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.

Navigation/Query Panel:
Click on the attribute name to hide/unhide it. The green arrows can be used to shift columns left/right. Exact word match is written as =..., regular expressions can be matched with ~.... To select all values larger or equal than use >.... This would be <... for values smaller or equal than. To select all values within a specific range use [...,...].

Hugo	measured	Gene	expected	final	Rank	description

Results: HTML CSV LaTeX

Showing element 501 to 550 of 3206 in total

Hugo	measured	expected	final	Rank	description
ARHGAP10	0.0163276	0.0681463	0.23959628	1623
ARHGAP21	0.0500251	0.180355	0.277370187	426	RHO-GTPASE ACTIVATING PROTEIN 10. [RefSeq;Acc:NM_020824]
ARHGAP23	0.0397949	0.143472	0.277370497	424
ARHGAP26	0.0203871	0.0850893	0.239596518	1622	OLIGOPHRENIN-1 LIKE PROTEIN (GTPASE REGULATOR ASSOCIATED WITH FOCAL ADHESION KINASE). [SWISSPROT;Acc:Q9UNA1]
ARHGEF3	0.0223435	0.0922076	0.242317336	1527	"RHO GUANINE NUCLEOTIDE EXCHANGE FACTOR 3; RHOGEF PROTEIN; 59.8 KDA PROTEIN; EXCHANGE FACTOR FOUND IN PLATELETS AND LEUKEMIC AND NEURONAL TISSUES, XPLN. [RefSeq;Acc:NM_019555]"
ARHGEF4	0.0362539	0.158511	0.228715357	2091	RHO GUANINE NUCLEOTIDE EXCHANGE FACTOR 4 ISOFORM A; APC-STIMULATED GUANINE NUCLEOTIDE EXCHANGE FACTOR. [RefSeq;Acc:NM_015320]
ARHGEF6	0.257131	1.13453	0.226640988	2181	RHO GUANINE NUCLEOTIDE EXCHANGE FACTOR 6 (PAK-INTERACTING EXCHANGE FACTOR ALPHA) (ALPHA-PIX) (COOL-2). [SWISSPROT;Acc:Q15052]
ARHGEF7	0.214133	0.945656	0.226438578	2186	RHO GUANINE NUCLEOTIDE EXCHANGE FACTOR 7 (PAK-INTERACTING EXCHANGE FACTOR BETA) (BETA-PIX) (COOL-1) (P85). [SWISSPROT;Acc:Q14155]
ARHGEF9	0.0307532	0.13446	0.228716347	2089	CDC42 GUANINE EXCHANGE FACTOR 9; HPEM-2 COLLYBISTIN. [RefSeq;Acc:NM_015185]
ARID1A	0.182783	0.506093	0.361164845	113	"SWI/SNF-RELATED, MATRIX-ASSOCIATED, ACTIN-DEPENDENT REGULATOR OF CHROMATIN SUBFAMILY F MEMBER 1 (SWI-SNF COMPLEX PROTEIN P270) (B120). [SWISSPROT;Acc:O14497]"
ARID1B	0.155731	0.431206	0.36115221	115	BRG1-BINDING PROTEIN ELD/OSA1; ELD (EYELID)/OSA PROTEIN. [RefSeq;Acc:NM_020732]
ARID4B	0.403732	1.64923	0.244800301	1373
ARL1	0.0394801	0.163824	0.240990941	1566	ADP-RIBOSYLATION FACTOR-LIKE PROTEIN 1. [SWISSPROT;Acc:P40616]
