ZacharyA Szpiech

2025

Genomic signatures of adaptation in native lizards exposed to human-introduced fire ants

Assis, B. A., Sullivan, A. P., Marciniak, S., Bergey, C. M., Garcia, V., Szpiech, Z. A., Langkilde, T. & Perry, G. H., Dec 2025, In: Nature communications. 16, 1, 89.

Research output: Contribution to journal › Article › peer-review

Open Access

2024

Genomic Consequences of Isolation and Inbreeding in an Island Dingo Population

Leon-Apodaca, A. V., Kumar, M., Del Castillo, A., Conroy, G. C., Lamont, R. W., Ogbourne, S., Cairns, K. M., Borburgh, L., Behrendorff, L., Subramanian, S. & Szpiech, Z. A., Jul 1 2024, In: Genome biology and evolution. 16, 7, evae130.

Research output: Contribution to journal › Article › peer-review

Open Access

3 Scopus citations

Recently Delisted Songbird Harbors Extensive Genomic Evidence of Inbreeding, Potentially Complicating Future Recovery

Calderón, A. M., Wood, A. W., Szpiech, Z. A. & Toews, D. P. L., Dec 2024, In: Evolutionary Applications. 17, 12, e70052.

Research output: Contribution to journal › Article › peer-review

Open Access

Selscan 2.0: Scanning for sweeps in unphased data

Szpiech, Z. A., Jan 1 2024, In: Bioinformatics. 40, 1, btae006.

Research output: Contribution to journal › Article › peer-review

Open Access

19 Scopus citations

The complete sequence and comparative analysis of ape sex chromosomes

Makova, K. D., Pickett, B. D., Harris, R. S., Hartley, G. A., Cechova, M., Pal, K., Nurk, S., Yoo, D. A., Li, Q., Hebbar, P., McGrath, B. C., Antonacci, F., Aubel, M., Biddanda, A., Borchers, M., Bornberg-Bauer, E., Bouffard, G. G., Brooks, S. Y., Carbone, L. & Carrel, L. & 64 others, Carroll, A., Chang, P. C., Chin, C. S., Cook, D. E., Craig, S. J. C., de Gennaro, L., Diekhans, M., Dutra, A., Garcia, G. H., Grady, P. G. S., Green, R. E., Haddad, D., Hallast, P., Harvey, W. T., Hickey, G., Hillis, D. A., Hoyt, S. J., Jeong, H., Kamali, K., Pond, S. L. K., LaPolice, T. M., Lee, C., Lewis, A. P., Loh, Y. H. E., Masterson, P., McGarvey, K. M., McCoy, R. C., Medvedev, P., Miga, K. H., Munson, K. M., Pak, E., Paten, B., Pinto, B. J., Potapova, T., Rhie, A., Rocha, J. L., Ryabov, F., Ryder, O. A., Sacco, S., Shafin, K., Shepelev, V. A., Slon, V., Solar, S. J., Storer, J. M., Sudmant, P. H., Sweetalana, Sweeten, A., Tassia, M. G., Thibaud-Nissen, F., Ventura, M., Wilson, M. A., Young, A. C., Zeng, H., Zhang, X., Szpiech, Z. A., Huber, C. D., Gerton, J. L., Yi, S. V., Schatz, M. C., Alexandrov, I. A., Koren, S., O’Neill, R. J., Eichler, E. E. & Phillippy, A. M., Jun 13 2024, In: Nature. 630, 8016, p. 401-411 11 p.

Research output: Contribution to journal › Article › peer-review

Open Access

27 Scopus citations

The Maintenance of Deleterious Variation in Wild Chinese Rhesus Macaques

Steux, C. & Szpiech, Z. A., Jun 1 2024, In: Genome biology and evolution. 16, 6, evae115.

