Différences

Ci-dessous, les différences entre deux révisions de la page.

--- methodologie_portrait [2023/09/19 07:31] – [Principaux clades pour les sous-types H1 et H3] Christian Klopfenstein
+++ methodologie_portrait [2023/09/24 14:09] (Version actuelle) – Christian Klopfenstein
@@ Ligne 1: / Ligne 1: @@
-===== Méthodologies =====
+===== Classification des virus (H1|H3) =====
 ==== Méthodes des sous-types (H|N) ====
@@ Ligne 12: / Ligne 12: @@
-===== Principaux clades pour les sous-types H1 et H3 dans Octoflu=====
+===== Principaux clades pour les sous-types H1 et H3 (1-8) =====
-^  ^Clade H1 (branche) ^Clade H3^ (branche)
-|1|H1 alpha (1A.1.1)  |H3 C_I (3.1990.1) |
-|2|H1 alpha2 (1A)  |H3 LAIV_C-I (3.1990.1) |
-|3|H1 alpha3 (1A.1.1)  |H3 C_IV (3.1990.4) |
-|4|H1 alpha3a (1A.1.1)  |H3 C_IVA (3.1990.4.1) |
-|5|H1 beta (1A.2)  |H3 C_IVB (3.1990.4.2-3) |
-|6|H1 delta1 (1B.2.2.2)  |H3 C_IVC (3.1990.4.4) |
-|7|H1 delta2 (1B.2.1)  |H3 C_IVD (3.1990.4.5) |
-|8|H1 delta-like (Other-Human-1B.2)  |H3 C_IVE (3.1990.4.6) |
-|10|H1 1A.3.1 (1A.3.1)  |H3 C_IVF (3.1990.4.7) |
-|11|H1 gamma (1A.3.3.3)  |H3 2010-human_like (3.2010.1) |
-|12|H1 gamma2 (1A.3.2)  |H3 2016-human_like (3.2010.2) |
-|13|H1 pdm (1A.3.3.2)  |H3 humanVaccine (humanVaccine) |
-|14|H1 pdm-vaccine (1A.3.3.2)  ||
-|15|H1 LAIV_gamma2-beta-like (1A.2-3-like)  ||
-|16|H1 Eurasian_avian-like (1C.2)  ||
+^  ^Clade H1^Clade H3^
+|1|H1-α|Human-like H3|
+|2|H1-β|Cluster IV|
+|3|H1-γ1|Cluster IV-A|
+|4|H1-γ2|Cluster IV-B|
+|5|H1-pdm09|Cluster IV-C|
+|6|H1-δ1a|Cluster IV-D|
+|7|H1-δ1b|Cluster IV-E|
+|8|H1-δ2|Cluster IV-F|
+|9|H1-γ2-βlike (vaccin vivant atténué)|H3-2010.1|
+|10|  |H3-2010.2|
+|11|  |H3-CI (vaccin vivant atténué)|
 === Références pour les clades H1 et H3 ===
@@ Ligne 40: / Ligne 34: @@
 [[https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5156671/|A Phylogeny-Based Global Nomenclature System and Automated Annotation Tool for H1 Hemagglutinin Genes from Swine Influenza A Viruses (2016)]] ((Anderson TK, Macken CA, Lewis NS, et al. A Phylogeny-Based Global Nomenclature System and Automated Annotation Tool for H1 Hemagglutinin Genes from Swine Influenza A Viruses. mSphere. 2016;1(6):e00275-16. Published 2016 Dec 14. doi:10.1128/mSphere.00275-16))\\
 [[https://www.sciencedirect.com/science/article/pii/S0042682218300436|Antigenic and genetic evolution of contemporary swine H1 influenza viruses in the United States (2018)]]
-((Rajao DS, Anderson TK, Kitikoon P, Stratton J, Lewis NS, Vincent AL. Antigenic and genetic evolution of contemporary swine H1 influenza viruses in the United States. Virology. 2018;518:45-54. doi:10.1016/j.virol.2018.02.006))\\
+((Rajao DS, Anderson TK, Kitikoon P, Stratton J, Lewis NS, Vincent AL. Antigenic and genetic evolution of contemporary swine H1 influenza viruses in the United States. Virology. 2018;518:45-54. doi:10.1016/j.virol.2018.02.006))
-[[https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6468071/|Regional patterns of genetic diversity in swine influenza A viruses in the United States from 2010 to 2016 (2019)]]
-((Walia RR, Anderson TK, Vincent AL. Regional patterns of genetic diversity in swine influenza A viruses in the United States from 2010 to 2016. Influenza Other Respir Viruses. 2019;13(3):262-273. doi:10.1111/irv.12559))
 **Clades pour les virus influenza porcins sous-types H3**
 [[https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6468071/|Regional patterns of genetic diversity in swine influenza A viruses in the United States from 2010 to 2016 (2019)]]
 ((Walia RR, Anderson TK, Vincent AL. Regional patterns of genetic diversity in swine influenza A viruses in the United States from 2010 to 2016. Influenza Other Respir Viruses. 2019;13(3):262-273. doi:10.1111/irv.12559))
@@ Ligne 71: / Ligne 63: @@
 Cet outil est disponible en ligne sur le site fludb.org. Cet outil permet de classifier les séquences de la protéine HA des sous-type H1 des virus influenza porcin.
-[[https://www.fludb.org/brc/h1CladeClassifier.spg?method=ShowCleanInputPage&decorator=influenza|Swine H1 Clade Classification Tool]]
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