https://www.nature.com/articles/nmeth.4627
interpretable deep learning model
Archive for the 'SciLit' Category
Using deep learning to model the hierarchical structure and function of a cell | Nature Methods
September 18, 2021Expanding Access to Large-Scale Genomic Data While Promoting Privacy: A Game Theoretic Approach: The American Journal of Human Genetics
August 29, 2021https://www.cell.com/ajhg/fulltext/S0002-9297(16)30526-2
Expanding Access to Large-Scale Genomic Data While Promoting Privacy: A Game Theoretic Approach
Zhiyu Wan
Yevgeniy Vorobeychik
Weiyi Xia
Ellen Wright Clayton
Murat Kantarcioglu
Bradley Malin
Published:January 05, 2017
DOI:https://doi.org/10.1016/j.ajhg.2016.12.002
fermented foods
August 28, 2021How Fermented Foods May Alter Your Microbiome and Improve Your Health
https://www.nytimes.com/2021/08/13/well/eat/yogurt-kimchi-kombucha-microbiome.html
Foods like yogurt, kimchi, sauerkraut and kombucha increased the diversity of gut microbes and led to lower levels of inflammation.
ARTICLE| VOLUME 184, ISSUE 16, P4137-4153.E14, AUGUST 05, 2021
https://www.cell.com/cell/fulltext/S0092-8674(21)00754-6
Gut-microbiota-targeted diets modulate human immune status
Hannah C. Wastyk 7
Gabriela K. Fragiadakis 7
Dalia Perelman
Dylan Dahan
Bryan D. Merrill
Feiqiao B. Yu
Madeline Topf
Carlos G. Gonzalez
William Van Treuren
Shuo Han
Jennifer L. Robinson
Joshua E. Elias
Erica D. Sonnenburg
Christopher D. Gardner
Justin L. Sonnenburg 8
Published:July 12, 2021
Bioanalogous Properties of Blockchains
August 14, 2021https://link.springer.com/article/10.1007/s11084-021-09608-1
Emergent Bioanalogous Properties of Blockchain-based Distributed Systems
Oleg Abramov, Kirstin L. Bebell & Stephen J. Mojzsis
Origins of Life and Evolution of Biospheres (2021)
Structure-based design of prefusion-stabilized SARS-CoV-2 spikes | Science
July 17, 2021https://science.sciencemag.org/content/369/6510/1501
BY CHING-LIN HSIEH, JORY A. GOLDSMITH, JEFFREY M. SCHAUB, ANDREA M. DIVENERE, HUNG-CHE KUO, KAMYAB JAVANMARDI, KEVIN C. LE, DANIEL WRAPP, ALISON G. LEE, YUTONG LIU, CHIA-WEI CHOU, PATRICK O. BYRNE, CHRISTY K. HJORTH, NICOLE V. JOHNSON, JOHN LUDES-MEYERS, ANNALEE W. NGUYEN, JUYEON PARK, NIANSHUANG WANG, DZIFA AMENGOR, JASON J. LAVINDER, GREGORY C. IPPOLITO, JENNIFER A. MAYNARD, ILYA J. FINKELSTEIN, JASON S. MCLELLAN
SCIENCE18 SEP 2020 : 1501-1505
The design of stabilizing mutations in the SARS-CoV-2 spike protein allows for high-yield production of a critical vaccine antigen.
In particular,
stabilization is very important for the Moderna vaccine design.
This work builds on :
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Science. 2013 Nov 1;342(6158):592-8. doi: 10.1126/science.1243283.
Structure-based design of a fusion glycoprotein vaccine for
respiratory syncytial virus
Jason S McLellan 1, Man Chen, M Gordon Joyce, Mallika Sastry, Guillaume B E Stewart-Jones, Yongping Yang, Baoshan Zhang, Lei Chen, Sanjay Srivatsan, Anqi Zheng, Tongqing Zhou, Kevin W Graepel, Azad Kumar, Syed Moin, Jeffrey C Boyington, Gwo-Yu Chuang, Cinque Soto, Ulrich Baxa, Arjen Q Bakker, Hergen Spits, Tim Beaumont, Zizheng Zheng, Ningshao Xia, Sung-Youl Ko, John-Paul Todd, Srinivas Rao, Barney S Graham, Peter D Kwong
Affiliations expand
PMID: 24179220 PMCID: PMC4461862 DOI: 10.1126/science.1243283 https://pubmed.ncbi.nlm.nih.gov/24179220/
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metabrain QTL
July 17, 2021Brain expression quantitative trait locus and network analysis reveals downstream effects and putative drivers for brain-related diseases by N. de Klein et al., bioRxiv, 2021.
Reconciling modern machine-learning practice and the classical bias–variance trade-off
May 31, 2021QT:{{“U-shaped bias–variance trade-off curve has shaped our view of model selection and directed applications of learning algorithms in practice. “}}
Nice discussion of the limitations of the bias-variance tradeoff for #DeepLearning
https://www.pnas.org/content/116/32/15849
linkstream2 microblog 