Research output: Contribution to journal › Article › peer-review

Open Access

2 Scopus citations

2023

A genetic and linguistic analysis of the admixture histories of the islands of Cabo Verde

Laurent, R., Szpiech, Z. A., da Costa, S. S., Thouzeau, V., Fortes-Lima, C. A., Dessarps-Freichey, F., Lémée, L., Utgé, J., Rosenberg, N. A., Baptista, M. & Verdu, P., Apr 25 2023, In: eLife. 12

Research output: Contribution to journal › Article › peer-review

Open Access

2 Scopus citations

A rarefaction approach for measuring population differences in rare and common variation

Cotter, D. J., Hofgard, E. F., Novembre, J., Szpiech, Z. A. & Rosenberg, N. A., Jun 2023, In: Genetics. 224, 2, iyad070.

Research output: Contribution to journal › Article › peer-review

Open Access

1 Scopus citations

Genomes of the extinct Bachman's warbler show high divergence and no evidence of admixture with other extant Vermivora warblers

Wood, A. W., Szpiech, Z. A., Lovette, I. J., Smith, B. T. & Toews, D. P. L., Jul 10 2023, In: Current Biology. 33, 13, p. 2823-2829.e4

Research output: Contribution to journal › Article › peer-review

Open Access

4 Scopus citations

2022

A spatially aware likelihood test to detect sweeps from haplotype distributions

DeGiorgio, M. & Szpiech, Z. A., Apr 11 2022, In: PLoS genetics. 18, 4, e1010134.

Research output: Contribution to journal › Article › peer-review

Open Access

14 Scopus citations

Evolution of genes involved in the unusual genitals of the bear macaque, Macaca arctoides

Stevison, L. S., Bailey, N. P., Szpiech, Z. A., Novak, T. E., Melnick, D. J., Evans, B. J. & Wall, J. D., May 2022, In: Ecology and Evolution. 12, 5, e8897.

Research output: Contribution to journal › Article › peer-review

Open Access

2 Scopus citations

2021

Application of a novel haplotype-based scan for local adaptation to study high-altitude adaptation in rhesus macaques

Szpiech, Z. A., Novak, T. E., Bailey, N. P. & Stevison, L. S., Aug 2021, In: Evolution Letters. 5, 4, p. 408-421 14 p.

Research output: Contribution to journal › Letter › peer-review

Open Access

39 Scopus citations

Sequencing of 53,831 diverse genomes from the NHLBI TOPMed Program

NHLBI Trans-Omics for Precision Medicine (TOPMed) Consortium, Feb 11 2021, In: Nature. 590, 7845, p. 290-299 10 p.

Research output: Contribution to journal › Article › peer-review

Open Access

1014 Scopus citations

2019

Ancestry-Dependent Enrichment of Deleterious Homozygotes in Runs of Homozygosity

Szpiech, Z. A., Mak, A. C. Y., White, M. J., Hu, D., Eng, C., Burchard, E. G. & Hernandez, R. D., Oct 3 2019, In: American Journal of Human Genetics. 105, 4, p. 747-762 16 p.

Research output: Contribution to journal › Article › peer-review

Open Access

30 Scopus citations

Association study in African-admixed populations across the Americas recapitulates asthma risk loci in non-African populations

CAAPA, Dec 1 2019, In: Nature communications. 10, 1, 880.

Research output: Contribution to journal › Article › peer-review

Open Access

72 Scopus citations

Author Correction: Association study in African-admixed populations across the Americas recapitulates asthma risk loci in non-African populations (Nature Communications, (2019), 10, 1, (880), 10.1038/s41467-019-08469-7)

CAAPA, Dec 1 2019, In: Nature communications. 10, 1, 4082.

Research output: Contribution to journal › Comment/debate › peer-review

Open Access

2 Scopus citations

2018

Human demographic history has amplified the effects of background selection across the genome

Torres, R., Szpiech, Z. A. & Hernandez, R. D., Jun 2018, In: PLoS genetics. 14, 6, e1007387.

Research output: Contribution to journal › Article › peer-review

Open Access

51 Scopus citations

Optimized distributed systems achieve significant performance improvement on sorted merging of massive VCF files

CAAPA consortium, Jun 1 2018, In: GigaScience. 7, 6, giy052.

Research output: Contribution to journal › Comment/debate › peer-review

Open Access

3 Scopus citations

Relationship between Deleterious Variation, Genomic Autozygosity, and Disease Risk: Insights from The 1000 Genomes Project

Pemberton, T. J. & Szpiech, Z. A., Apr 5 2018, In: American Journal of Human Genetics. 102, 4, p. 658-675 18 p.

