissprot;acc:q9ui09]	NDUFA12	Ranked	284.753	228.934	1.24382
	pantothenate kinase 3 (ec 2.7.1.33) (pantothenic acid kinase 3) (hpank3). [swissprot;acc:q9h999]	PANK3	Measured	21185	28492	1.34491
	poly(a) polymerase alpha (ec 2.7.7.19) (pap) (polynucleotide adenylyltransferase alpha) (fragment). [swissprot;acc:p51003]	PAPOLA	Squared	210445	136779	1.53858
119	exocyst complex component sec5. [swissprot;acc:q96kp1]	EXOC2		210335	136716	1.53848
	mitochondrial solute carrier protein. [refseq;acc:nm_145305]	SLC25A43	Measured	21185	28492	1.34491
	nadh-ubiquinone oxidoreductase 18 kda subunit, mitochondrial precursor (ec 1.6.5.3) (ec 1.6.99.3) (complex i-18 kda) (ci-18 kda) (complex i- aqdq) (ci-aqdq). [swissprot;acc:o43181]	NDUFS4	Ranked	318.982	259.004	1.23157
	ubiquinone biosynthesis protein coq7 homolog (coenzyme q biosynthesis protein 7 homolog) (timing protein clk-1 homolog). [swissprot;acc:q99807]	COQ7	Rooted	50.3247	62.9892	1.25166
120	high-mobility group 20b; sox-like transcriptional factor; swi/snf-related matrix-associated actin-dependent regulator of chromatin subfamily e, member 1-related. [refseq;acc:nm_006339]	HMG20B	Measured	5136.78	6895.98	1.34247
	homer, neuronal immediate early gene, 1b. [refseq;acc:nm_004272]	HOMER1	Rooted	50.3333	62.9942	1.25154
	poly(a) polymerase gamma (ec 2.7.7.19) (pap gamma) (polynucleotide adenylyltransferase gamma) (srp rna 3' adenylating enzyme). [swissprot;acc:q9bwt3]	PAPOLG	Squared	210199	136638	1.53836

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.