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Gearing up to handle the mosaic nature of life in the quest for orthologs

Autor: Forslund, K., Pereira, C., Capella-Gutierrez, S., Sousa da Silva, A., Altenhoff, A., Huerta-Cepas, J., Muffato, M., Patricio, M., Vandepoele, K., Ebersberger, I., Blake, J., Fernández Breis, J.T., Boeckmann, B., Gabaldón, T., Sonnhammer, E., Dessimoz, C., Lewis, S.

Publikováno v: Forslund, K; Pereira, C; Capella-Gutierrez, S; Da Silva, AS; Altenhoff, A; Huerta-Cepas, J; et al.(2018). Gearing up to handle the mosaic nature of life in the quest for orthologs. Bioinformatics, 34(2), 323-329. doi: 10.1093/bioinformatics/btx542. Lawrence Berkeley National Laboratory: Retrieved from: http://www.escholarship.org/uc/item/9b96q5mt
BIOINFORMATICS

© The Author 2017. Published by Oxford University Press. Summary The Quest for Orthologs (QfO) is an open collaboration framework for experts in comparative phylogenomics and related research areas who have an interest in highly accurate orthology p

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=dedup_wf_001::07541d8ed410ce1b0a2475961d9ac3fc
http://www.escholarship.org/uc/item/9b96q5mt

Current Methods for Automated Filtering of Multiple Sequence Alignments Frequently Worsen Single-Gene Phylogenetic Inference

Autor: Ge Tan, Muffato M, Ledergerber C, Herrero J, Goldman N, Gil M, Dessimoz C

Publikováno v: Europe PubMed Central
Systematic Biology, 64 (5)
Systematic Biology

Phylogenetic inference is generally performed on the basis of multiple sequence alignments (MSA). Because errors in an alignment can lead to errors in tree estimation, there is a strong interest in identifying and removing unreliable parts of the ali

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::1422ee1e04c8e42b64424771ef02be0b
http://doc.rero.ch/record/289324/files/syv033.pdf

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Ensembl 2012

Autor: Flicek, P., Amode, M. R., Barrell, D., Beal, K., Brent, S., Carvalho-Silva, D., Clapham, P., Coates, G., Fairley, S., Fitzgerald, S., Gil, L., Gordon, L., Hendrix, M., Hourlier, T., Johnson, N., Kahari, A. K., Keefe, D., Keenan, S., Kinsella, R., Komorowska, M., Koscielny, G., Kulesha, E., Larsson, P., Longden, I., McLaren, W., Muffato, M., Overduin, B., Pignatelli, M., Pritchard, B., Riat, H. S., Ritchie, G. R. S., Ruffier, M., Schuster, M., Sobral, D., Tang, Y. A., Taylor, K., Trevanion, S., Vandrovcova, J., White, S., Wilson, M., Wilder, S. P., Aken, B. L., Birney, E., Cunningham, F., Dunham, I., Durbin, R., Fernandez-Suarez, X. M., Harrow, J., Herrero, J., Hubbard, T. J. P., Parker, A., Proctor, G., Spudich, G., Vogel, J., Yates, A., Zadissa, A., Searle, S. M. J.

Publikováno v: Nucleic Acids Research
Nucleic Acids Research; Vol 40

The Ensembl project (http://www.ensembl.org) provides genome resources for chordate genomes with a particular focus on human genome data as well as data for key model organisms such as mouse, rat and zebrafish. Five additional species were added in t

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::9fc688f95514b4e22fe909d6c8366bd0
https://pubmed.ncbi.nlm.nih.gov/22086963