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Rosenberg lab peer-reviewed publications
[1999-2005] [2006-2010] [2011-2015] [2016-2020] [Review articles]
L Agranat-Tamir, M Fuchs, B Gittenberger, NA Rosenberg (2024). Asymptotic enumeration of rooted binary unlabeled galled trees with a fixed number of galls. In C. Mailler, S. Wild, eds. Proceedings of the 35th International Conference on Probabilistic, Combinatorial and Asymptotic Methods for the Analysis of Algorithms (AofA 2024). Leibniz International Proceedings in Informatics (LIPIcs) 302: 27. Schloss Dagstuhl — Leibniz-Zentrum für Informatik. [Abstract] [PDF]
M Doboli, H-K Hwang, NA Rosenberg. Periodic behavior of the minimal Colijn-Plazzotta rank for trees with a fixed number of leaves. In C. Mailler, S. Wild, eds. Proceedings of the 35th International Conference on Probabilistic, Combinatorial and Asymptotic Methods for the Analysis of Algorithms (AofA 2024). Leibniz International Proceedings in Informatics (LIPIcs) 302: 18 (2024). Schloss Dagstuhl — Leibniz-Zentrum für Informatik. [Abstract] [PDF]
L Agranat-Tamir, JA Mooney, NA Rosenberg (2024) Counting the genetic ancestors from source populations in members of an admixed population. Genetics 226: iyae011. [Abstract] [PDF] [Supplement]
L Agranat-Tamir, S Mathur, NA Rosenberg (2024) Enumeration of rooted binary unlabeled galled trees. Bulletin of Mathematical Biology 86: 45. [Abstract] [PDF]
TD Gress, NA Rosenberg (2024) Mathematical constraints on a family of biodiversity measures via connections with Rényi entropy. BioSystems 237: 105153. [Abstract] [PDF]
DJ Cotter, AL Severson, JTL Kang, HN Godrej, S Carmi, NA Rosenberg (2024) Modeling the effects of consanguinity on autosomal and X-chromosomal runs of homozygosity and identity-by-descent sharing. G3: Genes, Genomes, Genetics 14: jkad264. [Abstract] [PDF] [Supplement]
E Lappo, NA Rosenberg (2024) Solving the Arizona search problem by imputation. iScience 27: 108831. [Abstract] [PDF] [Supplement]
X Liu, NM Kopelman, NA Rosenberg (2024) Clumppling: cluster matching and permutation program with integer linear programming. Bioinformatics 40: btad751. [Abstract] [PDF] [Supplement]
E Lappo, NA Rosenberg (2024) A lattice structure for ancestral configurations arising from the relationship between gene trees and species trees. Discrete Applied Mathematics 343: 65-81. [Abstract] [PDF]
ARP Maranca, NA Rosenberg (2024) Bijections between the multifurcating unlabeled rooted trees and the positive integers. Advances in Applied Mathematics 153: 102612. [Abstract] [PDF]
F Disanto, M Fuchs, C-Y Huang, AR Paningbatan, NA Rosenberg (2024) The distributions under two species-tree models of the total number of ancestral configurations for matching gene trees and species trees. Advances in Applied Mathematics 152: 102594. [Abstract]
MC King, NA Rosenberg (2023) A mathematical connection between single-elimination sports tournaments and evolutionary trees. Mathematics Magazine 96: 484-497. [Abstract] [PDF]
X Liu, Z Ahsan, TK Martheswaran, NA Rosenberg (2023) When is the allele-sharing dissimilarity between two populations exceeded by the allele-sharing dissimilarity of a population with itself? Statistical Applications in Genetics and Molecular Biology 22: 2023004. [Abstract] [PDF]
E Lappo, NA Rosenberg, MW Feldman (2023) Cultural transmission of move choice in chess. Proceedings of the Royal Society B: Biological Sciences 290: 37964528. [Abstract] [PDF] [Supplement]
J Kim, NA Rosenberg (2023) Record-matching of STR profiles with fragmentary genomic SNP data. European Journal of Human Genetics 31: 1283-1290. [Abstract] [PDF] [Supplement]
ML Morrison, NA Rosenberg (2023) Mathematical bounds on Shannon entropy given the abundance of the ith most abundant taxon. Journal of Mathematical Biology 87: 76. [Abstract] [PDF] [Supplement]
X Liu, NM Kopelman, NA Rosenberg (2023) A Dirichlet model of alignment cost in mixed-membership unsupervised clustering. Journal of Computational and Graphical Statistics 32: 1145-1159. [Abstract] [PDF] [Supplement]
