Ross Hardison

Associate Director of the Genome Sciences Institute; T. Ming Chu Professor of Biochemistry and Molecular Biology

Ross Hardison

Research Summary

Regulation of gene expression during development.

Huck Affiliations

Links

Most Recent Publications

Snapshot: a package for clustering and visualizing epigenetic history during cell differentiation

Guanjue Xiang, Belinda Giardine, Lin An, Chen Sun, Cheryl A. Keller, Elisabeth F. Heuston, Stacie M. Anderson, Martha Kirby, David Bodine, Yu Zhang, Ross C. Hardison, 2023, BMC Bioinformatics

Molecular basis of polycomb group protein–mediated fetal hemoglobin repression

Kunhua Qin, Xianjiang Lan, Peng Huang, Megan S. Saari, Eugene Khandros, Cheryl A. Keller, Belinda Giardine, Osheiza Abdulmalik, Junwei Shi, Ross C. Hardison, Gerd A. Blobel, 2023, Blood on p. 2756-2770

Gene silencing dynamics are modulated by transiently active regulatory elements

Marit W. Vermunt, Jing Luan, Zhe Zhang, A. Josephine Thrasher, Anran Huang, Megan S. Saari, Eugene Khandros, Robert A. Beagrie, Shiping Zhang, Pranay Vemulamada, Matilda Brilleman, Kiwon Lee, Jennifer A. Yano, Belinda M. Giardine, Cheryl A. Keller, Ross C. Hardison, Gerd A. Blobel, 2023, Molecular Cell on p. 715-730.e6

Identification and characterization of RBM12 as a novel regulator of fetal hemoglobin expression

A Wakabayashi, M Kihiu, M Sharma, A Thrasher, M Saari, M Quesnel-Vallières, O Abdulmalik, S Peslak, E Khandros, Cheryl A. Keller Capone, C Keller, B Giardine, Y Barash, Ross C. Hardison, J Shi, G Blobel, 2022, Blood advances on p. 5956-5968

CLIMB: High-dimensional association detection in large scale genomic data

H Koch, Cheryl Keller, G Xiang, B Giardine, F Zhang, Y Wang, Ross Hardison, Qunhua Li, 2022, Nature Communications on p. 6874

CTCF blocks antisense transcription initiation at divergent promoters

J Luan, M Vermunt, C Syrett, A Coté, J Tome, H Zhang, A Huang, J Luppino, Cheryl Keller, B Giardine, S Zhang, M Dunagin, Z Zhang, E Joyce, J Lis, A Raj, Ross C. Hardison, G Blobel, 2022, Nature Structural Biology on p. 1136-1144

Subtype-specific 3D genome alteration in acute myeloid leukaemia

J Xu, Fan Song, Huijue Lyu, Mikoto Kobayashi, Baozhen Zhang, Ziyu Zhao, Ye Hou, Xiaotao Wang, Yu Luan, Bei Jia, Lena Stasiak, Josiah Wong, Qixuan Wang, Qi Jin, Qiushi Jin, Yihao Fu, Hongbo Yang, Ross C. Hardison, Sinisa Dovat, Leonidas Platanias, Yarui Diao, Yue Yang, Tomoko Yamada, Aaron Viny, Ross Levine, David Claxton, James R. Broach, Hong Zheng, Feng Yue, 2022, Nature on p. 387-398

HIC2 controls developmental hemoglobin switching by repressing BCL11A transcription

P Huang, S Peslak, R Ren, E Khandros, K Qin, Cheryl A. Keller, B Giardine, H Bell, X Lan, M Sharma, J Horton, O Abdulmalik, S Chou, J Shi, M Crossley, Ross C. Hardison, X Cheng, G Blobel, 2022, Nature Genetics on p. 1417-1426

Dual function NFI factors control fetal hemoglobin silencing in adult erythroid cells

K Qin, P Huang, R Feng, Cheryl A. Keller, S Peslak, E Khandros, M Saari, X Lan, T Mayuranathan, P Doerfler, O Abdulmalik, B Giardine, S Chou, J Shi, Ross C. Hardison, M Weiss, G Blobel, 2022, Nature Genetics on p. 874-884

Publisher Correction: Dual function NFI factors control fetal hemoglobin silencing in adult erythroid cells (Nature Genetics, (2022), 54, 6, (874-884), 10.1038/s41588-022-01076-1)

