Publications
2025
- Berg JJ, Li, X, Riall, K, Hayward, L, Sella, G. Mutation-selection-drift balance models of complex disease. Genetics. DOI: 10.1093/genetics/iyae211 [pdf]
- Blanc J, Berg JJ. Testing for differences in polygenic scores in the presence of confounding. Genetics. DOI: 10.1093/genetics/iyae211 [pdf]
- Shastry V, Berg JJ. Allele ages provide limited information about the strength of negative selection. Genetics. DOI: 10.1093/genetics/iyae211 [pdf]
2021
- Carlson MO, Rice DP, Berg JJ, Steinrücken M. Polygenic score accuracy in ancient samples: Quantifying the effects of allelic turnover. PLOS Genetics. DOI: 10.1371/journal.pgen.1010170 [pdf]
2019
- Fuller Z, Berg JJ, Mostafavi H, Sella G, Przeworski M. Measuring "Intolerance to Mutation" in Human Genetics Nature Genetics. DOI: 10.1038/s41588-019-0383-1 [pdf]
- Berg JJ*, Harpak A*, Sinnott-Armstrong N*, Jörgensen AM, Mostafavi H, Field Y, Boyle EA, Zhang X, Racimo F, Pritchard JK, Coop G. Reduced signal for polygenic adaptation of height in UK Biobank eLife. DOI: 10.7554/eLife.39725 [pdf]
- Josephs E, Berg JJ, Ross-Ibarra J, Coop G. Detecting adaptive differentiation in structured populations with genomic data and common gardens Genetics. DOI: 10.1534/genetics.118.301786 [pdf]
2018
- Bilisnki P, Albert PS, Berg JJ, Birchler J, Grote M, Lorant A, Quezada J, Swartz K, Yang J, Ross-Ibarra J. Parallel Altitudinal Clines Reveal Adaptive Evolution of Genome Size in Zea mays PLOS Genetics. DOI: 10.1371/journal.pgen.1007162 [pdf]
- Racimo F, Berg JJ, Pickrell J. Detecting Polygenic Adaptation in Admixture Graphs Genetics. DOI: 10.1101/167551 [pdf]
2015
- Berg JJ, Coop G. A Coalescent Model for a Sweep of a Unique Standing Variant. Genetics. DOI: 10.1534/genetics.115.178962 [pdf]
2014
- Berg JJ, Coop G. A Population Genetic Signal of Polygenic Adaptation. PLOS Genetics. DOI: 10.1371/journal.pgen.1004412 [pdf]
2013
- Martins, TR, Berg JJ, Blinka, S, Rausher, MD, Baum, DA. Precise spatio‐temporal regulation of the anthocyanin biosynthetic pathway leads to petal spot formation in Clarkia gracilis (Onagraceae). New Phytologist. DOI: 10.1111/nph.12062 [pdf]
Unpublished Preprints
2025
- Blanc, J, Mawass, W Berg JJ. Quantifying the susceptibility of polygenic scores to ancestry stratification. bioRxiv. DOI: 10.64898/2025.12.04.692430 [pdf]
- Li, X, Berg JJ. Background selection in recombining genomes and its consequences for the maintenance of variation in complex traits. bioRxiv. DOI: 10.1101/2025.05.27.656342 [pdf]
- Mawass, W, Matheson, J, Hernandez, U, Berg JJ, Masel, J. Extinction vortices are drive more by a shortage of beneficial mutations than by deleterious mutation accumulation. bioRxiv. DOI: 10.1101/2024.10.25.620329 [pdf]
- Smith, SP, Smith, OS, Mostafavi, H, Peng, D, Berg JJ, Edge, D, Harpak, A. A Litmus Test for Confounding in Polygenic Scores. bioRxiv. DOI: 10.1101/2025.02.01.635985 [pdf]
2017
- Berg JJ, Zhang X, Coop G. Polygenic Adaptation has Impacted Multiple Anthropometric Traits bioRxiv. DOI: 10.1101/167551 [pdf]
* note: this article has been left unpublished because analyses of an additional dataset after the initial preprint submission caused us to lose faith in the data on which its analyses were based. The Berg, Harpak, Sinnott-Armstrong et al (2019) paper listed above is a successor manuscript which examines these issues in depth. For more, see that paper, as well as the author's note in this preprint.