JA Mooney, L Agranat-Tamir, JK Pritchard, NA Rosenberg (2023) On the number of genealogical ancestors tracing to the source groups of an admixed population. Genetics 224: iyad079. [Abstract] [PDF] [Supplement]
R Laurent, ZA Szpiech, SS da Cosa, V Thouzeau, CA Fortes-Lima, F Dessarps-Freichey, L Lémée, J Utgé, NA Rosenberg, M Baptista, P Verdu (2023) A genetic and linguistic analysis of the admixture histories of the islands of Cabo Verde. eLife 12: e79827. [Abstract] [PDF]
DJ Cotter, EF Hofgard, J Novembre, ZA Szpiech, NA Rosenberg (2023) A rarefaction approach for measuring population differences in rare and common variation. Genetics 224: iyad070. [Abstract] [PDF] [Supplement]
S Mathur, NA Rosenberg (2023) All galls are divided into three or more parts: recursive enumeration of labeled histories for galled trees. Algorithms for Molecular Biology 18:1. [Abstract] [PDF]
F Disanto, M Fuchs, AR Paningbatan, NA Rosenberg (2022) The distributions under two species-tree models of the number of root ancestral configurations for matching gene trees and species trees. Annals of Applied Probability 32: 4426-4458. [Abstract] [PDF]
E Lappo, NA Rosenberg (2022) Approximations to the expectations and variances of ratios of tree properties under the coalescent. G3: Genes, Genomes, Genetics 12: jkac205. [Abstract] [PDF]
NA Rosenberg (2022) Mendel of mathematics. Notices of the American Mathematical Society 69: 1564-1565. [PDF]
ML Morrison, N Alcala, NA Rosenberg (2022) FSTruct: an FST-based tool for measuring ancestry variation in inference of population structure. Molecular Ecology Resources 22: 2614-2626. [Abstract] [PDF] [Supplement]
DJ Cotter, AL Severson, S Carmi, NA Rosenberg (2022) Limiting distribution of X-chromosomal coalescence times under first-cousin consanguineous mating. Theoretical Population Biology 147: 1-15. [Abstract]
RS Mehta, M Steel, NA Rosenberg (2022) The probability of joint monophyly of samples of gene lineages for all species in an arbitrary species tree. Journal of Computational Biology 27: 679-703. [Abstract]
X Liu, NA Rosenberg, G Greenbaum (2022) Extracting hierarchical features of cultural variation using network-based clustering. Evolutionary Human Sciences 4: e18. [Abstract] [PDF] [Supplement] [Supplementary code] [Supplementary data]
JA Palacios, A Bhaskar, F Disanto, NA Rosenberg (2022) Enumeration of binary trees compatible with a perfect phylogeny. Journal of Mathematical Biology 84: 54. [Abstract] [PDF]
N Alcala, NA Rosenberg (2022) Mathematical constraints on FST: multiallelic markers in arbitrarily many populations. Philosophical Transactions of the Royal Society B: Biological Sciences 377: 20200414. [Abstract] [PDF] [Supplement]
AL Severson, BF Byrd, EK Mallott, AC Owings, M DeGiorgio, A de Flamingh, C, Nijmeh, MV Arellano, A Leventhal, NA Rosenberg, RS Malhi (2022) Ancient and modern genomics of the Ohlone Indigenous population of California. Proceedings of the National Academy of Sciences USA 119: e2111533119. [Abstract] [PDF] [Supplement]
E Alimpiev, NA Rosenberg (2022) A compendium of covariances and correlation coefficients of coalescent tree properties. Theoretical Population Biology 143: 1-13. [Abstract] [PDF]
MC King, NA Rosenberg (2021) A simple derivation of the mean of the Sackin index of tree balance under the uniform model on rooted binary labeled trees. Mathematical Biosciences 342: 108688. [PDF]
E Alimpiev, NA Rosenberg (2021) Enumeration of coalescent histories for caterpillar species trees and p-pseudocaterpillar gene trees. Advances in Applied Mathematics 131: 102265. [Abstract] [PDF]
DJ Cotter, AL Severson, NA Rosenberg (2021) The effect of consanguinity on coalescence times on the X chromosome. Theoretical Population Biology 140: 32-43. [Abstract]
AL Severson, S Carmi, NA Rosenberg (2021) Variance and
limiting distribution of coalescence times in a diploid model of a
consanguineous population. Theoretical Population Biology 139:
50-65. [Abstract]
J Kim, MD Edge, A Goldberg, NA Rosenberg
(2021) Skin deep: the decoupling of genetic admixture levels from
phenotypes that differed between source populations. American
Journal of Physical Anthropology 175: 406-421 (2021).
