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	Value Type	Network Comparison Type	Interaction Map	Filtered	red	network_comparison	green

Results: HTML CSV LaTeX

Showing element 1458 to 1507 of 12912 in total

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

Rank	description	Hugo	Value Type	red	network_comparison	green
365	breast cancer antiestrogen resistance 3. [refseq;acc:nm_003567]	BCAR3	Squared	17965.8	1.23807	22243
	calcyphosine. [swissprot;acc:q13938]	CAPS	Measured	5189	1.17334	6088.47
	proliferating-cell nucleolar antigen p120 (proliferation-associated nucleolar protein p120). [swissprot;acc:p46087]	NOL1	Rooted	49.7541	1.10428	54.9425
366	40s ribosomal protein s15a. [swissprot;acc:p39027]	RPS15A		50.5463	1.1042	45.7763
	40s ribosomal protein s5. [swissprot;acc:p46782]	RPS5	Ranked	242.473	1.09602	265.756
	ba305p22.3 (breast carcinoma amplified sequence 4). [sptrembl;acc:q8ndy6]	BHLHB4	Squared	62783.5	1.23628	50784.1
	crooked neck-like protein 1 (crooked neck homolog) (hcrn) (cgi-201) (mstp021). [swissprot;acc:q9bzj0]	CRNKL1	Measured	5189	1.17334	6088.47
367	atp-dependent rna helicase ddx18 (dead-box protein 18) (myc-regulated dead-box protein) (mrdb). [swissprot;acc:q9nvp1]	DDX18	Rooted	49.0882	1.10419	54.2027
	basic helix-loop-helix domain containing, class b, 5; trinucleotide repeat containing 20. [refseq;acc:nm_152414]	BHLHB5	Squared	62757.7	1.23617	50767.8
	dna polymerase epsilon, catalytic subunit a (ec 2.7.7.7) (dna polymerase ii subunit a). [swissprot;acc:q07864]	POLE	Measured	4024.4	1.17268	4719.35
	heterogeneous nuclear ribonucleoprotein m (hnrnp m). [swissprot;acc:p52272]	HNRPM	Ranked	234.146	1.09601	256.627
368	dr1-associated protein 1; negative cofactor 2 alpha; dr1-associated corepressor. [refseq;acc:nm_006442]	DRAP1	Squared	51805.2	1.23592	41916.4
	nnp-1 protein (novel nuclear protein 1) (nucleolar protein nop52) (nop52) (d21s2056e). [swissprot;acc:p56182]	RRP1	Rooted	49.5225	1.10418	54.6817
	pre-mrna splicing factor prp17 (hprp17) (eh-binding protein 3) (ehb3). [swissprot;acc:o60508]	CDC40	Measured	5082.66	1.17261	5959.99
	trna pseudouridine synthase a (ec 4.2.1.70) (pseudouridylate synthase i) (pseudouridine synthase i) (uracil hydrolyase). [swissprot;acc:q9y606]	PUS1	Ranked	242.66	1.09501	265.715
369	60s ribosomal protein l12, mitochondrial precursor (l12mt) (5c5-2). [swissprot;acc:p52815]	MRPL12		242.159	1.09475	265.104
	ccaat-box-binding transcription factor (ccaat-binding factor) (cbf). [swissprot;acc:q03701]	CEBPZ	Measured	3583.56	1.17061	4194.95
	galectin-9 (hom-hd-21) (ecalectin). [swissprot;acc:o00182]	LGALS9	Squared	45960.8	1.23474	56749.6
	methionine aminopeptidase 1 (ec 3.4.11.18) (metap 1) (map 1) (peptidase m 1). [swissprot;acc:p53582]	METAP1	Rooted	49.7435	1.10397	45.0586
370	lupus la protein (sjogren syndrome type b antigen) (ss-b) (la ribonucleoprotein) (la autoantigen). [swissprot;acc:p05455]	SSB	Measured	4108.15	1.17058	4808.93
	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]	METAP2	Rooted	49.7435	1.10397	45.0586
	nudix (nucleoside diphosphate linked moiety x)-type motif 12. [refseq;acc:nm_031438]	NUDT12	Ranked	242.159	1.09475	265.104
	protein 4.1 (band 4.1) (p4.1) (epb4.1) (4.1r). [swissprot;acc:p11171]	EPB41	Squared	45986	1.23464	56776.1
371	band 4.1-like protein 1 (neuronal protein 4.1) (4.1n). [swissprot;acc:q9h4g0]	EPB41L1		45985.9		56776
	ribosomal protein s6 kinase, 52kda, polypeptide 1; ribosomal protein s6 kinase, 52kd, polypeptide 1. [refseq;acc:nm_012424]	RPS6KC1	Ranked	186.52	1.09447	170.42
