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pro vyhledávání: '"Dupim, Eduardo Guimarães"'
Autor:
Dias, Guilherme Rezende1 (AUTHOR) guilhermedrdias@gmail.com, Dupim, Eduardo Guimarães1 (AUTHOR), Vanderlinde, Thyago1 (AUTHOR), Mello, Beatriz1 (AUTHOR), Carvalho, Antonio Bernardo1 (AUTHOR)
Publikováno v:
BMC Evolutionary Biology. 11/2/2020, Vol. 20 Issue 1, p1-12. 12p.
Autor:
Dias, Guilherme Rezende, Dupim, Eduardo Guimarães, Thyago Vanderlinde, Mello, Beatriz, Carvalho, Antonio Bernardo
Additional file 6: Fig. S3. Histogram showing the distribution of the total sum of branch lengths (SBL) for each of the 1,100 genes trees. Phylogenetic trees were inferred under the Maximum Likelihood method for each of the genes annotated by BUSCO,
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::5fff241baef99636ab08c605d830c31a
Autor:
Dias, Guilherme Rezende, Dupim, Eduardo Guimarães, Thyago Vanderlinde, Mello, Beatriz, Carvalho, Antonio Bernardo
Additional file 8: Fig. S4. Histogram showing the distribution of the total sum of branch lengths (SBL) of each of the 1,100 genes trees after fixing sequences with frame shifts. This approach reduced the number of sequences with abnormally high SBL,
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::9ecfa0dd5eda61c5405d6aa936debb69
Autor:
Dias, Guilherme Rezende, Dupim, Eduardo Guimarães, Thyago Vanderlinde, Mello, Beatriz, Carvalho, Antonio Bernardo
Additional file 9: Fig. S5. Example of a gene tree with abnormally long branch lengths (sum of branch lengths: 36.8) due to the misannotation of Phortica variegata ortholog related to the D. melanogaster’s gene CG7432 by BUSCO (a). As showed in b,
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::38535b5e01ba174db417efed9109c1ae
Autor:
Dias, Guilherme Rezende, Dupim, Eduardo Guimarães, Thyago Vanderlinde, Mello, Beatriz, Carvalho, Antonio Bernardo
Additional file 1: Fig. S1: Topologies obtained from the phylogenomic dataset and their frequencies. Topologies A, E and F recovered the Steganinae subfamily as monophyletic and account together for 46.7% of the total gene trees. The remaining trees
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::286be78d1f6ec94475c63cadbf12c56a
Autor:
Dias, Guilherme Rezende, Dupim, Eduardo Guimarães, Thyago Vanderlinde, Mello, Beatriz, Carvalho, Antonio Bernardo
Additional file 10: Fig. S6. Distribution of the variance and total sum of branch lengths of gene trees. The dashed lines indicate the 5% cutoff values established to exclude potentially problematic trees for both parameters.
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::68d72dc37ecfffa407540236bdbc1b5d
Autor:
Dias, Guilherme Rezende, Dupim, Eduardo Guimarães, Thyago Vanderlinde, Mello, Beatriz, Carvalho, Antonio Bernardo
Additional file 2: Table S1. Sources of the genome assemblies used for phylogenetic analysis. Table S2: Drosophilidae genome assemblies’ statistics. Table S3. BUSCO results for the 10 species. The total number of single-copy ortholog genes present
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::1d247dcf504cf8e4c65118f923aeb5e0
Autor:
Dias, Guilherme Rezende, Dupim, Eduardo Guimarães, Thyago Vanderlinde, Mello, Beatriz, Carvalho, Antonio Bernardo
Additional file 7: fix_busco_CDS_frame.txt: BUSCO produced some CDS with frame + 2 or + 3, which created problems in the following analysis with translatorX. This awk script corrects the reading frame of all CDS to + 1.
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::222e5f0a03a0a6c09dc7eabf7c36fb61
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Autor:
Dias, Guilherme Rezende, Dupim, Eduardo Guimarães, Thyago Vanderlinde, Mello, Beatriz, Carvalho, Antonio Bernardo
Additional file 11: Fig. S7. Summary of the phylogenetic methods used for gene and species trees inference.
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::1c0d15d06e20f30545f798acc99a6c76