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Nabavi, N., & Dobson, J. (2021, April 21). Covid-19 new variants—known unknowns. The BMJ Opinion. https://blogs.bmj.com/bmj/2021/04/21/covid-19-new-variants-known-unknowns/?utm_campaign=shareaholic&utm_medium=twitter&utm_source=socialnetwork

More transmissible and evasive SARS-CoV-2 variant growing rapidly in Brazil | Imperial News | Imperial College London. (n.d.). Imperial News. Retrieved 18 April 2021, from https://www.imperial.ac.uk/news/216053/more-transmissible-evasive-sarscov2-variant-growing/

de Oliveira T, Lutucuta S, Nkengasong J, Morais J, Paixao JP, Neto Z, Afonso P, Miranda J, David K, Ingles L, Amilton P A P R R C, Freitas H R, Mufinda F, Tessema K S , Tegally H, San E J, Wilkinson E, Giandhari J, Pillay S, Giovanetti M, Naidoo Y, Katzourakis A, Ghafari M, Singh L, Tshiabuila D, Martin D, Lessells R. (2021) A Novel Variant of Interest of SARS-CoV-2 with Multiple Spike Mutations Detected through Travel Surveillance in Africa. medRxiv. https://www.krisp.org.za/publications.php?pubid=330. Accessed 26 March 2021.

Volz, E., Mishra, S., Chand, M. et al. Assessing transmissibility of SARS-CoV-2 lineage B.1.1.7 in England. Nature (2021). https://doi.org/10.1038/s41586-021-03470-x

Virological. ‘Recombinant SARS-CoV-2 Genomes Involving Lineage B.1.1.7 in the UK - SARS-CoV-2 Coronavirus / SARS-CoV-2 Molecular Evolution’, 17 March 2021. https://virological.org/t/recombinant-sars-cov-2-genomes-involving-lineage-b-1-1-7-in-the-uk/658.

Miro Weinberger. (2020, December 3). Our 1st Covid-19 wastewater tests since Thanksgiving just came in—Virus levels are up significantly citywide. I hope that all of #BTV will look at this graph and see what I see: A call to action, to stop gathering with other households, and to get tested ASAP if you have https://t.co/8nxTwOOcFA [Tweet]. @MiroBTV. https://twitter.com/MiroBTV/status/1334613511692017664

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Efficiency sounds too exciting to not try!

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LucyinLockdown: Viruses, Pandemics and Lessons Learnt with Dr Jane Greatorex—YouTube. (2020, June 18). https://youtu.be/5U1go5hyen8

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How scientists know COVID-19 is way deadlier than the flu. (2020, July 2). Science. https://www.nationalgeographic.com/science/2020/07/coronavirus-deadlier-than-many-believed-infection-fatality-rate-cvd/

Behrmann, Ole, and Martin Spiegel. ‘COVID-19: From Rapid Genome Sequencing to Fast Decisions’. The Lancet Infectious Diseases 0, no. 0 (14 July 2020). https://doi.org/10.1016/S1473-3099(20)30580-6.

Balloux, F. (2020, May 22) A thread written by @BallouxFrancois. Threader. https://threader.app/thread/1263745877702737920

Andersen, K.G., Rambaut, A., Lipkin, W.I. et al. The proximal origin of SARS-CoV-2. Nat Med 26, 450–452 (2020). https://doi.org/10.1038/s41591-020-0820-9

More on Nala in the Vet Candy blog https://www.myvetcandy.com/clinicalupdblog/2020/4/2/first-complete-german-shepherd-dna-offers-new-tool-to-fight-disease

Coverage in GenomeWeb https://www.genomeweb.com/scan/german-shepherds-own-sequence#.XoeoXG4o-qA

discussion of tools; recently revived

re Venter study in PNAS, claiming to be able to identify people based on whole genome data

mentioned tools are focused on (capture) Hi-C data

Napoleon oak genome sequencing project web site: example of public engagement in tree genomics

data (not yet live) associated with https://hyp.is/4DerrmIaEeehDPNBqsRcxQ/www.biorxiv.org/content/biorxiv/early/2017/06/13/149203.full.pdf

NIG Mouse Genome Database: JF1 and MSM SNPs; effective genome browser

restart may be insufficient; had to modify prefs.properties in ~/igv (removing old cached genome values) before i could see my genomes

This paper was studied in a case study that lead to some corrections. See the paper here: http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0127612

Poorly studied in some part to its very high degree of heterozygosity. You can get some more insight here, where it was nominated as a "top ten genome" http://www.homolog.us/blogs/blog/2015/05/08/top-ten-genomes-ix-pacific-oyster/

See Nature doi:10.1038/nature11236 for more on how LFR works: http://www.nature.com/nature/journal/v487/n7406/full/nature11236.html