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Computational systems biologists at ORNL worked with the U.S. Department of Veterans Affairs and other institutions to identify 139 locations across the human genome tied to risk factors for varicose veins, marking a first step in the development of new treatments. Credit: Andy Sproles/ORNL, U.S. Dept. of Energy

Computational study finds genetic links, therapy targets for varicose veins

As part of a multi-institutional research project, scientists at ORNL leveraged their computational systems biology expertise and the largest, most diverse set of health data to date to explore the genetic basis of varicose veins.

The Center for Bioenergy Innovation at Oak Ridge National Laboratory has added three new members to its board of directors, from left: Deborah Crawford, vice chancellor for research at the University of Tennessee, Knoxville; Susan Hubbard, deputy for science and technology at ORNL; and Maureen McCann, director of the Biosciences Center at the National Renewable Energy Laboratory. Credit: UT Knoxville, ORNL and NREL.

Center for Bioenergy Innovation adds three new board members

The Department of Energy’s Center for Bioenergy Innovation, led by Oak Ridge National Laboratory, recently added three new members to its board of directors: Deborah Crawford of the University of Tennessee, Knoxville; Susan Hubbard of ORNL; and Maureen McCann of the National Renewable Energy Laboratory.

Hybrid poplar trees such as these shown in an ORNL greenhouse were engineered with the REVEILLE1 gene to delay dormancy and produce more biomass. The research was led by the Center for Bioenergy Innovation at ORNL with the Joint Genome Institute, Brookhaven National Laboratory, the HudsonAlpha Institute for Biotechnology, the University of Connecticut and other partners. Credit: Genevieve Martin/ORNL, U.S. Dept. of Energy

Agave gene delays poplar dormancy

A team of scientists led by ORNL discovered the gene in agave that governs when the plant goes dormant and used it to create poplar trees that nearly doubled in size, increasing biomass yield for biofuels production

Erica Prates is using her skills as a computational systems biologist to link the smallest molecules to their impact on large ecosystems. Credit: Carlos Jones/ORNL, U.S. Dept. of Energy

Erica Prates: Bridging science across scales with computational biology

Erica Prates has found a way to help speed the pursuit of healthier ecosystems by linking the function of the smallest molecules to their effects on large-scale processes, leveraging a combination of science, math and computing.

Molecular dynamics simulations of the Fs-peptide revealed the presence of at least eight distinct intermediate stages during the process of protein folding. The image depicts a fully folded helix (1), various transitional forms (2–8), and one misfolded state (9). By studying these protein folding pathways, scientists hope to identify underlying factors that affect human health.

Modified deep-learning algorithms unveil features of shape-shifting proteins

Using artificial neural networks designed to emulate the inner workings of the human brain, deep-learning algorithms deftly peruse and analyze large quantities of data. Applying this technique to science problems can help unearth historically elusive solutions.

Illustration of the intricate organization of the PKA structure, wherein different parts of the protein are connected through elaborate hydrogen bonding networks (dashed yellow lines), glued together by the hydrophobic assemblies (light blue and orange volumes)—all working together to build the functional active site. Insert shows protonation of the transferred phosphoryl group (cyan mesh) and its many interactions with water and the active site amino acid residues. Credit: Jill Hemman/ORNL

Neutrons paint atomic portrait of prototypical cell signaling enzyme

OAK RIDGE, Tenn., March 20, 2019—Direct observations of the structure and catalytic mechanism of a prototypical kinase enzyme—protein kinase A or PKA—will provide researchers and drug developers with significantly enhanced abilities to understand and treat fatal diseases and neurological disorders such as cancer, diabetes, and cystic fibrosis.

Neutron scattering allowed direct observation of how aurein induces lateral segregation in the bacteria membranes, which creates instability in the membrane structure. This instability causes the membranes to fail, making harmful bacteria less effective.

Neutrons—Fighting superbugs

As the rise of antibiotic-resistant bacteria known as superbugs threatens public health, Oak Ridge National Laboratory’s Shuo Qian and Veerendra Sharma from the Bhaba Atomic Research Centre in India are using neutron scattering to study how an antibacterial peptide interacts with and fights harmful bacteria.

(From left) ORNL Associate Laboratory Director for Computing and Computational Sciences Jeff Nichols; ORNL Health Data Sciences Institute Director Gina Tourassi; DOE Deputy Under Secretary for Science Thomas Cubbage; ORNL Task Lead for Biostatistics Blair Christian; and ORNL Research Scientist Ioana Danciu were invited to the White House to showcase an ORNL-developed digital tool aimed at better matching cancer patients with clinical trials.

New ORNL AI tool revolutionizes process for matching cancer patients with clinical trials

OAK RIDGE, Tenn., March 4, 2019—A team of researchers from the Department of Energy’s Oak Ridge National Laboratory Health Data Sciences Institute have harnessed the power of artificial intelligence to better match cancer patients with clinical trials.

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Tree of life: Poplar studies yield human cancer insights

While studying the genes in poplar trees that control callus formation, scientists at Oak Ridge National Laboratory have uncovered genetic networks at the root of tumor formation in several human cancers.