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 932 to 981 of 8289 in total

Value Type  : Ranked
Network Comparison Type  : Divided
Filtered  : 1

Rank	Hugo	description	Interaction Map	red	green	network_comparison
466	HS3ST3A1	heparan sulfate d-glucosaminyl 3-o-sulfotransferase 3a1; heparin-glucosamine 3-o-sulfotransferase. [refseq;acc:nm_006042]	Low confidence	207.812	200.994	1.03392
467	ADCY5	adenylate cyclase, type v (ec 4.6.1.1) (atp pyrophosphate-lyase) (adenylyl cyclase) (fragment). [swissprot;acc:o95622]	High confidence	248.152	267.226	1.07686
	HS3ST3B1	heparan sulfate d-glucosaminyl 3-o-sulfotransferase 3b1. [refseq;acc:nm_006041]	Low confidence	207.812	200.994	1.03392
468	HS3ST2	heparan sulfate d-glucosaminyl 3-o-sulfotransferase 2; heparin-glucosamine 3-o-sulfotransferase. [refseq;acc:nm_006043]
	LRRC15	leucine-rich repeat-containing protein 15 precursor (hlib). [swissprot;acc:q8tf66]	High confidence	248.152	267.226	1.07686
469	DCPS	mrna decapping enzyme; histidine triad protein member 5; heat shock-like protein 1. [refseq;acc:nm_014026]	Low confidence	207.812	200.994	1.03392
	FEM1B	fem-1 homolog b; fem-1-like death receptor binding protein; fem-1 (c.elegans) homolog b. [refseq;acc:nm_015322]	High confidence	248.152	267.226	1.07686
470	no value	splicing factor 3b subunit 3 (spliceosome associated protein 130) (sap 130) (sf3b130) (pre-mrna splicing factor sf3b 130 kda subunit). [swissprot;acc:q15393]	Low confidence	198.464	191.96	1.03388
	LRRC3	leucine-rich repeat protein lrrc3 precursor. [swissprot;acc:q9by71]	High confidence	248.152	267.226	1.07686
471	LAMC1	laminin gamma-1 chain precursor (laminin b2 chain). [swissprot;acc:p11047]
	RBM39	rna-binding region containing protein 2 (hepatocellular carcinoma protein 1) (splicing factor hcc1). [swissprot;acc:q14498]	Low confidence	208.29	201.499	1.0337
472	PLRG1	pleiotropic regulator 1 (prl1homolog, arabidopsis); pleiotropic regulator 1 (prl1, arabidopsis homolog). [refseq;acc:nm_002669]		201.847	195.283	1.03361
	SLC46A2	thymic stromal co-transporter. [refseq;acc:nm_033051]	High confidence	248.152	267.226	1.07686
473	EXOC1	exocyst complex component sec3 (bm-012). [swissprot;acc:q9nv70]	Low confidence	209.111	202.34	1.03346
	PRPF31	pre-mrna processing factor 31 homolog; pre-mrna processing factor 31 homolog (yeast). [refseq;acc:nm_015629]	High confidence	225.661	209.651	1.07637
474	KCNA2	potassium voltage-gated channel subfamily a member 2 (potassium channel kv1.2) (rbk2) (hbk5) (ngk1) (mk2) (hukiv). [swissprot;acc:p16389]		226.789	210.818	1.07576
	RRAGB	ras-related gtp binding b short isoform; gtp-binding protein ragb. [refseq;acc:nm_006064]	Low confidence	171.213	165.68	1.0334
475	FUCA2	fucosidase, alpha-l- 2, plasma. [refseq;acc:nm_032020]		202.311	195.778	1.03337
	KCNA1	potassium voltage-gated channel subfamily a member 1 (potassium channel kv1.1) (huki) (hbk1). [swissprot;acc:q09470]	High confidence	226.727	210.816	1.07547
476	FUCA1	tissue alpha-l-fucosidase precursor (ec 3.2.1.51) (alpha-l-fucosidase i) (alpha-l-fucoside fucohydrolase). [swissprot;acc:p04066]	Low confidence	202.271	195.742	1.03336
	KCNA4	potassium voltage-gated channel subfamily a member 4 (potassium channel kv1.4) (hk1) (hpcn2) (hbk4) (hukii). [swissprot;acc:p22459]	High confidence	226.681	210.814	1.07527
477	HNRNPR	heterogeneous nuclear ribonucleoprotein r (hnrnp r). [swissprot;acc:o43390]	Low confidence	203.823	197.249	1.03333
	NIP7	saccharomyces cerevisiae nip7p homolog. [refseq;acc:nm_016101]	High confidence	251.926	234.547	1.0741
478	BLVRB	flavin reductase (ec 1.5.1.30) (fr) (nadph-dependent diaphorase) (nadph-flavin reductase) (flr) (biliverdin reductase b) (ec 1.3.1.24) (bvr-b) (biliverdin-ix beta-reductase) (green heme binding protein) (ghbp). [swissprot;acc:p30043]	Low confidence	207.68	214.591	1.03328
