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Type: (datasets) Author Name: Danchin, Etienne

11 to 15 of 15 Results

M. incognita candidate effector proteins Aug 18, 2020 - Genes specific to phytoparasitic nematodes INRAE/EMBRAPA Danchin, Etienne, 2020, "M. incognita candidate effector proteins", https://doi.org/10.15454/CSTXU2, Portail Data INRAE, V1 Accession numbers of M. incognita candidate effectors. These proteins are predicted to be secreted based on the presence of a signal peptide for secretion and absence of transmembrane domains. Furthermore at least one motif known to be enriched in effector proteins is present in...
Horizontal gene transfer candidates in M. incognita Aug 18, 2020 - Genes specific to phytoparasitic nematodes INRAE/EMBRAPA Danchin, Etienne; Rancurel, Corinne, 2020, "Horizontal gene transfer candidates in M. incognita", https://doi.org/10.15454/W6SWZH, Portail Data INRAE, V1, UNF:6:wuWOjB++Puk5yJOSrDfxWw== [fileUNF] Analysis of horizontal gene transfer (HGT) candidates on the M. incognita predicted proteins from (Blanc-Mathieu et al. 2017), using Alienness (Rancurel et al. 2017) on a Diamond search against the NCBI's nr library. The following parameters were used in Alienness Taxonomic group...
Global statistics of the orthofinder analysis Aug 18, 2020 - Genes specific to phytoparasitic nematodes INRAE/EMBRAPA Danchin, Etienne; Grynberg, Priscila; Togawa, Roberto, 2020, "Global statistics of the orthofinder analysis", https://doi.org/10.15454/ZGUP7N, Portail Data INRAE, V1 General statistics of the orhofinder analysis on the 63 species (including 61 nematodes). Number of orthogroups, of genes in orthogroups etc...
Gene Ontology enrichment in PPN-specific and horizontally acquired proteins Oct 19, 2020 - Genes specific to phytoparasitic nematodes INRAE/EMBRAPA Grynberg, Priscila; Danchin, Etienne, 2020, "Gene Ontology enrichment in PPN-specific and horizontally acquired proteins", https://doi.org/10.15454/8NZABA, Portail Data INRAE, V3, UNF:6:yJukDnmw5qngLgeT3hhznw== [fileUNF] We used a hypergeometric test within the FUNC program (Prüfer et al., 2007) to determine whether certain GO terms assigned via InterproScan annotation were significantly enriched in M. incognita : - PPN-specific proteins - PPN-specific putative secreted proteins (PSP) - PPN-speci...
Annotated list of species used in this study Aug 18, 2020 - Genes specific to phytoparasitic nematodes INRAE/EMBRAPA Danchin, Etienne; Grynberg, Priscila; Togawa, Roberto, 2020, "Annotated list of species used in this study", https://doi.org/10.15454/IIAQOW, Portail Data INRAE, V1 Annotated list of the 63 species used in the Orthofinder comparative analysis of nematodes (61 species) and two tardigrade species as out-groups. Description: Lines 1-64, definition of columns - Abbrev Species: abbreviated species name. Species identifiers used in all the Orthofi...

M. incognita candidate effector proteins

Aug 18, 2020 - Genes specific to phytoparasitic nematodes INRAE/EMBRAPA

Danchin, Etienne, 2020, "M. incognita candidate effector proteins", https://doi.org/10.15454/CSTXU2, Portail Data INRAE, V1

Accession numbers of M. incognita candidate effectors. These proteins are predicted to be secreted based on the presence of a signal peptide for secretion and absence of transmembrane domains. Furthermore at least one motif known to be enriched in effector proteins is present in...

Horizontal gene transfer candidates in M. incognita

Aug 18, 2020 - Genes specific to phytoparasitic nematodes INRAE/EMBRAPA

Danchin, Etienne; Rancurel, Corinne, 2020, "Horizontal gene transfer candidates in M. incognita", https://doi.org/10.15454/W6SWZH, Portail Data INRAE, V1, UNF:6:wuWOjB++Puk5yJOSrDfxWw== [fileUNF]

Analysis of horizontal gene transfer (HGT) candidates on the M. incognita predicted proteins from (Blanc-Mathieu et al. 2017), using Alienness (Rancurel et al. 2017) on a Diamond search against the NCBI's nr library. The following parameters were used in Alienness Taxonomic group...

Global statistics of the orthofinder analysis

Aug 18, 2020 - Genes specific to phytoparasitic nematodes INRAE/EMBRAPA

Danchin, Etienne; Grynberg, Priscila; Togawa, Roberto, 2020, "Global statistics of the orthofinder analysis", https://doi.org/10.15454/ZGUP7N, Portail Data INRAE, V1

General statistics of the orhofinder analysis on the 63 species (including 61 nematodes). Number of orthogroups, of genes in orthogroups etc...

Gene Ontology enrichment in PPN-specific and horizontally acquired proteins

Oct 19, 2020 - Genes specific to phytoparasitic nematodes INRAE/EMBRAPA

Grynberg, Priscila; Danchin, Etienne, 2020, "Gene Ontology enrichment in PPN-specific and horizontally acquired proteins", https://doi.org/10.15454/8NZABA, Portail Data INRAE, V3, UNF:6:yJukDnmw5qngLgeT3hhznw== [fileUNF]

We used a hypergeometric test within the FUNC program (Prüfer et al., 2007) to determine whether certain GO terms assigned via InterproScan annotation were significantly enriched in M. incognita : - PPN-specific proteins - PPN-specific putative secreted proteins (PSP) - PPN-speci...

Annotated list of species used in this study

Aug 18, 2020 - Genes specific to phytoparasitic nematodes INRAE/EMBRAPA

Danchin, Etienne; Grynberg, Priscila; Togawa, Roberto, 2020, "Annotated list of species used in this study", https://doi.org/10.15454/IIAQOW, Portail Data INRAE, V1

Annotated list of the 63 species used in the Orthofinder comparative analysis of nematodes (61 species) and two tardigrade species as out-groups. Description: Lines 1-64, definition of columns - Abbrev Species: abbreviated species name. Species identifiers used in all the Orthofi...

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