Sars-Cov-2, the virus that causes Covid-19 is easily the most defining feature of 2020. In the last 8 months the world has changed radically and there have been plenty of fumbles as countries struggle to deal with the chaos. One of the most important issues has been testing for the virus. In this video, I aim to demystify how that testing actually works down to the chemical level and show exactly how it’s done. We’ll be covering the viruses anatomy, as well as three types of test: PCR, LAMP and Antibody.
Earlier videos:
PCR –
Gel Electrophoresis –
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Try tab for a cause today:
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00:00 – Introduction
04:00 – Virus Anatomy Overview
09:45 – PCR Overview
13:30 – Performing PCR
20:37 – Testing at Scale and Robots (Opentrons)
23:30 – LAMP overview
27:50 – Performing LAMP (Biofoundry)
30:30 – Pros/Cons of Genetic Tests
31:30 – Antibody Overview
32:50 – Performing Antibody Test
34:00 – How Antibody Tests Work
38:00 – Summary
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More resources, and citations:
Kurzgesagt Covid Overview:
A great writeup about the virus’s anatomy:
JOGL:
Biofoundry:
Student Outbreak:
Student Outbreak 2:
Strokes In heathy people:
Organ Damage:
Aptamer Tests:
Variations in Test Accuracy:
Faulty probes:
Contaminated Swabs:
False positives FDA:
E protein structure:
MERS fact sheet:
Incidence of thromboembolism:
Stroke study:
Stroke 2:
Cardiac infection:
Asymptomatic infection rate:
Asymptomatic infection study:
Organ damage in asymptomatic pateints:
Wisconsin LAMP trial:
Healthy people stroke:
LAMP Assay design:
Mutation geneology:
Cardiac outcomes:
False negative rate:
ACE2 distribution:
Long Haulers article:
Long haulers Video:
Complete protein models:
Antibody test:
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Right after this video went up, one of my awesome friends Sebastian designed new primers which are much much better than the CDC or other primers used in this video. Here are their sequences for those interested and if you’d like, check out Sebastian’s work here:
SpikeF – AGGAATTTTTATGAACCACAAATCA
MembraneR – CGGTGATCCAATTTATTCTGTAAAC
NucleoF – AAATGAAAGATCTCAGTCCAAGATG
NucleoR – ACAGTTTGCTGTTTCTTCTGTCTCT
Original Primers:
N1F – GACCCCAAAATCAGCGAAAT
N2F – ttacaaacattggccgcaaa
N3F – GGGAGCCTTGAATACACCAAAA
N2R – GCGCGACATTCCGAAGAA
N2-LF – gggggcaaattgtgcaatttg
N2-B3 – gacttgatctttgaaatttggatct
N2-F3 – accaggaactaatcagacaag