	BRF1	transcription factor iiib 90 kda subunit (tfiiib90) (htfiiib90) (b- related factor 1) (hbrf) (tata box-binding protein-associated factor, rna polymerase iii, subunit 2) (taf3b2). [swissprot;acc:q92994]	High confidence	228.051	212.321	1.07409
479	NOLA1	nucleolar protein family a, member 1; gar1 protein. [refseq;acc:nm_018983]
	VTA1	protein c6orf55 (dopamine responsive protein drg-1) (my012 protein) (hspc228). [swissprot;acc:q9np79]	Low confidence	207.68	214.591	1.03328
480	NETO2	neuropilin- and tolloid-like protein 2 precursor. [refseq;acc:nm_018092]	High confidence	237.109	254.667	1.07405
	SYNCRIP	ns1-associated protein 1. [refseq;acc:nm_006372]	Low confidence	203.822	197.259	1.03327
481	NETO1	neuropilin- and tolloid-like protein 1 isoform 3 precursor. [refseq;acc:nm_138966]	High confidence	237.109	254.667	1.07405
	RRAGA	ras-related gtp binding a; ras-related gtp-binding protein. [refseq;acc:nm_006570]	Low confidence	171.564	166.045	1.03324
482	HNRNPU	heterogenous nuclear ribonucleoprotein u (hnrnp u) (scaffold attachment factor a) (saf-a). [swissprot;acc:q00839]	High confidence	237.109	254.667	1.07405
	TRIP12	thyroid receptor interacting protein 12 (trip12). [swissprot;acc:q14669]	Low confidence	204.65	198.086	1.03314
483	no value	rna-binding protein. [refseq;acc:nm_019027]		203.821	197.289	1.03311
	RUNX2	runt-related transcription factor 2 (core-binding factor, alpha 1 subunit) (cbf-alpha 1) (acute myeloid leukemia 3 protein) (oncogene aml-3) (polyomavirus enhancer binding protein 2 alpha a subunit) (pebp2-alpha a) (pea2-alpha a) (sl3-3 enhancer factor 1 alpha a subunit) (sl3/akv core-binding factor alpha a subunit) (osteoblast- specific transcription factor 2) (osf-2). [swissprot;acc:q13950]	High confidence	237.109	254.667	1.07405
484	no value	apobec-1 complementation factor isoform 1; apobec-1 stimulating protein; apo-b rna editing protein. [refseq;acc:nm_014576]	Low confidence	203.821	197.291	1.0331
	HNRPUL1	e1b-55kda-associated protein 5 isoform a. [refseq;acc:nm_007040]	High confidence	237.109	254.667	1.07405
485	BRPF1	tubulin tyrosine ligase-like protein hottl (hqp0207). [swissprot;acc:q9y4r7]	Low confidence	205.109	198.551	1.03303
	RPL18	60s ribosomal protein l18. [swissprot;acc:q07020]	High confidence	237.109	254.667	1.07405
486	CXorf9	chromosome x open reading frame 9; likely ortholog of mouse sh3 gene sly. [refseq;acc:nm_018990]	Low confidence	204.331	211.075	1.03301
	MCTS1	mct-1 protein. [refseq;acc:nm_014060]	High confidence	226.313	243.03	1.07387
487	C15orf15	ribosomal protein l24-like; 60s ribosomal protein l30 isolog; my024 protein; homolog of yeast ribosomal like protein 24. [refseq;acc:nm_016304]	Low confidence	206.763	200.18	1.03289
	MRPL22	mitochondrial ribosomal protein l22. [refseq;acc:nm_014180]	High confidence	226.313	243.03	1.07387
488	SART1	squamous cell carcinoma antigen recognized by t cells 1; u4/u6.u5 tri-snrnp-associated 110 kda protein; ige autoantigen; sart1(259) protein; sart1(800) protein. [refseq;acc:nm_005146]		225.026	209.798	1.07258
	TMOD4	skeletal muscle tropomodulin (sk-tmod) (tropomodulin 4). [swissprot;acc:q9nzq9]	Low confidence	209.136	202.478	1.03288
489	PPM1B	protein phosphatase 2c beta isoform (ec 3.1.3.16) (pp2c-beta). [swissprot;acc:o75688]	High confidence	231.276	215.627	1.07257
	TMOD3	ubiquitous tropomodulin (u-tmod) (tropomodulin 3). [swissprot;acc:q9nyl9]	Low confidence	209.136	202.478	1.03288
490	ARHGEF7	rho guanine nucleotide exchange factor 7 (pak-interacting exchange factor beta) (beta-pix) (cool-1) (p85). [swissprot;acc:q14155]	High confidence	220.183	236.015	1.0719
	TMOD1	tropomodulin 1 (erythrocyte tropomodulin) (e-tmod). [swissprot;acc:p28289]	Low confidence	209.136	202.478	1.03288
491	GTPBP4	nucleolar gtp-binding protein 1 (chronic renal failure gene protein) (gtp-binding protein ngb). [swissprot;acc:q9bze4]	High confidence	251.83	234.951	1.07184

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.