Summary
Recent advances in modelling VDJ recombination and subsequent selection of T and B cell receptors provide useful tools to analyze and compare immune repertoires across time, individuals, and tissues. A suite of tools—IGoR Marcou et al. (2018), OLGA Sethna et al. (2019) and SONIA Sethna et al. (2020)—have been publicly released to the community that allow for the inference of generative and selection models from high-throughput sequencing data. However using these tools requires some scripting or command-line skills and familiarity with complex datasets. As a result the application of the above models has not been available to a broad audience. In this application note we fill this gap by presenting Simple OLGA & SONIA (SOS), a web-based interface where users with no coding skills can compute the generation and post-selection probabilities of their sequences, as well as generate batches of synthetic sequences. The application also functions on mobile phones.
Availability and implementation
SOS is freely available to use at sites.google.com/view/statbiophysens/sos with source code at github.com/statbiophys/sos.
The pandemic influenza AH1N1 (2009) caused an outbreak of human infection that spread to the world. Neuraminidase (NA) is an
antigenic surface glycoprotein, which is essential to the influenza infection process, and is the target of anti-flu drugs oseltamivir
and zanamivir. Currently, NA inhibitors are the pillar pharmacological strategy against seasonal and global influenza. Although
mutations observed after NA-inhibitor treatment are characterized by changes in conserved amino acids of the enzyme catalytic
site, it is possible that specific amino acid substitutions (AASs) distant from the active site such as H274Y, could confer oseltamivir
or zanamivir resistance. To better understand the molecular distribution pattern of NA AASs, we analyzed NA AASs from all
available reported pandemic AH1N1 NA sequences, including those reported from America, Africa, Asia, Europe, Oceania, and
specifically from Mexico. The molecular distributions of the AASs were obtained at the secondary structure domain level for both
the active and catalytic sites, and compared between geographic regions. Our results showed that NA AASs from America, Asia,
Europe, Oceania and Mexico followed similar molecular distribution patterns. The compiled data of this study showed that highly
conserved amino acids from the NA active site and catalytic site are indeed being affected by mutations. The reported NA AASs
follow a similar molecular distribution pattern worldwide. Although most AASs are distributed distantly from the active site, this
study shows the emergence of mutations affecting the previously conserved active and catalytic site. A significant number of
unique AASs were reported simultaneously on different continents.
Indeed new privates may emerge to imbue systems with a sharp privateness after old privates have evolved. Thus, the term new private means something more than just the reemergence of a private sector after a period of proscription (the prototypical post-Communist situation) and certainly more than just the emergence of new private institutions within existing private higher education sectors. Of course the exact lines between what qualifies as new private sectors are not always clear-cut.
Introducción: las personas en condición de discapacidad están expuestas a diferentes barreras físicas o arquitectónicas que impiden su acceso a instalaciones y su participación en actividades físicas, ejercicio y deporte. Esto les dificulta obtener los beneficios que implica su práctica y conduce a un deterioro de su calidad de vida. Materiales y métodos: revisión integradora de estudios cuantitativos a través de la metodología SPIDER, con los siguientes componentes: 1) identificación del problema, 2) búsqueda de literatura, 3) evaluación de datos y 4) análisis de estos. Resultados: se incluyeron 7 estudios en los cuales se evaluaron 429 instalaciones de acondicionamiento con 4 instrumentos de medición, por medio de la puntuación media en porcentajes identificados por el tipo de accesibilidad al entorno físico (física, al desplazamiento y a la implementación deportiva y recreativa), donde el 0 % es la accesibilidad mínima y el 100 % es la accesibilidad máxima. En ninguno de los estudios incluidos se identificó una media mayor al 60 %. La accesibilidad a la implementación deportiva y recreativa fue la más baja, con el 19.81%, y la accesibilidad física fue la más alta, con el 57.01 %. Conclusión: las instalaciones de acondicionamiento no son del todo accesibles para personas con discapacidad. Existe la gran necesidad de investigación en la accesibilidad a la implementación deportiva y recreativa en Latinoamérica y fundamentalmente en Colombia.
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