Our work highlighted by the Oak Ridge Leadership Computing Facility
Our work was included in the OLCF’s 2025 year in review.
Tag: group news
NEW INCITE POJECT AWARDED FOR 2026
Our INCITE Award was competitively renewed for 2026 by the DOE Office of Science. Open to researchers from academia, government laboratories, and industry, the Innovative and Novel Computational Impact on Theory and Experiment (INCITE) program is the major means by which the scientific community gains access to the world’s fastest supercomputers. The program aims to accelerate […]
NEW PAPER IN NATURE COMMUNICATIONS
Congratulations to Tanmoy Paul, Chunli Yan and Grant Derdeyn-Blackwell who are co-authors on a just published paper in the journal Nature Communications entitled “Translocation mechanism of xeroderma pigmentosum group D protein on single-stranded DNA and genetic disease etiology”. We investigated the molecular basis of translocation by the xeroderma pigmentosum group D (XPD) helicase on single-stranded […]
NEW PAPER IN NATURE COMMUNICATIONS
Congratulations to Tanmoy Paul, Chunli Yan and Jina Yu who are co-authors on a just published paper in the journal Nature Communications. The paper is entitled “Molecular model of TFIIH recruitment to the transcription-coupled repair machinery“. Transcription-coupled repair is a vital nucleotide excision repair sub-pathway that removes DNA lesions from actively transcribed DNA strands. Binding of the […]
NEW PAPER IN NATURE COMMUNICATIONS
Congratulations to Jina Yu, Chunli Yan, Tanmoy Paul and Lucas Brewer who are co-authors on a just published paper in the journal Nature Communications. The paper is entitled “Molecular architecture and functional dynamics of the pre-incision complex in nucleotide excision repair.” The nucleotide excision repair (NER) pathway is vital for genome integrity. By synthesizing cryo-EM and XL-MS […]
Congratulations to Jina Yu who is our newest Ph.D. recipient
Congratulations to Jina Yu who successfully defended her Ph.D. dissertation on March 25 2024. Best wishes to Jina for success in her future career!
IVAYLO IVANOV RECEIVES NEW NIH GRANT
Ivaylo Ivanov receives a new R01 grant from the National Institute of Environmental Health Sciences.
NEW PAPER IN NATURE COMMUNICATIONS
Congratulations to Chunli Yan, Tom Dodd and Jina Yu who are co-authors on a just accepted paper in the journal Nature Communications. The paper is entitled “Mechanism of Rad26-assisted rescue of stalled RNA polymerase II in transcription-coupled repair.” Our integrative modeling study elucidates the mechanism by which Cockayne Syndrome B protein (CSB) binds to lesion-arrested RNA Polymerase […]
IVAYLO IVANOV RECEIVES NEW NIH GRANT
Ivaylo Ivanov receives a Maximizing Investigators’ Research Award (MIRA) from the National Institute of General Medical Sciences.
Oak Ridge National Lab highlights our work on high fidelity DNA replication
Oak Ridge National Lab highlights our recent work on pathways for conformational switching in high fidelity DNA polymerases: “Simulations reveal Nature’s design for error correction during DNA replication“.
New INCITE Project Awarded for 2021
Our group received a new INCITE Award from the U.S. Department of Energy Office of Science. The Innovative and Novel Computational Impact on Theory and Experiment (INCITE) program accelerates scientific discoveries and technological innovations by awarding, on a competitive basis, time on the world’s fastest supercomputers to researchers with large-scale, computationally intensive projects that address “grand challenges” in science and […]
New paper in Nature Communications
Congratulations to Tom Dodd who is the first author on a just accepted paper in the journal Nature Communications. The paper is entitled “Polymerization and editing modes of a high-fidelity DNA polymerase are linked by a well-defined path” and addresses a grand challenge for the DNA replication field by demonstrating through combined computational and biochemical analyses […]
Ivaylo Ivanov receives new NSF grant
Ivaylo Ivanov receives a new four-year award from the National Science Foundation.
Tom Dodd receives a Hopkins Endowed Award
Congratulations to Tom Dodd on receiving a Hopkins Endowed Award from GSU. The Harry P. Hopkins, Jr. Scholarship in Physical Chemistry was endowed in 2017 to honor the memory of GSU Physical Chemistry Professor Harry P. Hopkins.
DEPARTMENT OF ENERGY ISSUES A PRESS RELEASE ABOUT OUR 2020 INCITE AWARD
Our group was among the 47 recipients of INCITE Awards from the U.S. Department of Energy’s Office of Science. The projects originate in national laboratories, academia, and industry, and encompass a remarkable range of scientific inquiry. Ours was among the projects in the areas of Biological Sciences/Biophysics. Here are the 2020 INCITE Announcement and the list of 2020 […]
OAK RIDGE NATIONAL LAB HIGHLIGHTS OUR RECENT WORK ON THE PIC
Oak Ridge National Lab highlights our recent work on the transcription preinitiation complex (PIC): “Summit Charts a Course to Uncover the Origins of Genetic Diseases”.
