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Genomic epidemiology of novel coronavirus

A phylogeny shows evolutionary relationships of hCoV-19 (or SARS-CoV-2) viruses from the ongoing novel coronavirus COVID-19 pandemic

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Lisa Scheifele onto Coronavirus

How coronavirus tests work

Video from Nova on how the tests work.

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Lisa Scheifele onto Coronavirus

Assignment for Coronavirus dianostic kit design

The homework assigned through the files follows a presentation on qPCR. The goal of the assignment is for the students to get primer pairs that do not bind to human DNA or the SARS Coronavirus that caused the 2003 epidemic. It is easy to assess through Primer-Blast or the UCSC in-silico PCR tool (links provided above).

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Nik Tsotakos onto Coronavirus

In-classroom activity for genome alignment of different strains of viruses in the Coronaviridae family

This is an activity that took place in an Advanced Genetics class that meets in a computer lab. The activity aims to construct a phylogenetic tree of different Coronaviruses, including a few strains of SARS-CoV2. The sequences were pulled from the Virus Pathogen Database and Genbank. Since the activity initially took place in mid-February, there are a lot more available sequences in the databases, while at least one of the sequences included has been retracted. The homework in the end is another application of the skillset the students acquired through the activity, and can be modified based on the course's objectives.

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Nik Tsotakos onto Coronavirus

Synthetic Reconstruction of Zoonotic and Early Human Severe Acute Respiratory Syndrome Coronavirus Isolates That Produce Fatal Disease in Aged Mice

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Lisa Scheifele onto Coronavirus

Standard and AEGIS nicking molecular beacons detect amplicons fromthe Middle East respiratory syndrome coronavirus

Use of synthetic biology to improve the signal-to-noise ratio in coronavirus diagnostics

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Lisa Scheifele onto Coronavirus

Should scientists infect healthy people with the coronavirus to test vaccines?

Perspectives article discussing important ethical dilemmas in developing coronavirus vaccines.

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Lisa Scheifele onto Coronavirus

Rapid reconstruction of SARS-CoV-2 using a synthetic genomics platform

Use of synthetic genomics to clone and synthesize the Covid-19 genome. Preprint from Biorxiv.

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Lisa Scheifele onto Coronavirus

Race to find COVID-19 treatments accelerates

Review article on different potential treatment strategies and where in the viral life cycle intervention is possible.

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Lisa Scheifele onto Coronavirus

Mechanisms of Zoonotic Severe Acute Respiratory Syndrome Coronavirus Host Range Expansion in Human Airway Epithelium

Using synthetic biology, the authors engineered the spike protein (S) from an animal strain and used in vitro evolution to understand how it could adapt to replicate well in human cells.

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Lisa Scheifele onto Coronavirus

Identifying SARS-CoV-2 related coronaviruses in Malayan pangolins

One of the first papers sequencing Covid-19 viruses and identifying its potential animal source

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Lisa Scheifele onto Coronavirus

Identification of the Mechanisms Causing Reversion to Virulence in an Attenuated SARS-CoV for the Design of a Genetically Stable Vaccine

Paper investigating the development of safe and effective vaccines against SARS coronavirus

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Lisa Scheifele onto Coronavirus

Simulator for the spread of coronavirus

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Lisa Scheifele onto Coronavirus

What This Chart Actually Means for COVID-19

A video from PBS's It's Okay to Be Smart explaining the spread of coronaviruses, social distancing, and what it means to "flatten the curve"

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Lisa Scheifele onto Coronavirus

Exponential growth and epidemics

Highly useful explainer video on exponential growth and its contribution to epidemics

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Lisa Scheifele onto Coronavirus

Dr. Anthony Fauci on the Daily Show

Accurate answers to common questions about coronavirus

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Lisa Scheifele onto Coronavirus

Detecting respiratory viral RNA using expanded genetic alphabets and self-avoiding DNA

Improved methods to detect multiple respiratory viruses with one very specific assay

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Lisa Scheifele onto Coronavirus