2025
- Berg JJ, Li, X, Riall, K, Hayward, L, Sella, G. Mutation-selection-drift balance models of complex disease. Genetics. DOI: 10.1093/genetics/iyae211 [pdf]
- Blanc J, Berg JJ. Testing for differences in polygenic scores in the presence of confounding. Genetics. DOI: 10.1093/genetics/iyae211 [pdf]
- Shastry V, Berg JJ. Allele ages provide limited information about the strength of negative selection. Genetics. DOI: 10.1093/genetics/iyae211 [pdf]
2021
- Carlson MO, Rice DP, Berg JJ, Steinrücken M. Polygenic score accuracy in ancient samples: Quantifying the effects of allelic turnover. PLOS Genetics. DOI: 10.1371/journal.pgen.1010170 [pdf]
2019
- Fuller Z, Berg JJ, Mostafavi H, Sella G, Przeworski M. Measuring "Intolerance to Mutation" in Human Genetics Nature Genetics. DOI: 10.1038/s41588-019-0383-1 [pdf]
- Berg JJ*, Harpak A*, Sinnott-Armstrong N*, Jörgensen AM, Mostafavi H, Field Y, Boyle EA, Zhang X, Racimo F, Pritchard JK, Coop G. Reduced signal for polygenic adaptation of height in UK Biobank eLife. DOI: 10.7554/eLife.39725 [pdf]
- Josephs E, Berg JJ, Ross-Ibarra J, Coop G. Detecting adaptive differentiation in structured populations with genomic data and common gardens Genetics. DOI: 10.1534/genetics.118.301786 [pdf]
2018
- Bilisnki P, Albert PS, Berg JJ, Birchler J, Grote M, Lorant A, Quezada J, Swartz K, Yang J, Ross-Ibarra J. Parallel Altitudinal Clines Reveal Adaptive Evolution of Genome Size in Zea mays PLOS Genetics. DOI: 10.1371/journal.pgen.1007162 [pdf]
- Racimo F, Berg JJ, Pickrell J. Detecting Polygenic Adaptation in Admixture Graphs Genetics. DOI: 10.1101/167551 [pdf]
2015
- Berg JJ, Coop G. A Coalescent Model for a Sweep of a Unique Standing Variant. Genetics. DOI: 10.1534/genetics.115.178962 [pdf]
2014
- Berg JJ, Coop G. A Population Genetic Signal of Polygenic Adaptation. PLOS Genetics. DOI: 10.1371/journal.pgen.1004412 [pdf]
2013
- Martins, TR, Berg JJ, Blinka, S, Rausher, MD, Baum, DA. Precise spatio‐temporal regulation of the anthocyanin biosynthetic pathway leads to petal spot formation in Clarkia gracilis (Onagraceae). New Phytologist. DOI: 10.1111/nph.12062 [pdf]
Unpublished Preprints
2025
- Blanc, J, Mawass, W Berg JJ. Quantifying the susceptibility of polygenic scores to ancestry stratification. bioRxiv. DOI: 10.64898/2025.12.04.692430 [pdf]
- Li, X, Berg JJ. Background selection in recombining genomes and its consequences for the maintenance of variation in complex traits. bioRxiv. DOI: 10.1101/2025.05.27.656342 [pdf]
- Mawass, W, Matheson, J, Hernandez, U, Berg JJ, Masel, J. Extinction vortices are drive more by a shortage of beneficial mutations than by deleterious mutation accumulation. bioRxiv. DOI: 10.1101/2024.10.25.620329 [pdf]
- Smith, SP, Smith, OS, Mostafavi, H, Peng, D, Berg JJ, Edge, D, Harpak, A. A Litmus Test for Confounding in Polygenic Scores. bioRxiv. DOI: 10.1101/2025.02.01.635985 [pdf]
2017
- Berg JJ, Zhang X, Coop G. Polygenic Adaptation has Impacted Multiple Anthropometric Traits bioRxiv. DOI: 10.1101/167551 [pdf]
* note: this article has been left unpublished because analyses of an additional dataset after the initial preprint submission caused us to lose faith in the data on which its analyses were based. The Berg, Harpak, Sinnott-Armstrong et al (2019) paper listed above is a successor manuscript which examines these issues in depth. For more, see that paper, as well as the author's note in this preprint.