NEW PAPER IN NATURE STRUCTURAL & MOLECULAR BIOLOGY
Congratulation to Chunli Yan and Tom Dodd who published a new paper in the journal Nature Structural & Molecular Biology on the molecular architecture and functional dynamics of the transcription preinitiation complex (PIC). Yan, C.; Dodd, T.; Tainer, J.A.; He, Y.; Tsutakawa, S.E.; & Ivanov, I.* Transcription preinitiation complex structure and dynamics provide insight into genetic diseases Nature Structural […]
NEW PAPER IN THE JOURNAL OF MOLECULAR BIOLOGY
Congratulation to group alumnus Dr. Max Xu and Dr. Chunli Yan and who published a new paper in the Journal of Molecular Biology that unravels the common origins of DNA clamp proteins’ subunit interface stability with implications for the function of these proteins in DNA replication. Perumal, S.K.; Xu, X.; Yan, C.; Ivanov, I. & Benkovic, S.J. Recognition of a […]
NEW PAPER IN THE JOURNAL PCCP
Congratulation to Dr. Kathleen Carter who published a new paper in the jounal Physical Chemistry Chemical Physics detailing the mechanism of sequence-specific DNA binding of a designed small molecule binder DB2277. Carter, E.K.; Laughlin, S.; Dodd, T.; Wilson, W.D. & Ivanov, I* Small molecule binders recognize DNA microstructural variations via an induced fit mechanism Physical Chemistry […]
Congratulations to Kathleen Carter who is our newest Ph.D. recipient
Congratulations to Kathleen Carter who defended her Ph.D. dissertation today. Best wishes to Kathleen for success in her future career!
Department of Energy issues a press release about the 2019 INCITE Awards
Our group was among the 62 recipients of INCITE Awards from the U.S. Department of Energy’s Office of Science. The projects originate in national laboratories, academia, and industry, and encompass a remarkable range of scientific inquiry. Ours was among 8 projects in the areas of Biological Sciences/Biophysics awarded nationwide. Here are the 2019INCITEAnnouncement and the […]
GROUP MEMBERS PRESENT AT THE 2018 SERMACS MEETING IN AUGUSTA
Group members recently traveled to Augusta, GA to present at the 2018 Southeastern Regional Meeting of the American Chemical Society. Many thanks to all who presented! (Chunli Yan, Ashutosh Shandilya, Tom Dodd, Kurt Martin and Zhenyu Wang) At the meeting Ivaylo gave two invited talks: Emerging unified description of transcription initiation from cryo-EM and integrative computational […]
GROUP MEMBERS PRESENT AT THE ACS NATIONAL MEETING IN BOSTON
Group members recently traveled to Boston, MA to present at the 2018 National Meeting of the American Chemical Society. Ivaylo gave a talk entitled “Emerging unified description of transcription initiation from cryo-EM and integrative computational modeling ” in the COMP division (New Frontiers in Flexible Fitting, Image Processing & Refinement of Cryo-EM Data session). Many […]
GROUP MEMBERS PRESENT AT SERMACS
Group members recently traveled to Charlotte, NC to present at the 2017 Southeastern Regional Meeting of the American Chemical Society. Many thanks to all who presented! (Kathleen Carter, Chunli Yan and Tom Dodd)
CONGRATULATIONS TO BERNARD SCOTT ON RECEIVING A M.S. DEGREE
Congratulations to Bernard Scott who successfully defended his Masters thesis in June 2017! He has accepted an offer of admission to the Ph.D. program at the University of Utah and will continue doing research albeit in an experimental lab. We wish him all the best in his future endeavors.
Tom Dodd receives a Molecular Basis of Disease Fellowship
Congratulations to Tom Dodd who received a competitive doctoral fellowship from the Molecular Basis of Disease program at Georgia State.
BRAD KOSSMANN RECEIVES TWO DOCTORAL RESEARCH AWARDS
Congratulations to Brad Kossmann who received two competitive awards from Georgia State: 1) the Award for Outstanding Research at the Ph.D. level (only two such awards are given yearly in our department) 2) the Molecular Basis of Disease Outstanding Fellow Award
TOM DODD PASSES WRITTEN QUALIFYING EXAM
Congratulations to Tom Dodd on passing his writtten qualifying exam.
CONGRATULATIONS TO BRAD KOSSMANN WHO IS OUR NEXT PH.D. RECIPIENT
Congratulations to Brad Kossmann who successfully defended his doctoral dissertation on March 21th 2017! He has accepted a new position in data science based right here in Atlanta. We wish him all the best in his future endeavors.
Integrative Biomolecular Modeling 