ARL3	0.038359	0.163741	0.234266311	1822	ADP-RIBOSYLATION FACTOR-LIKE PROTEIN 3. [SWISSPROT;Acc:P36405]
ARL4A	0.0296714	0.122715	0.241791142	1549	ADP-RIBOSYLATION FACTOR-LIKE PROTEIN 4. [SWISSPROT;Acc:P40617]
ARL6IP5	0.104678	0.601977	0.173890365	2913	CYTOSKELETON RELATED VITAMIN A RESPONSIVE PROTEIN; GLUTAMATE TRANSPORTER EEAC1-ASSOCIATED PROTEIN; DERMAL PAPILLA DERIVED PROTEIN 11; PUTATIVE MAPK ACTIVATING PROTEIN PM27. [RefSeq;Acc:NM_006407]
ARMET	0.0869714	0.403767	0.215399971	2496	ARMET PROTEIN PRECURSOR (ARGININE-RICH PROTEIN). [SWISSPROT;Acc:P55145]
ARPC1A	0.355858	1.3445	0.264676832	724	ACTIN-RELATED PROTEIN 2/3 COMPLEX SUBUNIT 1A (SOP2-LIKE PROTEIN). [SWISSPROT;Acc:Q92747]
ARPC1B	0.317947	1.20127	0.264675718	732	ARP2/3 COMPLEX 41 KDA SUBUNIT (P41-ARC) (ACTIN-RELATED PROTEIN 2/3 COMPLEX SUBUNIT 1B). [SWISSPROT;Acc:O15143]
ARPC2	0.427564	1.62441	0.263211874	778	ARP2/3 COMPLEX 34 KDA SUBUNIT (P34-ARC) (ACTIN-RELATED PROTEIN 2/3 COMPLEX SUBUNIT 2). [SWISSPROT;Acc:O15144]
ARPC3	0.392968	1.48471	0.264676604	725	ARP2/3 COMPLEX 21 KDA SUBUNIT (P21-ARC) (ACTIN-RELATED PROTEIN 2/3 COMPLEX SUBUNIT 3). [SWISSPROT;Acc:O15145]
ARPC5	0.402903	1.52156	0.264795999	717	ARP2/3 COMPLEX 16 KDA SUBUNIT (P16-ARC) (ACTIN-RELATED PROTEIN 2/3 COMPLEX SUBUNIT 5). [SWISSPROT;Acc:O15511]
ARPC5L	0.424703	1.60405	0.264769178	719
ARRB1	0.282189	2.04196	0.138195165	2985	"BETA-ARRESTIN 1 (ARRESTIN, BETA 1). [SWISSPROT;Acc:P49407]"
ARRB2	0.240182	1.738	0.138194476	2988	"BETA-ARRESTIN 2 (ARRESTIN, BETA 2). [SWISSPROT;Acc:P32121]"
ARRDC2	1.02292	3.93312	0.260078513	879
ARRDC3	0.0467541	0.193844	0.241194466	1562
ARRDC4	0.0442559	0.183485	0.241196283	1561
ASAH1	0.083902	0.35015	0.239617307	1618	ACID CERAMIDASE PRECURSOR (EC 3.5.1.23) (ACYLSPHINGOSINE DEACYLASE) (N-ACYLSPHINGOSINE AMIDOHYDROLASE) (AC) (PUTATIVE 32 KDA HEART PROTEIN) (PHP32). [SWISSPROT;Acc:Q13510]
ASCC1	0.343832	1.3576	0.253264585	1044
ASCC2	0.0336999	0.139062	0.242337231	1521	ASC-1 COMPLEX SUBUNIT P100. [RefSeq;Acc:NM_032204]
ASL	0.255929	1.14373	0.223766973	2243	ARGININOSUCCINATE LYASE (EC 4.3.2.1) (ARGINOSUCCINASE) (ASAL). [SWISSPROT;Acc:P04424]
ASNS	0.0326245	0.137154	0.237867652	1697	ASPARAGINE SYNTHETASE [GLUTAMINE-HYDROLYZING] (EC 6.3.5.4) (GLUTAMINE- DEPENDENT ASPARAGINE SYNTHETASE) (TS11 CELL CYCLE CONTROL PROTEIN). [SWISSPROT;Acc:P08243]
