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.

MK5 Proteome Network Type I Analysis

Type 1 network in which we propagated the absolute log regulation ratio abs(log(r/g)). We used the filtered lowest boundary of the confidence interval for the microarray measurement based and used the high confidence interaction map. Because type-I networks tend to favour highly connected proteins we tested a normalisation scheme in which we would run the network once with real values (the measured column) and once with simulated values where each measured point is set to 1 instead of the actual signal (the expected column). Afterwards we divided the measured value by the expected value. This normalisation scheme works to a certain extend but will lead to a variance that is directly related to the connectivity of each protein. In the end we dropped the use of Type-I networks due to the many technical problems they pose.

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Rank	Gene	description	measured	expected	final	Hugo

Results: HTML CSV LaTeX

Showing element 1402 to 1451 of 3206 in total

Rank	description	measured	expected	final	Hugo
1402		0.15625	0.640129	0.244091425	FBXO28
1403	EUKARYOTIC TRANSLATION INITIATION FACTOR 2 SUBUNIT 2 (EUKARYOTIC TRANSLATION INITIATION FACTOR 2 BETA SUBUNIT) (EIF-2-BETA). [SWISSPROT;Acc:P20042]	0.291311	1.19358	0.244064914	EIF2S2
1404	EPSIN 3. [RefSeq;Acc:NM_017957]	0.0468234	0.191876	0.244029477	EPN3
1405	FRAGILE X MENTAL RETARDATION 1 PROTEIN (PROTEIN FMR-1) (FMRP). [SWISSPROT;Acc:Q06787]	0.354424	1.45239	0.244028119	FMR1
1406	CYTOCHROME C. [SWISSPROT;Acc:P00001]	0.0314533	0.128904	0.244005617	CYCS
1407	HEPARAN SULFATE 6-O-SULFOTRANSFERASE; HEPARAN-SULFATE 6-SULFOTRANSFERASE. [RefSeq;Acc:NM_004807]				HS6ST1
1408	WW DOMAIN BINDING PROTEIN 11; NPW38-BINDING PROTEIN NPWBP; SH3 DOMAIN-BINDING PROTEIN SNP70. [RefSeq;Acc:NM_016312]	0.0575359	0.235798	0.244005038	WBP11
1409	ELAC HOMOLOG 2; PUTATIVE PROSTATE CANCER SUSCEPTIBILITY PROTEIN; ELAC (E. COLI) HOMOLOG 2. [RefSeq;Acc:NM_018127]				ELAC2
1410	HEPARAN SULFATE 6-O-SULFOTRANSFERASE 2. [RefSeq;Acc:NM_147174]	0.0260119	0.106604	0.244004915	HS6ST2
1411	RNA-BINDING PROTEIN 10 (RNA BINDING MOTIF PROTEIN 10) (DXS8237E). [SWISSPROT;Acc:P98175]	0.0900822	0.369182	0.244004854	RBM10
1412	RNA-BINDING PROTEIN 5 (RNA BINDING MOTIF PROTEIN 5) (PUTATIVE TUMOR SUPPRESSOR LUCA15) (G15 PROTEIN). [SWISSPROT;Acc:P52756]	0.0739703	0.303151	0.244004803	RBM5
