Archive for the 'SciLit' Category
Dissecting racial bias in an algorithm used to manage the health of populations | Science
April 17, 2020https://science.sciencemag.org/content/366/6464/447.full
data access issues
The Two Settings of Kind and Wicked Learning Environments
April 17, 2020There’s a paper on this topic that introduced the idea of “kind and wicked learning environments”:
https://pdfs.semanticscholar.org/5c5d/33b858eaf38f6a14b3f042202f1f44e04326.pdf
…in wicked environments it is difficult to do inference based on data. One solution seems to be to break down the problem in such a way that you can observe sub-problems in a kind environment.
The Two Settings of Kind and Wicked Learning Environments
Robin M. Hogarth1, Tomás Lejarraga2, and Emre Soyer3
Abstract
QT:{{” Inference involves two settings: In the first, information is acquired (learning); in the second, it is applied (predictions or choices). Kind learning environments involve close matches between the informational elements in the two settings and are a necessary condition for accurate inferences. Wicked learning environments involve mismatches. This conceptual framework facilitates identifying sources of inferential errors and can be used, among other things, to suggest how to target corrective procedures. For example, structuring learning environments to be kind improves probabilistic judgments. Potentially, it could also enable economic agents to exhibit maximizing behavior.
“}}
Quantifying SARS-CoV-2 transmission suggests epidemic control with digital contact tracing | Science
April 15, 2020https://science.sciencemag.org/content/early/2020/03/30/science.abb6936
Great idea for #covid19… However, digital contact tracing has serious #privacy issues that have to be considered and perhaps ameliorated.
Quantifying SARS-CoV-2 transmission suggests epidemic control with digital contact tracing
Luca Ferretti1,*, Chris Wymant1,*, Michelle Kendall1, Lele Zhao1, Anel Nurtay1, Lucie Abeler-Dörner1, Michael Parker2, David Bonsall1,3,†, Christophe Fraser1,4,†,‡
Science 31 Mar 2020: eabb6936
DOI: 10.1126/science.abb6936
Fig 2 shows the breakdown of infections into four types:
pre-symptomatic, symptomatic, environmental, and asymptomatic, and they contribute 0.9, 0.8., 0.2, and 0.1 each to the basic reproduction number of 2. To stop the spread of infections, you need to take measures to get the area under the curve to below 1. The paper then shows that when you do quarantining and contact tracing, you can’t get the reproduction number below 1. However, if you improve the speed of quarantining and contact tracing with a digital app/centralized system, then you can get it below 1.
Somatic evolution and global expansion of an ancient transmissible cancer lineage | Science
April 14, 2020Adrian Baez-Ortega1, Kevin Gori1,*, Andrea Strakova1,*, Janice L. Allen2, Karen M. Allum3, Leontine Bansse-Issa4, …. Michael R. Stratton62, Ludmil B. Alexandrov63, Iñigo Martincorena62, Elizabeth P. Murchison1,†
Science 02 Aug 2019:
Vol. 365, Issue 6452, eaau9923
DOI: 10.1126/science.aau9923
Single cell estimation from bulk data
April 12, 2020Accurate estimation of cell composition in bulk expression through robust integration of single-cell information
Brandon Jew, Marcus Alvarez, Elior Rahmani, Zong Miao, Arthur Ko, Jae Hoon Sul, Kirsi H. Pietiläinen, Päivi Pajukanta, Eran Halperin doi:
Comparing tads across samples
April 6, 2020newly published tool
TADsplimer reveals splits and mergers of topologically associating domains for epigenetic regulation of transcription
Guangyu Wang, Qingshu Meng, Bo Xia, Shuo Zhang, Jie Lv, Dongyu Zhao, Yanqiang Li, Xin Wang, Lili Zhang, John P. Cooke, Qi Cao & Kaifu Chen
https://genomebiology.biomedcentral.com/articles/10.1186/s13059-020-01992-7
The effect of travel restrictions on the spread of the 2019 novel coronavirus (COVID-19) outbreak
April 1, 2020https://science.sciencemag.org/content/early/2020/03/05/science.aba9757
The effect of travel restrictions on the spread of the 2019 novel coronavirus (COVID-19) outbreak
Matteo Chinazzi1, Jessica T. Davis1, Marco Ajelli2, Corrado
Gioannini3, Maria Litvinova3, Stefano Merler2, Ana Pastore y Piontti1, Kunpeng Mu1, Luca Rossi3, Kaiyuan Sun4, Cécile Viboud4, Xinyue Xiong1, Hongjie Yu5, M. Elizabeth Halloran6,7, Ira M. Longini Jr.8,*, Alessandro Vespignani1,3,*
https://www.nytimes.com/2020/03/13/science/coronavirus-social-networks-data.html
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