Richard Neher
While trained as a physicist, I am interested in HIV and influenza evolution and more generally in computational biology and population genetics.
Thought Leader
| #45 | Infectious Disease |
Last synced from Twitter 3h ago
Bayesian inference of reassortment networks reveals fitness benefits of reassortment in human influenza viruses
Genetic recombination processes, such as reassortment, make it complex or impossible to use standard phylogenetic and phylodynamic methods. This is due to the fact that the shared evolutionary history of individuals has to be represented by a...
Nextclade
Clade assignment, mutation calling, and quality control right inside your browser
Seroconversion of a city: Longitudinal monitoring of SARS-CoV-2 seroprevalence in New York City
By conducting a retrospective, cross-sectional analysis of SARS-CoV-2 seroprevalence in a sentinel group (enriched for SARS-CoV-2 infections) and a screening group (representative of the general population) using >5,000 plasma samples from patients...
Rhinovirus rampant or testing triumphant? - Virology Down Under
Turns out, this physical distancing thing actually works as advertised. Who would have thought that keeping the things viruses need for their survival – hosts full of cells – far Read More ...
auspice
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Richard Neher
We have updated our #SARSCoV2 @nextstrain build for Switzerland with now 537 full genomes:
nextstrain.org/groups/swiss/n…
great collaboration with @TanjaStadler_CH @SarahNadeau19 at @ETH_BSSE. Let's aim for sequencing every positive sample in Switzerland! pic.twitter.com/8UZQFx1pkv
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Population-wide evolution of SARS-CoV-2 immunity tracked by a ternary immunoassay
Serological assays can detect anti-SARS-CoV-2 (SARS2) antibodies, but their sensitivity often comes at the expense of specificity. Here we used a Ternary Automated Blood Im-munoassay (TRABI) to assess the IgG response against SARS2 in 3,815...
Year-letter Genetic Clade Naming for SARS-CoV-2 on Nextstain.org
Emma B Hodcroft, James Hadfield, Richard A Neher, Trevor Bedford Nextstrain provides clade or lineage information for a number of pathogens it already tracks, including influenza and enterovirus D68. Nextstrain also introduced informal clade...
Full genome viral sequences inform patterns of SARS-CoV-2 spread into and within Israel
Full genome sequences are increasingly used to track the geographic spread and transmission dynamics of viral pathogens. Here, with a focus on Israel, we sequenced 212 SARS-CoV-2 sequences and use them to perform a comprehensive analysis to trace...
COVID-19 Scenarios: an interactive tool to explore the spread and associated morbidity and mortality of SARS-CoV-2
The ongoing SARS-CoV-2 pandemic has caused large outbreaks around the world and every heavily affected community has experienced a substantial strain on the health care system and a high death toll. Communities therefore have to monitor the...
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Richard Neher
In addition, the app has received a facelift and we described the app in a preprint on medrxiv:
medrxiv.org/content/10.110…
Upload of custom case-count data will hopefully come in the next release.
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Past Seasons Estimated Influenza Disease Burden | CDC
These page includes information about the estimated burden of influenza from past seasons, including tables of the estimated influenza disease burden (and 95% credible interval [Cr I]) by age group.
Humoral immune response and prolonged PCR positivity in a cohort of 1343 SARS-CoV 2 patients in the New York City region
Background: Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) has caused a global pandemic. The percentage of infected individuals who seroconvert is still an open question. In addition, it has been shown in some individuals that viral...
Mortality of the resident population
A report about mortality of the resident population now online
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Richard Neher
Italy's statistics office released a report on excess mortality until March 31st. Nationwide 90k instead of expected 65k deaths. About 50% of the excess are confirmed #COVID19 cases. Big North/South differences: some provinces have >4 fold excess.
istat.it/en/archivio/24… pic.twitter.com/Kq3Ux2IDB6
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Heinsberg Study results published — Universität Bonn
The district of Heinsberg in the German state of North Rhine-Westphalia is considered a hot spot for the novel Coronavirus SARS-CoV-2. Following a carnival celebration, the district became one of the first areas in Germany where the pathogen spread...
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Richard Neher
The preprint on #SARSCoV2 seropositivity in Gangelt, Germany was released. Despite its title, it provides limited information on the infection fatality rate, but it might give some useful bounds on seropositivity (around 15%).
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Features of 16,749 hospitalised UK patients with COVID-19 using the ISARIC WHO Clinical Characterisation Protocol
Objective: To characterize the clinical features of patients with severe COVID-19 in the UK. Design: Prospective observational cohort study with rapid data gathering and near real-time analysis, using a pre-approved questionnaire adopted by the WHO....
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Richard Neher
Data-packed article on 16k hospitalized #COVID19 patients in the UK.
medrxiv.org/content/10.110… pic.twitter.com/eLHGty70wK
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Wie wir mit Studien und Statistiken zu Corona umgehen
Sonst eher Spezialdisziplin, jetzt gerade Breitensport: Wissenschaftsjournalismus. Die Grundsätze der Republik.
N.Y.C. Deaths Reach 6 Times the Normal Level, Far More Than Coronavirus Count Suggests
There have been some 20,000 more deaths than would be expected over all, and thousands more than have been captured in the city’s official coronavirus statistics.
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Richard Neher
NYC has seen 5-6 times more deaths in recent weeks than normal. The corresponds to 21k excess (likely #COVID19) deaths counted so far.
This is a terrifying 0.25% of the population and makes >20% seroprevalence entirely plausible.
nytimes.com/interactive/20… pic.twitter.com/2nSpy004D1
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