UCSC signed a $ 3M agreement with the state to set up a public health data platform for pathogen genes

UC Santa Cruz is drawing on its expertise in genetics and data sharing to guide the new, state-sponsored public health system. In an agreement signed on August 18, 2021, UCSC will develop tools designed to benefit California residents by sharing genomic SARM-CoV-2 data with public health information.

This method will allow public health professionals to use genetic data to identify how a protein develops, and then where and when its differences spread in an outbreak. Promises are made to help the state in the spread of proteins such as SARS-CoV-2, the protein that causes COVID-19, by speeding up and changing public health policies and practices to control the spread of infection.

UCSC’s ability in bioinformatics – a collaborative space that develops methods and software for understanding complex environments – will press to activate the pathogen’s genetic system, a key that is set to become the cornerstone for ensuring future outbreaks of cancer.

A pathogen genetic system that analyzes the genetic codes of dangerous proteins, bacteria, or other microbes in our area provides public health professionals with powerful tools to help prevent outbreaks. The field of genetic pathogen has risen to an unprecedented level during the pandemic as public health experts struggle to translate SARS-CoV-2 DNA data into public policy.

“We expect the impact of this project to be extended beyond the current public health crisis,” explained UCSC Assistant Biomolecular Technician Russ Corbett-Detig, who is a co-researcher for the UCSC contract.

UCSC has long been a leader in genetics, and has demonstrated a strong general commitment to data sharing that returned to its involvement in Project Genome Human twenty years ago, when graduate student Jim Kent and his counselor David Haussler assembled and published a human essay. genome to internet for free. Kent and fellow UCSC researchers continue to create the UCSC Genome Browser, a free search engine that allows researchers to delve into details of genetic code.

The navigator has become an important part of molecular research. With each new global outbreak of pandemics, the growing part of Genome Browser has become dedicated to the genes of pandemics.

Haussler, who now serves as the Director of Science at the UC Santa Cruz Genomics Institute, said: “In the fast-paced, global epidemic situation, we have accessed and used our ability to train geneticists to help with soak.

When COVID-19 arrived in Santa Cruz in early 2020, a team of UCSC experts transformed the test site into a COVID-19 test site and made their first test hell to help with local testing and sequential activities. Under the test has become a precursor to the UCSC process to help the larger Santa Cruz community stay ahead of the pandemic and keep it at bay.

The main components of the altar that UCSC will send to the state are: the test lab, which has now shown its ability to deliver fast, accurate test results; a growing group dedicated to the alignment of positive cases; The browser itself; and a new navigation device designed to increase its capacity to visualize the string of lab data generated by the lab. Proponents of the altar are UCSC faculty members David Haussler, Russell Corbett-Detig, and Professor of Ecology and Biology A. Marm Kilpatrick.

Corbett-Detig is particularly excited about a browser device that allows pandemics, using their own secure computer, to view public health information in the face covered on the evolution-or phylogenetic-tree that describes how genes are passed from one person to another.

“One of the things that a phylogenetic tree can do is to create a link between cases that do not appear in the link,” Corbett-Detig said. “That tells us something about the possible source of the attack and therefore who to follow first for tracing.”

Haussler emphasizes that to do this, the UCSC team will not use patient information, only protein genes. But the program will allow public health experts to use protein genes to track who is carrying the protein and so on. With the help of Corbett-Detig analysis, health professionals in Marin County have recently been able to track a transfer from a teacher to more than half of their class, as reported in New York Times (“How Delta Variant Enters the Primary Library”) and many other news outlets.

While ensuring that its tools are effective and safe, the team will unveil the final product designed to help keep California shepherds out of the current pandemic.

Corbett-Detig notes that the shelf life of the program will extend beyond COVID because it can prepare us for future pandemics, and could help public health efforts on well-known diseases such as tuberculosis.

“The software can work on just about any pathogen,” he said.

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