1,720,988 research outputs found
Alignments - Torruella et al (2009)
No full textFinal, edited, alignment of LysA and AAR genes.-Guifré Torruella, Hiroshi Suga, Marta Riutort, Juli Peretó & Iñaki Ruiz-Trillo. (2009)The evolutionary history of lysine biosynthesis pathways within eukaryotes.Journal of Molecular Evolution 69(3): 240-248.www.multicellgenome.com</div
Matrix - Torruella et al (2012)
No full textAll individual final, edited, alignments used in the phylogenomic analysis.–Guifré Torruella, Romain Derelle, Jordi Paps, B. Franz Lang, Andrew J Roger, Kamran Shalchian-Tabrizi & Iñaki Ruiz-Trillo. (2012)Phylogenetic relationships within the Opisthokonta based on phylogenomic analyses of conserved single copy protein domains.Molecular Biology and Evolution 29(2): 531-544.www.multicellgenome.com</div
Metadata for the Animals and No-Animals databases in TFM Arnau Galan
No full textMETADATA FOR THE CUSTOM DATABASES USED IN ARNAU GALAN's TFM("The origins of the core Hippo pathway innonmetazoans")########################################################metadata.TFM.AG.no.animals.tsv: metadata for the No Animals databasemetadata.TFM.AG.animals.tsv: metadata for the Animals databas
Myosins dataset - Sebé-Pedrós et al. (2014)
No full textArnau Sebé-Pedrós, Xavier Grau-Bové, Thomas A. Richards & Iñaki Ruiz-Trillo. (2014)Evolution and classification of myosins, a paneukaryotic whole genome approach.Genome Biology and Evolution 6(2):290-305.</div
Supplementary - Evolutionary analysis of p38 stress activated kinases in unicellular relatives of animals suggests an ancestral function in osmotic stress
No full textThe item contains Supplementary Files 1-4 for the manuscript "Evolutionary analysis of p38 stress activated kinases in unicellular relatives of animals suggest an ancestral function in osmotic stress"</p
Transcriptome - Amoebidium parasiticum
No full textThis data has been produced using BGI assembly + Transdecoder.–Guifré Torruella, Romain Derelle, Jordi Paps, B. Franz Lang, Andrew J Roger, Kamran Shalchian-Tabrizi & Iñaki Ruiz-Trillo. (2012)Phylogenetic relationships within the Opisthokonta based on phylogenomic analyses of conserved single copy protein domains.Molecular Biology and Evolution 29(2): 531-544.Access matrixwww.multicellgenome.com</div
Alignments - de Mendoza et al (2011)
No full textFinal, edited, amino acid alignment of MAGUK proteins as used in the manuscript.–Alex de Mendoza & Iñaki Ruiz-Trillo. (2011)The mysterious Evolutionary Origin for the GNE gene and the root of BilateriaMolecular Biology and Evolution 28(11): 2987-91.www.multicellgenome.com</div
Supplementary Files - Ocaña-Pallarès et al. 2018
No full textSupplementary files for the manuscript Ocaña-Pallarès et al. 2018 entitled "Reticulate evolution in eukaryotes: Origin and evolution of the nitrate assimilation pathway".</i
CellCycle Perez-Posada et al., 2019
No full textSupporting information files S1-S19, and Video 1, for the manuscript
Perez-Posada et al. 2020 entitled "'Cell cycle transcriptomics
of Capsaspora provides insights into the evolution of
cyclin-CDK machinery".
We
characterized the periodic transcriptional program of Capsaspora
in two independent cultures (Video 1), retrieving around 800 periodic
genes (Supporting files
S4 and S5). This dataset was further analyzed by comparative genomics
and phylogenies; Supporting file S6 are the significant GeneOntology
enrichments of each cluster of periodic genes. Supporting files
S12 and S13 are cell cycle regulators in human with known periodic
orthologs in Capsaspora; Supporting file S14 is the gene
age enrichment/depletion analysis of Capsaspora
cell cycle gene clusters. Validation
of expression of some genes with qPCR can be found in file S11.
Supporting
File
S8 contains the list of species used in comparative analyses. File S2
contains the human and yeast sequences used as queries to retrieve
MTOC orthologs in Capsaspora and other unicellular holozoans,
and Figure S3 is the list of BLAST matches in Capsapora and
other unicellular holozoans. File S7 contains the fasta
sequences of cyclins and CDKS used in the pylogenetic trees,
with the updated
sequence of the re-annotated Capsaspora CDK1/2/3 also
found in File S10. Files S15 describes the procedure used to retrieve
gene identifiers for periodic genes of human, yeasts and plant
datasets; as well as pipeline parameters to call for periodic genes
in our reanalysis. Files S16 and S17 contain the metrics of shared
periodic orthogroups between pairs of species. Files 18 and 19 show
the GO enriched terms, for each species, of the genes conserved in
the core set of periodic orthogroups, as well as the identity of the
Capsaspora genes belonging to those orthogroups.</p
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