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Staff at EMBL

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Publications

Total: 19 publication(s)

2014

Bock T, Chen WH, Ori A, Malik N, Silva-Martin N, Huerta-Cepas J, Powell ST, Kastritis PL, Smyshlyaev G, Vonkova I, Kirkpatrick J, Doerks T, Nesme L, Baßler J, Kos M, Hurt E, Carlomagno T, Gavin AC, Barabas O, Müller CW, van Noort V, Beck M, Bork P. (2014)
An integrated approach for genome annotation of the eukaryotic thermophile Chaetomium thermophilum.
Nucleic Acids Res. doi:10.1093/nar/gku1147
Europe PMC | doi

Chen WH, Zhao XM, van Noort V, Bork P. (2014)
Comments on "human dominant disease genes are enriched in paralogs originating from whole genome duplication"
PLoS Comput. Biol. 10(7) doi:10.1371/journal.pcbi.1003758
Europe PMC | doi


2013

Schönknecht G, Chen WH, Ternes CM, Barbier GG, Shrestha RP, Stanke M, Bräutigam A, Baker BJ, Banfield JF, Garavito RM, Carr K, Wilkerson C, Rensing SA, Gagneul D, Dickenson NE, Oesterhelt C, Lercher MJ, Weber AP. (2013)
Gene transfer from bacteria and archaea facilitated evolution of an extremophilic eukaryote
Science 339(6124):1207-1210. doi:10.1126/science.1231707
Europe PMC | doi

Chen WH, Zhao XM, van Noort V, Bork P. (2013)
Human monogenic disease genes have frequently functionally redundant paralogs
PLoS Comput. Biol. 9(5):e1003073. doi:10.1371/journal.pcbi.1003073
Europe PMC | doi


2012

Zhang H, Gao S, Lercher MJ, Hu S, Chen WH. (2012)
EvolView, an online tool for visualizing, annotating and managing phylogenetic trees
Nucleic Acids Res. 40(Web Server issue):W569-72. doi:10.1093/nar/gks576
Europe PMC | doi

Chen WH, Trachana K, Lercher MJ, Bork P. (2012)
Younger genes are less likely to be essential than older genes, and duplicates are less likely to be essential than singletons of the same age
Mol. Biol. Evol. 29(7):1703-1706. doi:10.1093/molbev/mss014
Europe PMC | doi

Chen WH, Minguez P, Lercher MJ, Bork P. (2012)
OGEE: an online gene essentiality database
Nucleic Acids Res. 40(Database issue):D901-6. doi:10.1093/nar/gkr986
Europe PMC | doi

Yus E, Güell M, Vivancos AP, Chen WH, Lluch-Senar M, Delgado J, Gavin AC, Bork P, Serrano L. (2012)
Transcription start site associated RNAs in bacteria
Mol. Syst. Biol. 8:585. doi:10.1038/msb.2012.16
Europe PMC | doi


2011

Trachana K, Larsson TA, Powell S, Chen WH, Doerks T, Muller J, Bork P. (2011)
Orthology prediction methods: a quality assessment using curated protein families
Bioessays 33(10):769-780. doi:10.1002/bies.201100062
Europe PMC | doi

Wu G, Zhang H, Sun J, Liu F, Ge X, Chen WH, Yu J, Wang W. (2011)
Diverse LEA (late embryogenesis abundant) and LEA-like genes and their responses to hypersaline stress in post-diapause embryonic development of Artemia franciscana
Comp. Biochem. Physiol. B, Biochem. Mol. Biol. 160(1):32-39. doi:10.1016/j.cbpb.2011.05.005
Europe PMC | doi

Chen WH, Wei W, Lercher MJ. (2011)
Minimal regulatory spaces in yeast genomes
BMC Genomics 12:320. doi:10.1186/1471-2164-12-320
Europe PMC | doi


2010

He F, Chen WH, Collins S, Acquisti C, Goebel U, Ramos-Onsins S, Lercher MJ, de Meaux J. (2010)
Assessing the influence of adjacent gene orientation on the evolution of gene upstream regions in Arabidopsis thaliana
Genetics 185(2):695-701. doi:10.1534/genetics.110.114629
Europe PMC | doi

Chen WH, de Meaux J, Lercher MJ. (2010)
Co-expression of neighbouring genes in Arabidopsis: separating chromatin effects from direct interactions
BMC Genomics 11:178. doi:10.1186/1471-2164-11-178
Europe PMC | doi

Hao L, Ge X, Wan H, Hu S, Lercher MJ, Yu J, Chen WH. (2010)
Human functional genetic studies are biased against the medically most relevant primate-specific genes
BMC Evol. Biol. 10:316. doi:10.1186/1471-2148-10-316
Europe PMC | doi


2009

Yus E, Maier T, Michalodimitrakis K, van Noort V, Yamada T, Chen WH, Wodke JA, Güell M, Martínez S, Bourgeois R, Kühner S, Raineri E, Letunic I, Kalinina OV, Rode M, Herrmann R, Gutiérrez-Gallego R, Russell RB, Gavin AC, Bork P, Serrano L. (2009)
Impact of genome reduction on bacterial metabolism and its regulation
Science 326(5957):1263-1268. doi:10.1126/science.1177263
Europe PMC | doi

Kühner S, van Noort V, Betts MJ, Leo-Macias A, Batisse C, Rode M, Yamada T, Maier T, Bader S, Beltran-Alvarez P, Castaño-Diez D, Chen WH, Devos D, Güell M, Norambuena T, Racke I, Rybin V, Schmidt A, Yus E, Aebersold R, Herrmann R, Böttcher B, Frangakis AS, Russell RB, Serrano L, Bork P, Gavin AC. (2009)
Proteome organization in a genome-reduced bacterium
Science 326(5957):1235-1240. doi:10.1126/science.1176343
Europe PMC | doi

Güell M, van Noort V, Yus E, Chen WH, Leigh-Bell J, Michalodimitrakis K, Yamada T, Arumugam M, Doerks T, Kühner S, Rode M, Suyama M, Schmidt S, Gavin AC, Bork P, Serrano L. (2009)
Transcriptome complexity in a genome-reduced bacterium
Science 326(5957):1268-1271. doi:10.1126/science.1176951
Europe PMC | doi

Chen WH, Ge X, Wang W, Yu J, Hu S. (2009)
A gene catalogue for post-diapause development of an anhydrobiotic arthropod Artemia franciscana
BMC Genomics 10:52. doi:10.1186/1471-2164-10-52
Europe PMC | doi


1998

Horn F, Weare J, Beukers MW, Hörsch S, Bairoch A, Chen W, Edvardsen O, Campagne F, Vriend G. (1998)
GPCRDB: an information system for G protein-coupled receptors
Nucleic Acids Res. 26(1):275-279. doi:10.1093/nar/26.1.275
Europe PMC | doi