Gene Updater: a web tool that autocorrects and updates for Excel misidentified gene names (Scientific Reports)

Scientific Reports: Gene Updater: a web tool that autocorrects and updates for Excel misidentified gene names. “…we developed a web tool with Streamlit that can convert old gene names and dates back into the new gene names recommended by [HUGO Gene Nomenclature Committee]. The web app is named Gene Updater, which is open source…”

Tohoku University: A New Database Visualizing Fish Biodiversity Opens to the Public

Tohoku University: A New Database Visualizing Fish Biodiversity Opens to the Public. “Tohoku University professor Michio Kondoh has spearheaded the launch of ANEMONE DB – a new public database of fish biodiversity based on environmental DNA (eDNA)…. Unlike traditional biological surveys, where fish must be collected to be observed, eDNA surveys are straightforward, inexpensive and can detect rare or nearly extinct species. A simple sample of water taken from rivers, seas or oceans picks up DNA left behind by organisms and reveals crucial information, like population sizes and distribution.”

EurekAlert: Researchers reconstruct the genome of centuries-old E. coli using fragments extracted from an Italian mummy

EurekAlert: Researchers reconstruct the genome of centuries-old E. coli using fragments extracted from an Italian mummy. “An international team led by researchers at McMaster University, working in collaboration with the University of Paris Cité, has identified and reconstructed the first ancient genome of E. coli, using fragments extracted from the gallstone of a 16th century mummy.”

BBC: Huge plan to map the DNA of all life in British Isles

BBC: Huge plan to map the DNA of all life in British Isles. “Seventy thousand species. That’s the best guess for the tally of life, including plants, animals and fungi, found in Britain and Ireland. And it’s the target of one of biology’s most ambitious projects – scientists want to map the DNA of every single one of these organisms.”

MIT News: New CRISPR-based map ties every human gene to its function

MIT News: New CRISPR-based map ties every human gene to its function. “The Human Genome Project was an ambitious initiative to sequence every piece of human DNA. The project drew together collaborators from research institutions around the world, including MIT’s Whitehead Institute for Biomedical Research, and was finally completed in 2003. Now, over two decades later, MIT Professor Jonathan Weissman and colleagues have gone beyond the sequence to present the first comprehensive functional map of genes that are expressed in human cells.”

France24: Scientists produce chimp genetic map to combat trafficking

France24: Scientists produce chimp genetic map to combat trafficking. “Scientists have produced the first genetic map of chimpanzees in the wild, offering a detailed reconstruction of the endangered species’ past migrations, and a new tool to combat illegal trafficking. The genomic catalogue, which includes 828 individuals from across their vast African range, can now be used to link kidnapped chimpanzees — or their meat and body parts — to their place of origin within 100 kilometers.”

Associated Press: Scientists finally finish decoding entire human genome

Associated Press: Scientists finally finish decoding entire human genome. “An international team described the first-ever sequencing of a complete human genome – the set of instructions to build and sustain a human being – in research published Thursday in the journal Science. The previous effort, celebrated across the world, was incomplete because DNA sequencing technologies of the day weren’t able to read certain parts of it. Even after updates, it was missing about 8% of the genome.”

UVA Health: A New Tool to Make Genomic Research Reflect the World’s Diversity

UVA Health: A New Tool to Make Genomic Research Reflect the World’s Diversity. “The new tool will allow researchers to compare natural variations in our genes against genome sequences collected from a diverse group of people. Until now, scientists have compared these variations with a ‘reference genome’ primarily sequenced from a few volunteers (~70% from one person) living near laboratories involved in the Human Genome Project almost 20 years ago. This represented genomes from a small number of people in a small number of countries.”

University of Oxford: University of Oxford researchers create largest ever human family tree

University of Oxford: University of Oxford researchers create largest ever human family tree. “Researchers from the University of Oxford’s Big Data Institute have taken a major step towards mapping the entirety of genetic relationships among humans: a single genealogy that traces the ancestry of all of us.”

Newswise: COVID-19 genetic risk variant protects against HIV

Newswise: COVID-19 genetic risk variant protects against HIV. “Some people become seriously ill when infected with SARS-CoV-2 while others have only mild symptoms or no symptoms at all. In addition to risk factors such as advanced age and chronic diseases, like diabetes, our genetic heritage also contributes to our individual COVID-19 severity risk.”

De-extinction puzzle: how decoding numbat DNA could help resurrect the Tasmanian tiger (The Guardian)

The Guardian: De-extinction puzzle: how decoding numbat DNA could help resurrect the Tasmanian tiger. “Researchers at DNA Zoo Australia have mapped the genome of the numbat for the first time. The milestone is notable in its own right, motivated by a desire to improve conservation efforts for the endangered termite-eating marsupial, which is now found only in small pockets of Western Australia. But in announcing the development last week, scientists also had a more extraordinary suggestion: that the numbat’s DNA could be used as a blueprint to bring its extinct cousin, the thylacine, back from the dead.”

University of Nebraska-Lincoln: Husker researcher building database to help farmers breed hardier sheep

University of Nebraska-Lincoln: Husker researcher building database to help farmers breed hardier sheep. “The project, funded by a $650,000 grant from the U.S. Department of Agriculture’s National Institute of Food and Agriculture, will develop a database of traits for robustness and climatic resilience. Researchers will assemble current and additional genetic data, as well as performance records, for several major U.S. sheep breeds: Katahdin, Polypay, Rambouillet and Suffolk.”

Augusta University: Small group of genetic variants found in extremely ill patients with COVID may help explain big differences in how sick people get

Augusta University: Small group of genetic variants found in extremely ill patients with COVID may help explain big differences in how sick people get. “The search to better understand the tremendous range of responses to infection with the COVID-19 virus — from symptom free to critically ill — has uncovered in some of the sickest patients a handful of rare structural gene variants involved in body processes, like inflammation, which the virus needs to be successful.”

UMass Chan Medical School: Elinor Karlsson explains global effort to map genomes of all plants, animals, fungi and more

UMass Chan Medical School: Elinor Karlsson explains global effort to map genomes of all plants, animals, fungi and more. “Elinor Karlsson, PhD, offers insights into various applications of modern comparative genomics in a perspective piece published by the Proceedings of the National Academies of Science. The paper is part of a special feature in PNAS on the Earth BioGenome Project, a global effort to map the genomes of all plants, animals, fungi and other microbial life on Earth. The collection of 10 papers marks a new phase for the Earth BioGenome Project as it moves from pilot projects to full scale production sequencing.”

Vietnam: Big data firm launches nation’s biggest gene database (The Japan News)

The Japan News: Vietnam: Big data firm launches nation’s biggest gene database . “The genomes of over 1,000 people have been analyzed to form a gene database that will serve medical research and practices for the first time in Vietnam. The project by VinBigData sets out to help with the diagnosis and treatment of genetic diseases, and provide data for the application of precision medicine in the country. It also aims to establish a gene database for the Vietnamese, according to Dr. Vu Van Ha, VinBigData scientific director.”