1413		0.311796	1.27783	0.244004289	PIH1D1
1414	FATTY ACID HYDROXYLASE DOMAIN CONTAINING 1. [RefSeq;Acc:NM_024306]	0.0263893	0.108151	0.244004216	FA2H
1415	NUCLEOPORIN NUP43 (P42). [SWISSPROT;Acc:Q8NFH3]	0.149203	0.611499	0.243995493	NUP43
1416		0.651969	2.67215	0.243986677	NOL10
1417	FRAGILE X MENTAL RETARDATION SYNDROME RELATED PROTEIN 1. [SWISSPROT;Acc:P51114]	0.458713	1.88011	0.243982001	FXR1
1418	FRAGILE X MENTAL RETARDATION SYNDROME RELATED PROTEIN 2. [SWISSPROT;Acc:P51116]				FXR2
1419	ATP-DEPENDENT RNA HELICASE DDX18 (DEAD-BOX PROTEIN 18) (MYC-REGULATED DEAD-BOX PROTEIN) (MRDB). [SWISSPROT;Acc:Q9NVP1]	0.858096	3.51778	0.243931116	DDX18
1420	"TRANSDUCIN BETA-LIKE 1X PROTEIN (TRANSDUCIN-BETA-LIKE 1, X-LINKED). [SWISSPROT;Acc:O60907]"	0.0306345	0.125605	0.243895546	TBL1X
1421	"TRANSDUCIN BETA-LIKE 1Y PROTEIN (TRANSDUCIN-BETA-LIKE 1, Y-LINKED). [SWISSPROT;Acc:Q9BQ87]"	0.0303893	0.1246	0.243894864	TBL1Y
1422		0.0315995	0.129562	0.243894815	PCID2
1423	NUCLEAR RECEPTOR CO-REPRESSOR/HDAC3 COMPLEX SUBUNIT TBLR1 (TBL1- RELATED PROTEIN 1). [SWISSPROT;Acc:Q9BZK7]	0.031639	0.129724	0.24389473	no value
1424	IMPORTIN BETA-1 SUBUNIT (KARYOPHERIN BETA-1 SUBUNIT) (NUCLEAR FACTOR P97) (IMPORTIN 90). [SWISSPROT;Acc:Q14974]	0.35972	1.4749	0.243894501	KPNB1
1425		0.352259	1.44441	0.243877431	DCLK2
1426	MICROTUBULE-ASSOCIATED PROTEIN RP/EB FAMILY MEMBER 1 (APC-BINDING PROTEIN EB1). [SWISSPROT;Acc:Q15691]	0.109553	0.449228	0.243869483	MAPRE1
1427	HISTIDINE-RICH MEMBRANE PROTEIN KE4. [SWISSPROT;Acc:Q92504]				SLC39A7
1428	MICROTUBULE-ASSOCIATED PROTEIN RP/EB FAMILY MEMBER 3 (PROTEIN EB3). [SWISSPROT;Acc:Q9UPY8]	0.0890817	0.365289	0.243866363	MAPRE3
1429	"MICROTUBULE-ASSOCIATED PROTEIN, RP/EB FAMILY, MEMBER 2; T-CELL ACTIVATION PROTEIN, EB1 FAMILY; APC-BINDING PROTEIN EB1. [RefSeq;Acc:NM_014268]"	0.0850122	0.348604	0.243864672	MAPRE2
1430	PROTEASOME SUBUNIT ALPHA TYPE 1 (EC 3.4.25.1) (PROTEASOME COMPONENT C2) (MACROPAIN SUBUNIT C2) (MULTICATALYTIC ENDOPEPTIDASE COMPLEX SUBUNIT C2) (PROTEASOME NU CHAIN) (30 KDA PROSOMAL PROTEIN) (PROS-30). [SWISSPROT;Acc:P25786]	1.38784	5.69292	0.243783507	PSMA1
1431	ENTHOPROTIN; EPSIN 4; CLATHRIN INTERACTING PROTEIN LOCALIZED IN THE TRANS-GOLGI REGION. [RefSeq;Acc:NM_014666]	0.086609	0.355321	0.24374861	no value
1432	SERINE/THREONINE-PROTEIN KINASE DCAMKL1 (EC 2.7.1.-) (DOUBLECORTIN- LIKE AND CAM KINASE-LIKE 1). [SWISSPROT;Acc:O15075]	0.408607	1.67671	0.24369569	DCLK1