Kunhua Qin, Peng Huang, Ruopeng Feng, Cheryl A. Keller, Scott A. Peslak, Eugene Khandros, Megan S. Saari, Xianjiang Lan, Thiyagaraj Mayuranathan, Phillip A. Doerfler, Osheiza Abdulmalik, Belinda Giardine, Stella T. Chou, Junwei Shi, Ross C. Hardison, Mitchell J. Weiss, Gerd A. Blobel, 2022, Nature Genetics on p. 906

Most-Cited Papers

Expanded encyclopaedias of DNA elements in the human and mouse genomes

Federico Abascal, Reyes Acosta, Nicholas J. Addleman, Jessika Adrian, Veena Afzal, Bronwen Aken, Jennifer A. Akiyama, Omar Al Jammal, Henry Amrhein, Stacie M. Anderson, Gregory R. Andrews, Igor Antoshechkin, Kristin G. Ardlie, Joel Armstrong, Matthew Astley, Budhaditya Banerjee, Amira A. Barkal, If H.A. Barnes, Iros Barozzi, Daniel Barrell, Gemma Barson, Daniel Bates, Ulugbek K. Baymuradov, Cassandra Bazile, Michael A. Beer, Samantha Beik, M. A. Bender, Ruth Bennett, Louis Philip Benoit Bouvrette, Bradley E. Bernstein, Andrew Berry, Anand Bhaskar, Alexandra Bignell, Steven M. Blue, David M. Bodine, Carles Boix, Nathan Boley, Tyler Borrman, Beatrice Borsari, Alan P. Boyle, Laurel A. Brandsmeier, Alessandra Breschi, Emery H. Bresnick, Jason A. Brooks, Michael Buckley, Ross C. Hardison, Cheryl A. Keller, Hongbo Yang, Feng Yue, Lijun Zhang, 2020, Nature on p. 699-710

The 3D Genome Browser: A web-based browser for visualizing 3D genome organization and long-range chromatin interactions

Yanli Wang, Fan Song, Bo Zhang, Lijun Zhang, Jie Xu, Da Kuang, Daofeng Li, Mayank N.K. Choudhary, Yun Li, Ming Hu, Ross Hardison, Ting Wang, Feng Yue, 2018, Genome Biology

HiCRep: assessing the reproducibility of Hi-C data using a stratum-adjusted correlation coefficient

Tao Yang, Feipeng Zhang, Galip Gürkan Yardımci, Fan Song, Ross C. Hardison, William Stafford Noble, Feng Yue, Qunhua Li, 2017, Genome Research on p. 1939-1949

A genome-editing strategy to treat β-hemoglobinopathies that recapitulates a mutation associated with a benign genetic condition

Elizabeth A. Traxler, Yu Yao, Yong Dong Wang, Kaitly J. Woodard, Ryo Kurita, Yukio Nakamura, Jim R. Hughes, Ross C. Hardison, Gerd A. Blobel, Chunliang Li, Mitchell J. Weiss, 2016, Nature Medicine on p. 987-990

Integrative detection and analysis of structural variation in cancer genomes

Jesse R. Dixon, Jie Xu, Vishnu Dileep, Ye Zhan, Fan Song, Victoria T. Le, Galip Gürkan Yardımcı, Abhijit Chakraborty, Darrin V. Bann, Yanli Wang, Royden Clark, Lijun Zhang, Hongbo Yang, Tingting Liu, Sriranga Iyyanki, Lin An, Christopher Pool, Takayo Sasaki, Juan Carlos Rivera-Mulia, Hakan Ozadam, Bryan R. Lajoie, Rajinder Kaul, Michael Buckley, Kristen Lee, Morgan Diegel, Dubravka Pezic, Christina Ernst, Suzana Hadjur, Duncan T. Odom, John A. Stamatoyannopoulos, James R. Broach, Ross C. Hardison, Ferhat Ay, William Stafford Noble, Job Dekker, David M. Gilbert, Feng Yue, 2018, Nature Genetics on p. 1388-1398

Unlinking an lncRNA from Its Associated cis Element

Vikram R. Paralkar, Cristian C. Taborda, Peng Huang, Yu Yao, Andrew V. Kossenkov, Rishi Prasad, Jing Luan, James O.J. Davies, Jim R. Hughes, Ross C. Hardison, Gerd A. Blobel, Mitchell J. Weiss, 2016, Molecular Cell on p. 104-110

