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Manolis Kellis conducts research at the intersection of computational biology and genomics, with a primary focus on the systematic discovery of functional DNA elements. His highly cited work includes the development of ChromHMM for automating chromatin-state discovery, a method that has garnered over 2,000 citations for its role in characterizing genome-wide epigenetic patterns. Publicly indexed outputs suggest a long-standing interest in comparative genomics, evidenced by his early lead-author research into evolutionary analysis of ancient genome duplication in yeast and the identification of regulatory motifs through multi-mammal comparisons. His more recent senior-author contributions have translated these computational approaches into the biomedical sphere, notably through a landmark study on the circuitry of FTO obesity variants and adipocyte browning. Beyond his primary methodological developments, Kellis has contributed to large-scale international consortia aimed at mapping the human genome's functional landscape. He is a co-author on influential papers describing the GENCODE reference human genome annotation and the integrated encyclopedia of DNA elements. His collaborative work also extends to single-cell applications, including a highly cited transcriptomic analysis of Alzheimer’s disease that identifies cell-type-specific changes in the brain. These diverse outputs, ranging from the creation of the HaploReg tool to the study of immune bases in neurodegeneration, reflect a research arc dedicated to decoding the complex regulatory logic that links genetic variation to human disease.
ENCODE Project Consortium, Jill E Moore, Michael J Purcaro, Henry E Pratt, Charles B Epstein, Noam Shoresh, Jessika Adrian, Trupti Kawli, Carrie A Davis, Alexander Dobin, Rajinder Kaul, Jessica Halow, Eric L Van Nostrand, Peter Freese, David U Gorkin, Yin Shen, Yupeng He, Mark Mackiewicz, Florencia Pauli-Behn, Brian A Williams, Ali Mortazavi, Cheryl A Keller, Xiao-Ou Zhang, Shaimae I Elhajjajy, Jack Huey, Diane E Dickel, Valentina Snetkova, Xintao Wei, Xiaofeng Wang, Juan Carlos Rivera-Mulia, Joel Rozowsky, Jing Zhang, Surya B Chhetri,
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Carles A Boix, Benjamin T James, Yongjin P Park, Wouter Meuleman, Manolis Kellis
Lucy G Thorne, Mehdi Bouhaddou, Ann-Kathrin Reuschl, Lorena Zuliani-Alvarez, Ben Polacco, Adrian Pelin, Jyoti Batra, Matthew V X Whelan, Myra Hosmillo, Andrea Fossati, Roberta Ragazzini, Irwin Jungreis, Manisha Ummadi, Ajda Rojc, Jane Turner, Marie L Bischof, Kirsten Obernier, Hannes Braberg, Margaret Soucheray, Alicia Richards, Kuei-Ho Chen, Bhavya Harjai, Danish Memon, Joseph Hiatt, Romel Rosales, Briana L McGovern, Aminu Jahun, Jacqueline M Fabius, Kris White, Ian G Goodfellow, Yasu Takeuchi, Paola Bonfanti, Kevan Shokat, Natalia Jura, Klim Verba, Mahdad Noursadeghi, Pedro Beltrao, Manolis Kellis, Danielle L Swaney, Adolfo García-Sastre, Clare Jolly, Greg J Towers, Nevan J Krogan
Madhvi Menon, Shahin Mohammadi, Jose Davila-Velderrain, Brittany A Goods, Tanina D Cadwell, Yu Xing, Anat Stemmer-Rachamimov, Alex K Shalek, John Christopher Love, Manolis Kellis, Brian P Hafler
Francisco J Garcia, Na Sun, Hyeseung Lee, Brianna Godlewski, Hansruedi Mathys, Kyriaki Galani, Blake Zhou, Xueqiao Jiang, Ayesha P Ng, Julio Mantero, Li-Huei Tsai, David A Bennett, Mustafa Sahin, Manolis Kellis, Myriam Heiman