1433	RNA HELICASE-RELATED PROTEIN; RNA HELICASE-LIKE PROTEIN; SF3B125 DEAD-BOX PROTEIN. [RefSeq;Acc:NM_007372]	0.038631	0.158546	0.243657992	no value
1434	SPLICING FACTOR U2AF 35 KDA SUBUNIT (U2 AUXILIARY FACTOR 35 KDA SUBUNIT) (U2 SNRNP AUXILIARY FACTOR SMALL SUBUNIT). [SWISSPROT;Acc:Q01081]	0.116077	0.476394	0.243657561	U2AF1
1435	SPLICING COACTIVATOR SUBUNIT SRM300; RNA BINDING PROTEIN; AT-RICH ELEMENT BINDING FACTOR. [RefSeq;Acc:NM_016333]	0.0387861	0.159183	0.2436573	SRRM2
1436	SPLICING FACTOR U2AF 65 KDA SUBUNIT (U2 AUXILIARY FACTOR 65 KDA SUBUNIT) (U2 SNRNP AUXILIARY FACTOR LARGE SUBUNIT) (HU2AF(65)). [SWISSPROT;Acc:P26368]	0.408379	1.67604	0.243657073	U2AF2
1437	"RAC-BETA SERINE/THREONINE PROTEIN KINASE (EC 2.7.1.-) (RAC-PK-BETA) (PROTEIN KINASE AKT-2) (PROTEIN KINASE B, BETA) (PKB BETA). [SWISSPROT;Acc:P31751]"	0.0211896	0.0870115	0.24352643	AKT2
1438	RAC-ALPHA SERINE/THREONINE KINASE (EC 2.7.1.-) (RAC-PK-ALPHA) (PROTEIN KINASE B) (PKB) (C-AKT). [SWISSPROT;Acc:P31749]	0.0218319	0.089649	0.24352642	AKT1
1439		0.23697	0.973079	0.243525962	NLE1
1440	"RAC-GAMMA SERINE/THREONINE PROTEIN KINASE (EC 2.7.1.-) (RAC-PK-GAMMA) (PROTEIN KINASE AKT-3) (PROTEIN KINASE B, GAMMA) (PKB GAMMA) (STK-2). [SWISSPROT;Acc:Q9Y243]"	0.0249436	0.102427	0.243525633	AKT3
1441		0.539944	2.21735	0.243508693	UTP15
1442	TRANSDUCIN BETA-LIKE 3; WD-REPEAT PROTEIN SAZD. [RefSeq;Acc:NM_006453]	0.306804	1.26013	0.243470118	TBL3
1443		0.0255702	0.105024	0.243470064	COQ2
1444	GLUTAMYL TRNA SYNTHETASE. [SPTREMBL;Acc:O14563]	0.16091	0.66093	0.243459973	EARS2
1445	GLUTAMINYL-TRNA SYNTHETASE (EC 6.1.1.18) (GLUTAMINE--TRNA LIGASE) (GLNRS). [SWISSPROT;Acc:P47897]	0.193092	0.793116		QARS
1446	SPERMIDINE SYNTHASE (EC 2.5.1.16) (PUTRESCINE AMINOPROPYLTRANSFERASE) (SPDSY). [SWISSPROT;Acc:P19623]	0.032182	0.132186		SRM
1447	GLYCYL-TRNA SYNTHETASE (EC 6.1.1.14) (GLYCINE--TRNA LIGASE) (GLYRS). [SWISSPROT;Acc:P41250]	0.064364	0.264372		GARS
1448	BASIC PROLINE-RICH PEPTIDE P-E (IB-9). [SWISSPROT;Acc:P02811]	0.0700456	0.287741	0.243432809	no value
1449	SALIVARY PROLINE-RICH PROTEIN PO (ALLELE K) [CONTAINS: PEPTIDE P-D] (FRAGMENT). [SWISSPROT;Acc:P10162]	0.0770791	0.316634	0.243432796	PRB4
1450	PROBABLE CALCIUM-TRANSPORTING ATPASE KIAA0703 (EC 3.6.3.8). [SWISSPROT;Acc:O75185]	0.0721789	0.296552	0.243393739	ATP2C2
1451	UPF0202 PROTEIN KIAA1709. [SWISSPROT;Acc:Q9H0A0]	1.06283	4.367	0.243377605	NAT10

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 bloody hugo identifier as demanded by the BMC Bioinformatics idiots