	serine protease htra2, mitochondrial precursor (ec 3.4.21.-) (high temperature requirement protein a2) (htra2) (omi stress-regulated endoprotease) (serine proteinase omi). [swissprot;acc:o43464]	HTRA2	Measured	5067.02	1.16961	5926.46
	zinc finger-like protein 9. [refseq;acc:nm_033414]	ZNF622	Rooted	49.3451	1.10367	54.4606
372	band 4.1-like protein 3 (4.1b) (differentially expressed in adenocarcinoma of the lung protein 1) (dal-1). [swissprot;acc:q9y2j2]	EPB41L3	Squared	45986.7	1.23464	56776.8
	membrane-associated transporter protein (aim-1 protein) (melanoma antigen aim1). [swissprot;acc:q9umx9]	SLC45A2	Rooted	49.3451	1.10367	54.4606
	probable serine protease htra4 precursor (ec 3.4.21.-). [swissprot;acc:p83105]	HTRA4	Measured	5067	1.16956	5926.17
	ribosomal protein s6 kinase-like 1. [refseq;acc:nm_031464]	no value	Ranked	186.52	1.09447	170.42
373	60s ribosomal protein l11, mitochondrial precursor (l11mt) (cgi-113). [swissprot;acc:q9y3b7]	MRPL11		242.37	1.09442	265.255
	band 4.1-like protein 2 (generally expressed protein 4.1) (4.1g). [swissprot;acc:o43491]	EPB41L2	Squared	45986	1.23464	56776.1
	guanine nucleotide-binding protein-like 1 (gtp-binding protein hsr1). [swissprot;acc:p36915]	no value	Rooted	49.3451	1.10367	54.4606
	probable serine protease htra3 precursor (ec 3.4.21.-). [swissprot;acc:p83110]	HTRA3	Measured	5066.99	1.16955	5926.1
374	60s ribosomal protein l26. [swissprot;acc:q02877]	RPL26	Rooted	50.2549	1.10305	45.5599
	serine protease htra1 precursor (ec 3.4.21.-) (l56). [swissprot;acc:q92743]	HTRA1	Measured	5066.93	1.16942	5925.38
	spectrin beta chain, brain 4 (spectrin, non-erythroid beta chain 4) (beta-v spectrin) (bspecv). [swissprot;acc:q9nrc6]	SPTBN5	Squared	45987	1.23463	56777.1
	transcription factor dp-2 (e2f dimerization partner 2). [swissprot;acc:q14188]	TFDP2	Ranked	267.208	1.09436	244.168
375	45 kda calcium-binding protein precursor (cab45) (stromal cell-derived factor 4) (sdf-4). [swissprot;acc:q9brk5]	SDF4	Squared	45987	1.23463	56777.1
	60s ribosomal protein l35. [swissprot;acc:p42766]	RPL35	Rooted	50.2545	1.10295	45.5637
	dna-directed rna polymerase iii largest subunit (ec 2.7.7.6) (rpc155) (rpc1). [swissprot;acc:o14802]	POLR3A	Ranked	242.686	1.09407	265.516
	u6 snrna-associated sm-like protein lsm1 (small nuclear ribonuclear casm) (cancer-associated sm-like). [swissprot;acc:o15116]	LSM1	Measured	4700.42	1.16854	5492.63
376	40s ribosomal protein s15 (rig protein). [swissprot;acc:p11174]	no value	Rooted	50.2554	1.10285	45.5688
	44050 protein. [refseq;acc:nm_178832]	C10orf83	Measured	17385.9	1.16769	14889.2
	galectin-4 (lactose-binding lectin 4) (l-36 lactose binding protein) (l36lbp) (antigen ny-co-27). [swissprot;acc:p56470]	LGALS4	Squared	46021.4	1.2345	56813.2
	probable atp-dependent 61 kda nucleolar rna helicase (dead-box protein 21). [swissprot;acc:q9ny93]	DDX56	Ranked	257.017	1.09395	234.945
377	dna-directed rna polymerase i largest subunit (ec 2.7.7.6) (rna polymerase i 194 kda subunit) (rpa194). [swissprot;acc:o95602]	POLR1A		242.691	1.09391	265.481
	mitochondrial ribosomal protein l2. [refseq;acc:nm_015950]	MRPL2	Rooted	50.2554	1.10285	45.5687
	nuclear inhibitor of protein phosphatase-1 (nipp-1) (protein phosphatase 1, regulatory inhibitor subunit 8) [includes: activator of rna decay (ec 3.1.4.-) (ard-1)]. [swissprot;acc:q12972]	PPP1R8	Measured	17385.9	1.16769	14889.2

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.