SARS-CoV-2 gene content and COVID-19 mutation impact by comparing 44 Sarbecovirus genomes

by Jungreis, Irwin, Sealfon, Rachel, Kellis, Manolis
Published 2021

Heterologous Stop Codon Readthrough of Metazoan Readthrough Candidates in Yeast

by Jungreis, Irwin, Kellis, Manolis, Chan, Clara Sophia
Published 2013

PhyloCSF: a comparative genomics method to distinguish protein coding and non-coding regions

by Lin, Michael F., Jungreis, Irwin, Kellis, Manolis
Published 2012

Discovery of high-confidence human protein-coding genes and exons by whole-genome PhyloCSF helps elucidate 118 GWAS loci

by Jungreis, Irwin, He, Liang, Li, Yue, Kellis, Manolis
Published 2020

Elucidation of Codon Usage Signatures across the Domains of Life

by Novoa Pardo, Eva Maria, Jungreis, Irwin, Jaillon, Olivier, Kellis, Manolis
Published 2021

Evolutionary Dynamics of Abundant Stop Codon Readthrough

by Fields, Gabriel, Lin, Michael F., Jungreis, Irwin, Chan, Clara S., Waterhouse, Robert, Kellis, Manolis
Published 2017

FRESCo: finding regions of excess synonymous constraint in diverse viruses

by Lin, Michael F., Jungreis, Irwin, Kellis, Manolis, Sabeti, Pardis C, Sealfon, Rachel S., Wolf, Maxim Y.
Published 2015

Highly evolvable malaria vectors: The genomes of 16 Anopheles mosquitoes

by Waterhouse, Robert, Chan, Clara Sophia, Jungreis, Irwin, Novoa Pardo, Eva Maria, Wu, Yi-Chieh, Kellis, Manolis
Published 2016

A High-Resolution Map of Human Evolutionary Constraint Using 29 Mammals

by Mag Washietl, Stefan, Kheradpour, Pouya, Ernst, Jason, Ward, Lucas D., Jungreis, Irwin, Rasmussen, Matthew D., Kellis, Manolis
Published 2012

Few SINEs of life: Alu elements have little evidence for biological relevance despite elevated translation

by Martinez-Gomez, Laura, Abascal, Federico, Jungreis, Irwin, Pozo, Fernando, Kellis, Manolis, Mudge, Jonathan M, Tress, Michael L
Published 2021

Evidence for a novel overlapping coding sequence in POLG initiated at a CUG start codon

by Khan, Yousuf A, Jungreis, Irwin, Wright, James C, Mudge, Jonathan M, Choudhary, Jyoti S, Firth, Andrew E, Kellis, Manolis
Published 2020

Evidence of abundant stop codon readthrough in Drosophila and other Metazoa

by Jungreis, Irwin, Lin, Michael F., Spokony, Rebecca, Chan, Clara Sophia, Negre, Nicolas, Victorsen, Alec, White, Kevin P., Kellis, Manolis
Published 2012

Corrigendum: Loose ends: almost one in five human genes still have unresolved coding status

by Abascal, Federico, Juan, David, Jungreis, Irwin, Kellis, Manolis, Martinez, Laura, Rigau, Maria, Rodriguez, Jose Manuel, Vazquez, Jesus, Tress, Michael L
Published 2020

Evidence of efficient stop codon readthrough in four mammalian genes

by Loughran, Gary, Chou, Ming-Yuan, Ivanov, Ivaylo P., Jungreis, Irwin, Kellis, Manolis, Kiran, Anmol M., Baranov, Pavel V., Atkins, John F.
Published 2014

Discovery of Human sORF-Encoded Polypeptides (SEPs) in Cell Lines and Tissue

by Ma, Jiao, Ward, Carl C., Jungreis, Irwin, Slavoff, Sarah A., Schwaid, Adam G., Neveu, John, Budnik, Bogdan A., Kellis, Manolis, Saghatelian, Alan
Published 2015

An integrated encyclopedia of DNA elements in the human genome

by Altshuler, Robert Charles, Ernst, Jason, Kellis, Manolis, Kheradpour, Pouya, Ward, Lucas D., Eaton, Matthew Lucas, Hendrix, David A., Jungreis, Irwin, Lin, Michael F., Washietl, Stefan
Published 2014

Conflicting and ambiguous names of overlapping ORFs in the SARS-CoV-2 genome: A homology-based resolution

by Jungreis, Irwin, Nelson, Chase W., Ardern, Zachary, Finkel, Yaara, Krogan, Nevan J., Sato, Kei, Ziebuhr, John, Stern-Ginossar, Noam, Pavesi, Angelo, Firth, Andrew E., Gorbalenya, Alexander E., Kellis, Manolis
Published 2021

A gene expression atlas of embryonic neurogenesis in Drosophila reveals complex spatiotemporal regulation of lncRNAs

by McCorkindale, Alexandra L., Wahle, Philipp, Werner, Sascha, Jungreis, Irwin, Menzel, Peter, Shukla, Chinmay J., Abreu, Rúben Lopes Pereira, Irizarry, Rafael A., Meyer, Irmtraud M., Kellis, Manolis, Zinzen, Robert P.
Published 2020

Identification of Functional Elements and Regulatory Circuits by Drosophila modENCODE

by Kheradpour, Pouya, Bristow, Christopher A., Mag Washietl, Stefan, Ay, Ferhat, Jungreis, Irwin, Marbach, Daniel, Sealfon, Rachel Sima, Will, Sebastian, Berger, Bonnie, Kellis, Manolis, Roy, Sushmita, Ernst, Jason, Lin, Michael F., Meyer, Patrick E., Di Stefano, Luisa, Candeias, Rogerio, Nordman, Jared T., Orr-Weaver, Terry L.
Published 2013

Calcifediol Treatment and Hospital Mortality Due to COVID-19: A Cohort Study

by Alcala-Diaz, Juan F., Limia-Perez, Laura, Gomez-Huelgas, Ricardo, Martin-Escalante, Maria D., Cortes-Rodriguez, Begoña, Zambrana-Garcia, Jose L., Entrenas-Castillo, Marta, Perez-Caballero, Ana I., López-Carmona, Maria D., Garcia-Alegria, Javier, Lozano Rodríguez-Mancheño, Aquiles, Arenas-de Larriva, Maria del Sol, Pérez-Belmonte, Luis M., Jungreis, Irwin, Bouillon, Roger, Quesada-Gomez, Jose Manual, Lopez-Miranda, Jose
Published 2021