https://www.pnas.org/doi/10.1073/pnas.2313581121
Kogan, V., Molodtsov, I., Fleyshman, D. I., Leontieva, O. V., Koman, I. E., & Gudkov, A. V. (2024). The reconstruction of evolutionary dynamics of processed pseudogenes indicates deep silencing of “retrobiome” in naked mole rat. Proceedings of the National Academy of Sciences, 121(45). https://doi.org/10.1073/pnas.2313581121
from podcast
QT:{{”
….Okay. So when you got measurements from this big group
of people, you end up
with kind of a range of water turnover and it varies by person and location. So how does this range
that you measured in this diverse group of people? How does it stack up with eight, eight ounce
glasses a day, which is like two liters of water a day, that recommendation we discussed?
Most people are not going to need to drink, eight
glasses of water a day, two liters of
water a day. If you measure how much water flows through your body, how much water comes in
and goes out every day, there’s a lot of variation, but it’s something like three to four liters a day
total. And that includes not just the water that you drink, but that includes the water that’s in the
food that you eat.
“}}
1. Mixed Models: Theory and Applications with R. You can find their book’s website at https://www.eugened.org/mixed-models, and the PDF version of the book can be found
https://www.isical.ac.in/~arnabc/linmod/demidenko.pdf. This book is written by Prof. Eugene Demidenko, who works at Dartmouth College in the Department of Biomedical Science. I think this book emphasizes the application a lot.
2. Generalized, Linear, and Mixed Models. You can find this book from the https://onlinelibrary.wiley.com/doi/book/10.1002/0471722073; This book is written by Prof. Shayle R. Searle (a leader in the field of linear and mixed models in statistics who worked at Cornell) and Prof. Charles E. McCulloch (a professor of Biostatistics at UCSF). This book emphasizes the theoretical part of the model.
3. I also found a
https://biol609.github.io/Readings/McNeish_Kelley_PsychMethods_2019.pdf that summarizes and compares Fixed and Mixed-effect models.
McNeish, D., & Kelley, K. (2018). Fixed effects models versus mixed effects models for clustered data: Reviewing the approaches, disentangling the differences, and making recommendations.
Psychological Methods, 24(1), 20–35.
https://doi.org/10.1037/met0000182
quite relevant to plight & deconvolution
QT:{{”
Over the last decade, wildlife researchers have refined techniques for recovering environmental DNA, or eDNA — trace amounts of genetic material that all living things leave behind….The eDNA technology is also used in wastewater surveillance systems to monitor Covid and other pathogens.
But all along, scientists using eDNA were quietly recovering gobs and gobs of human DNA. To them, it’s pollution, a sort of human genomic bycatch muddying their data. But what if someone set out to collect human eDNA on purpose?
New DNA collecting techniques are “like catnip” for law enforcement officials, says Erin Murphy, a law professor at the New York University School of Law who specializes in the use of new
technologies in the criminal legal system. The police have been quick to embrace unproven tools, like using DNA to create probability-based sketches of a suspect.
…
As a proof of concept in one of their experiments, the researchers scooped up a soda-can-size sample of water from a creek in St. Augustine, Fla. They then fed the genetic material from the sample through a nanopore sequencer, which allows researchers to read longer stretches of DNA. The one they used cost about $1000, is the size of a cigarette lighter and plugs into a laptop like a flash drive.
From the samples, the team recovered much more legible human DNA than they had anticipated. And as knowledge expands about human genetics, analysis of even limited samples can reveal a wealth of information. …
That highlights the possibility that law enforcement officials could use eDNA collected at crime scenes to incriminate people, even though wildlife ecologists who developed the techniques say the science isn’t mature enough for such purposes. Scientists have yet to pin down the fundamentals of eDNA, like how it travels through air or water or how it degrades over time. And nanopore sequencing — the technology that allowed Dr. Duffy’s team to find longer and more informative DNA fragments — still has a much higher error rate than older
technologies, meaning an unusual genetic signature that seems like a promising lead could be a red herring.
….
“There’s an imbalance in almost all systems of the world between what law enforcement is allowed to do, versus publicly funded research, versus private companies,” said Barbara Prainsack, a professor at the University of Vienna who studies the regulation of DNA technology in medicine and forensics.
“}}
https://www.nytimes.com/2023/05/15/science/environmental-dna-ethics-privacy.html
Here is a guide that provides information to help you choose the best track to apply:
https://medicine.yale.edu/bbs/tracks/BBS%20application%20guide_483255_284_1738_v2.pdf
Great description of the lengths you have to go to really protect web #privacy
https://www.shellandbones.com/story
Source: Shell & Bones Oyster Bar and Grill
— Gallery — — Shell & Bones Oyster Bar and Grill
linkstream2 microblog 