The effects of chromatin organization on variation in mutation rates in the genome

Kateryna D. Makova, Ross C. Hardison, 2015, Nature Reviews Genetics on p. 213-223

Chromatin structure dynamics during the mitosis-to-G1 phase transition

Haoyue Zhang, Daniel J. Emerson, Thomas G. Gilgenast, Katelyn R. Titus, Yemin Lan, Peng Huang, Di Zhang, Hongxin Wang, Cheryl A. Keller, Belinda Giardine, Ross C. Hardison, Jennifer E. Phillips-Cremins, Gerd A. Blobel, 2019, Nature on p. 158-162

Perspectives on ENCODE

Federico Abascal, Reyes Acosta, Nicholas J. Addleman, Jessika Adrian, Veena Afzal, Bronwen Aken, Jennifer A. Akiyama, Omar Al Jammal, Henry Amrhein, Stacie M. Anderson, Gregory R. Andrews, Igor Antoshechkin, Kristin G. Ardlie, Joel Armstrong, Matthew Astley, Budhaditya Banerjee, Amira A. Barkal, If H.A. Barnes, Iros Barozzi, Daniel Barrell, Gemma Barson, Daniel Bates, Ulugbek K. Baymuradov, Cassandra Bazile, Michael A. Beer, Samantha Beik, M. A. Bender, Ruth Bennett, Louis Philip Benoit Bouvrette, Bradley E. Bernstein, Andrew Berry, Anand Bhaskar, Alexandra Bignell, Steven M. Blue, David M. Bodine, Carles Boix, Nathan Boley, Tyler Borrman, Beatrice Borsari, Alan P. Boyle, Laurel A. Brandsmeier, Alessandra Breschi, Emery H. Bresnick, Jason A. Brooks, Michael Buckley, Ross C. Hardison, Cheryl A. Keller, Hongbo Yang, Feng Yue, Lijun Zhang, 2020, Nature on p. 693-698

Domain-focused CRISPR screen identifies HRI as a fetal hemoglobin regulator in human erythroid cells

Jeremy D. Grevet, Xianjiang Lan, Nicole Hamagami, Christopher R. Edwards, Laavanya Sankaranarayanan, Xinjun Ji, Saurabh K. Bhardwaj, Carolyne J. Face, David F. Posocco, Osheiza Abdulmalik, Cheryl A. Keller, Belinda Giardine, Simone Sidoli, Ben A. Garcia, Stella T. Chou, Stephen A. Liebhaber, Ross C. Hardison, Junwei Shi, Gerd A. Blobel, 2018, Science on p. 285-290

News Articles Featuring Ross Hardison

Apr 23, 2024

Penn State molecular biologist Ross Hardison named an AAAS Fellow

Ross Hardison, Academy Professor and professor emeritus of biochemistry and molecular biology, has been named a fellow of the American Association for the Advancement of Science (AAAS).

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Oct 30, 2023

Genomics Research Incubator expands assay and training options for scientists

The Genomics Core Facility technology allows researchers to process genetic material much quicker and in larger quantities, producing more detailed data for more in-depth analyzes.

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Nov 14, 2022

New statistical method improves genomic analyses

A new statistical method provides a more efficient way to uncover biologically meaningful changes in genomic data that span multiple conditions — such as cell types or tissues.

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Dec 17, 2019

New tool reveals DNA structures that influence disease

Disruption of certain DNA structures — called topologically associating domains, or TADs — is linked with the development of disease, including some cancers. With its newly created algorithm that quickly locates and helps elucidate the complex functions of TADs, an international team of researchers is making it easier to study these important structures and help prevent disease.

Full Article

May 06, 2019

Icefish Study Adds Another Color to the Story of Blood

The rainbow of pigments that animals use for blood illustrates a central truth about evolution

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Apr 22, 2019

Icefish Study Adds Another Color to the Story of Blood

The Antarctic blackfin icefish is the only known vertebrate animal that lacks red blood cells containing hemoglobin. But the use of hemoglobin to transport oxygen through the body is actually a rarity among invertebrates, which rely on a variety of other pigments in their versions of blood.

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Mar 26, 2019

CBIOS Trainee Hillary Koch Awarded NIH Fellowship

Koch's dissertation proposal, "Statistical Methods for Differential Peak Detection in Hi-C Data," was funded upon its first submission to the National Human Genome Research Institute.

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