Research output: Contribution to journal › Article › peer-review

Open Access

22 Scopus citations

Whole-Genome sequencing of pharmacogenetic drug response in racially diverse children with asthma

Mak, A. C. Y., White, M. J., Eckalbar, W. L., Szpiech, Z. A., Oh, S. S., Pino-Yanes, M., Hu, D., Goddard, P., Huntsman, S., Galanter, J., Chen Wu, A., Himes, B. E., Germer, S., Vogel, J. M., Bunting, K. L., Eng, C., Salazar, S., Keys, K. L., Liberto, J. & Nuckton, T. J. & 33 others, Nguyen, T. A., Torgerson, D. G., Kwok, P. Y., Levin, A. M., Celedón, J. C., Forno, E., Hakonarson, H., Sleiman, P. M., Dahlin, A., Tantisira, K. G., Weiss, S. T., Serebrisky, D., Brigino-Buenaventura, E., Farber, H. J., Meade, K., Lenoir, M. A., Avila, P. C., Sen, S., Thyne, S. M., Rodriguez-Cintron, W., Winkler, C. A., Moreno-Estrada, A., Sandoval, K., Rodriguez-Santana, J. R., Kumar, R., Keoki Williams, L., Ahituv, N., Ziv, E., Seibold, M. A., Darnell, R. B., Zaitlen, N., Hernandez, R. D. & Burchard, E. G., Jun 15 2018, In: American journal of respiratory and critical care medicine. 197, 12, p. 1552-1564 13 p.

Research output: Contribution to journal › Article › peer-review

Open Access

87 Scopus citations

2017

Cancer-associated arginine-to-histidine mutations confer a gain in pH sensing to mutant proteins

White, K. A., Ruiz, D. G., Szpiech, Z. A., Strauli, N. B., Hernandez, R. D., Jacobson, M. P. & Barber, D. L., Sep 5 2017, In: Science signaling. 10, 495, eaam9931.

Research output: Contribution to journal › Article › peer-review

Open Access

54 Scopus citations

GARLIC: Genomic Autozygosity Regions Likelihood-based Inference and Classification

Szpiech, Z. A., Blant, A. & Pemberton, T. J., Jul 1 2017, In: Bioinformatics. 33, 13, p. 2059-2062 4 p.

Research output: Contribution to journal › Article › peer-review

Open Access

25 Scopus citations

Identifying tagging SNPs for African specific genetic variation from the African Diaspora Genome

Consortia CAAPA Consortium, 2017, In: Scientific reports. 7, 46398.

Research output: Contribution to journal › Article › peer-review

Open Access

26 Scopus citations

Prominent features of the amino acid mutation landscape in cancer

Szpiech, Z. A., Strauli, N. B., White, K. A., Ruiz, D. G., Jacobson, M. P., Barber, D. L. & Hernandez, R. D., Aug 2017, In: PloS one. 12, 8, e0183273.

Research output: Contribution to journal › Article › peer-review

Open Access

29 Scopus citations

Using genotype array data to compare multi- and single-sample variant calls and improve variant call sets from deep coverage whole-genome sequencing data

Shringarpure, S. S., Mathias, R. A., Hernandez, R. D., O'Connor, T. D., Szpiech, Z. A., Torres, R., De La Vega, F. M., Bustamante, C. D., Barnes, K. C. & Taub, M. A., Apr 15 2017, In: Bioinformatics. 33, 8, p. 1147-1153 7 p.

Research output: Contribution to journal › Article › peer-review

Open Access

4 Scopus citations

Weighted likelihood inference of genomic autozygosity patterns in dense genotype data

Blant, A., Kwong, M., Szpiech, Z. A. & Pemberton, T. J., Dec 1 2017, In: BMC genomics. 18, 1, 928.