ASNSD1	0.0338955	0.142498	0.237866496	1699	HCV NS3-TRANSACTIVATED PROTEIN 1. [RefSeq;Acc:NM_019048]
ASS1	0.161564	0.685844	0.235569605	1778	ARGININOSUCCINATE SYNTHASE (EC 6.3.4.5) (CITRULLINE--ASPARTATE LIGASE). [SWISSPROT;Acc:P00966]
ATAD1	0.153382	0.756695	0.202699899	2756
ATF2	0.673422	2.49889	0.269488453	586	CYCLIC-AMP-DEPENDENT TRANSCRIPTION FACTOR ATF-2 (ACTIVATING TRANSCRIPTION FACTOR 2) (CAMP RESPONSE ELEMENT BINDING PROTEIN CRE- BP1) (HB16). [SWISSPROT;Acc:P15336]
ATF3	0.101196	0.30217	0.334897574	182	CYCLIC-AMP-DEPENDENT TRANSCRIPTION FACTOR ATF-3 (ACTIVATING TRANSCRIPTION FACTOR 3). [SWISSPROT;Acc:P18847]
ATF6	0.0417611	0.170257	0.24528272	1343	CYCLIC-AMP-DEPENDENT TRANSCRIPTION FACTOR ATF-6 ALPHA (ACTIVATING TRANSCRIPTION FACTOR 6 ALPHA) (ATF6-ALPHA). [SWISSPROT;Acc:P18850]
ATF7	0.574984	2.13394	0.269447126	587	CYCLIC-AMP-DEPENDENT TRANSCRIPTION FACTOR ATF-7 (ACTIVATING TRANSCRIPTION FACTOR 7) (TRANSCRIPTION FACTOR ATF-A). [SWISSPROT;Acc:P17544]
ATG12	0.196655	0.876663	0.224322231	2229	AUTOPHAGY PROTEIN 12-LIKE (APG12-LIKE). [SWISSPROT;Acc:O94817]
ATG16L1	0.515003	1.71949	0.299509157	302
ATG16L2	0.329649	1.10466	0.298416707	305
ATG3	0.206188	1.59883	0.128961803	3000	APG3P; PC3-96 PROTEIN. [RefSeq;Acc:NM_022488]
ATG4A	0.156084	1.50787	0.103512902	3067	CYSTEINE ENDOPEPTIDASE AUT-LIKE 2 ISOFORM A; AUTOPHAGY-RELATED CYSTEINE ENDOPEPTIDASE 2; AUTOPHAGIN 2. [RefSeq;Acc:NM_052936]
ATG4B	0.126175	1.21767	0.103620028	3064	CYSTEINE ENDOPEPTIDASE AUT-LIKE ISOFORM B. [RefSeq;Acc:NM_178326]
ATG5	0.40611	1.51635	0.267820754	653	AUTOPHAGY PROTEIN 5-LIKE (APG5-LIKE) (APOPTOSIS-SPECIFIC PROTEIN). [SWISSPROT;Acc:Q9H1Y0]
ATIC	0.100408	0.416	0.241365385	1553	BIFUNCTIONAL PURINE BIOSYNTHESIS PROTEIN PURH [INCLUDES: PHOSPHORIBOSYLAMINOIMIDAZOLECARBOXAMIDE FORMYLTRANSFERASE (EC 2.1.2.3) (AICAR TRANSFORMYLASE); IMP CYCLOHYDROLASE (EC 3.5.4.10) (INOSINICASE) (IMP SYNTHETASE) (ATIC)]. [SWISSPROT;Acc:P31939]
ATN1	0.13427	0.484077	0.277373228	417	ATROPHIN-1 (DENTATORUBRAL-PALLIDOLUYSIAN ATROPHY PROTEIN). [SWISSPROT;Acc:P54259]
ATP11A	0.0225037	0.0892747	0.252072536	1083	POTENTIAL PHOSPHOLIPID-TRANSPORTING ATPASE IH (EC 3.6.3.1) (ATPASE CLASS I TYPE 11A) (ATPASE IS). [SWISSPROT;Acc:P98196]

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