Archive for the 'SciLit' Category

Deciphering eukaryotic gene-regulatory logic with 100 million random promoters

November 8, 2022

interesting – is there a dataset ?

https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6954276/

A comprehensive SARS-CoV-2–human protein–protein interactome reveals COVID-19 pathobiology and potential hos t therapeutic targets | Nature Biotechnology

October 16, 2022

https://www.nature.com/articles/s41587-022-01474-0

A comprehensive SARS-CoV-2–human protein–protein interactome reveals COVID-19 pathobiology and potential host therapeutic targets Yadi Zhou, Yuan Liu, Shagun Gupta, Mauricio I. Paramo, Yuan Hou, Chengsheng Mao, Yuan Luo, Julius Judd, Shayne Wierbowski, Marta Bertolotti, Mriganka Nerkar, Lara Jehi, Nir Drayman, Vlad Nicolaescu, Haley Gula, Savaş Tay, Glenn Randall, Peihui Wang, John T. Lis, Cédric Feschotte, Serpil C. Erzurum, Feixiong Cheng & Haiyuan Yu

Deep learning guided optimization of human antibody against SARS-CoV-2 variants with broad neutralization

October 13, 2022

https://www.pnas.org/doi/10.1073/pnas.2122954119

Characteristics of Electric Scooter and Bicycle Injuries After Introduction of Electric Scooter Rentals in Oslo, Norway | Public Health | JAMA Network Open | JAMA Network

September 30, 2022

Emphasizes the dangers of unrestricted scooter use for pedestrians & the value of speed limits….
https://jamanetwork.com/journals/jamanetworkopen/fullarticle/2795144

Epigenetic inheritance at the agouti locus in the mouse | Nature Genetics

September 24, 2022

https://www.nature.com/articles/ng1199_314

ENCODE Pilot Participants

September 24, 2022

found this:

https://authors.library.caltech.edu/74915/2/Feingold.SOM.DC1.pdf

It’s from this paper:

Feingold, E. A. and Pachter, L. (2004) The ENCODE (ENCyclopedia Of DNA Elements) Project. Science, 306 (5696). pp. 636-640. ISSN 0036-8075. doi:10.1126/science.1105136.
https://resolver.caltech.edu/CaltechAUTHORS:20170308-133717579

Does coffee increase cancer risk? | Interviews | Naked Scientists

September 16, 2022

Liked the discussion of the paper by @stevesphd on Coffee Consumption
& Cancer Risk (https://clinicalnutritionjournal.com/article/S0261-5614(22)00313-2/fulltext). However, I was surprised that the elevation of stomach acid & GERD from caffeine was not mentioned as a potential reason for the association with esophageal cancer.

https://www.thenakedscientists.com/podcasts/naked-scientists-podcast/covid-vaccines-and-coffee-cups-hot-water

https://twitter.com/stevesphd

https://twitter.com/NakedScientists/status/1566387990330765312

ORIGINAL ARTICLE| VOLUME 41, ISSUE 10, P2113-2123, OCTOBER 01, 2022

Coffee consumption and cancer risk: a Mendelian randomisation study

Paul Carter
Shuai Yuan
Siddhartha Kar
Amy M. Mason
Stephen Burgess
Susanna C. Larsson

Published: August 24, 2022

DOI:https://doi.org/10.1016/j.clnu.2022.08.019

DNA methylation clocks for dogs and humans | PNAS

September 4, 2022

https://www.pnas.org/doi/10.1073/pnas.2120887119

==
Nice paper. Curious: was methylation able to predict weight accurately?

Look-alike humans identified by facial recognition algorithms show genetic similarities: Cell Reports

August 28, 2022

https://www.cell.com/cell-reports/fulltext/S2211-1247(22)01075-0

Might be interesting to compare to a study of how dis-similar genetically identical twins can look

Gencode Transcriptome variation in human tissues revealed by long-read sequencing | Nature

August 8, 2022

https://www.nature.com/articles/s41586-022-05035-y