Research output: Contribution to journal › Article › peer-review

Open Access

6 Scopus citations

2016

Genetic Ancestry and Natural Selection Drive Population Differences in Immune Responses to Pathogens

Nédélec, Y., Sanz, J., Baharian, G., Szpiech, Z. A., Pacis, A., Dumaine, A., Grenier, J. C., Freiman, A., Sams, A. J., Hebert, S., Pagé Sabourin, A., Luca, F., Blekhman, R., Hernandez, R. D., Pique-Regi, R., Tung, J., Yotova, V. & Barreiro, L. B., Oct 20 2016, In: Cell. 167, 3, p. 657-669.e21

Research output: Contribution to journal › Article › peer-review

Open Access

337 Scopus citations

Selective Sweeps

Szpiech, Z. A. & Hernandez, R. D., Apr 14 2016, Encyclopedia of Evolutionary Biology. Elsevier Inc., p. 23-32 10 p.

Research output: Chapter in Book/Report/Conference proceeding › Chapter

2 Scopus citations

2014

Selscan: An efficient multithreaded program to perform EHH-based scans for positive selection

Szpiech, Z. A. & Hernandez, R. D., Oct 1 2014, In: Molecular biology and evolution. 31, 10, p. 2824-2827 4 p.

Research output: Contribution to journal › Article › peer-review

Open Access

494 Scopus citations

2013

High-resolution network biology: Connecting sequence with function

Ryan, C. J., Cimermančič, P., Szpiech, Z. A., Sali, A., Hernandez, R. D. & Krogan, N. J., Dec 2013, In: Nature Reviews Genetics. 14, 12, p. 865-879 15 p.

Research output: Contribution to journal › Review article › peer-review

Open Access

69 Scopus citations

Long runs of homozygosity are enriched for deleterious variation

Szpiech, Z. A., Xu, J., Pemberton, T. J., Peng, W., Zöllner, S., Rosenberg, N. A. & Li, J. Z., Jul 11 2013, In: American Journal of Human Genetics. 93, 1, p. 90-102 13 p.

Research output: Contribution to journal › Article › peer-review

Open Access

210 Scopus citations

2011

On the size distribution of private microsatellite alleles

Szpiech, Z. A. & Rosenberg, N. A., Sep 2011, In: Theoretical Population Biology. 80, 2, p. 100-113 14 p.

Research output: Contribution to journal › Article › peer-review

Open Access

57 Scopus citations

2010

Comparing spatial maps of human population-genetic variation using procrustes analysis

Wang, C., Szpiech, Z. A., Degnan, J. H., Jakobsson, M., Pemberton, T. J., Hardy, J. A., Singleton, A. B. & Rosenberg, N. A., 2010, In: Statistical Applications in Genetics and Molecular Biology. 9, 1, 13.

Research output: Contribution to journal › Article › peer-review

Open Access

101 Scopus citations

Genome-wide association studies in diverse populations

Rosenberg, N. A., Huang, L., Jewett, E. M., Szpiech, Z. A., Jankovic, I. & Boehnke, M., May 2010, In: Nature Reviews Genetics. 11, 5, p. 356-366 11 p.

Research output: Contribution to journal › Review article › peer-review

Open Access

463 Scopus citations

2008

ADZE: A rarefaction approach for counting alleles private to combinations of populations

Szpiech, Z. A., Jakobsson, M. & Rosenberg, N. A., Nov 2008, In: Bioinformatics. 24, 21, p. 2498-2504 7 p.

Research output: Contribution to journal › Article › peer-review

Open Access

576 Scopus citations

Genotype, haplotype and copy-number variation in worldwide human populations

Jakobsson, M., Scholz, S. W., Scheet, P., Gibbs, J. R., VanLiere, J. M., Fung, H. C., Szpiech, Z. A., Degnan, J. H., Wang, K., Guerreiro, R., Bras, J. M., Schymick, J. C., Hernandez, D. G., Traynor, B. J., Simon-Sanchez, J., Matarin, M., Britton, A., Van De Leemput, J., Rafferty, I. & Bucan, M. & 4 others, Cann, H. M., Hardy, J. A., Rosenberg, N. A. & Singleton, A. B., Feb 21 2008, In: Nature. 451, 7181, p. 998-1003 6 p.

Research output: Contribution to journal › Article › peer-review

Open Access

682 Scopus citations

ZacharyA Szpiech

Research output

Search results