[Abstract]
G Greenbaum, MW Feldman, NA Rosenberg, J
Kim (2021) Designing gene drives to limit spillover to non-target
populations. PLoS Genetics 17: e1009278.
[Abstract]
[PDF]
[Supplement]
A Harpak, N Garud, NA Rosenberg, DA Petrov, M Combs,
PS Pennings, J Munshi-South (2021) Genetic adaptation in New York City
rats. Genome Biology and Evolution 13: evaa247.
[Abstract]
[PDF]
[Supplement]
NA Rosenberg (2021) On the Colijn-Plazzotta numbering scheme for
unlabeled binary rooted trees. Discrete Applied Mathematics 291:
88-98. [Abstract]
[PDF]
SM Boca, L Huang, NA Rosenberg (2020) On the
heterozygosity of an admixed population. Journal of Mathematical
Biology 81: 1217-1250.
[Abstract]
J Kim, NA Rosenberg, JA Palacios (2020) Distance metrics
for ranked evolutionary trees. Proceedings of the National Academy
of Sciences USA 117: 28876-28886.
[Abstract]
[PDF]
[Supplement]
AL Fortier, J Kim, NA Rosenberg (2020) Human-genetic
ancestry inference and false positives in forensic familial
searching. G3: Genes, Genomes, Genetics 10: 2893-2902.
[Abstract]
[PDF]
[Supplement]
A Goldberg, A Rastogi, NA Rosenberg (2020)
Assortative mating by population of origin in a mechanistic model of
admixture. Theoretical Population Biology 134: 129-146.
[Abstract]
RS Mehta, NA Rosenberg (2020) Modelling anti-vaccine
sentiment as a cultural pathogen. Evolutionary Human
Sciences 2: e21.
[Abstract]
[PDF]
[Supplement]
IM Arbisser, NA Rosenberg (2020) FST
and the triangle inequality for biallelic markers. Theoretical
Population Biology 133: 117-129.
[Abstract]
NM Kopelman, L Stone, DG Hernandez, D Gefel, AB Singleton, E
Heyer, MW Feldman, J Hillel, NA Rosenberg (2020) High-resolution
inference of genetic relationships among Jewish
populations. European Journal of Human Genetics 28: 804-814.
[Abstract]
A Kim, NA Rosenberg, JH Degnan (2020) Probabilities
of unranked and ranked anomaly zones under birth-death models.
Molecular Biology and Evolution 37: 1480-1494.
[Abstract]
NA Rosenberg, DM Zulman (2020) Measures of care fragmentation:
mathematical insights from population genetics.
Health Services Research 55: 318-327.
[Abstract]
ZM Himwich, NA Rosenberg (2020) Roadblocked monotonic
paths and the enumeration of coalescent histories for non-matching
caterpillar gene trees and species trees. Advances in Applied
Mathematics 113: 101939.
[Abstract]
JTL Kang, NA Rosenberg (2019) Mathematical properties
of linkage disequilibrium statistics defined by normalization of the
coefficient
D=pAB-pApB. Human
Heredity 84: 127-143.
[Abstract]
[PDF]
G Greenbaum, A Rubin, AR Templeton, NA Rosenberg
(2019) Network-based hierarchical population structure
analysis for large genomic datasets. Genome Research
29: 2020-2033.
[Abstract]
[PDF]
[Supplement]
G Greenbaum, WM Getz, NA Rosenberg, MW Feldman, E Hovers, O
Kolodny (2019) Disease transmission and introgression can explain the
long-lasting contact zone of modern humans and Neanderthals. Nature
Communications 10: 5003.
[Abstract]
[PDF]
[Supplement]
RS Mehta, NA Rosenberg (2019) The probability of
reciprocal monophyly of gene lineages in three and four
species. Theoretical Population Biology 129: 133-147.
[Abstract]
[PDF]
N Alcala, A Goldberg, U Ramakrishnan, NA Rosenberg
(2019) Coalescent theory of migration network motifs. Molecular
Biology and Evolution 36: 2358-2374.
[Abstract]
[PDF]
[Supplement]
RS Mehta, AF Feder, SM Boca, NA Rosenberg (2019) The
relationship between haplotype-based FST and
haplotype length. Genetics 213: 281-295.
[Abstract]
[PDF]
[Supplementary
Figure 1]
[Supplementary
Figure
2]
[Supplementary
Figure
3]
[Supplementary
Figure
4]
N Alcala, AE Launer, MF Westphal, R Seymour, EM Cole*, NA
Rosenberg* (2019) Use of stochastic patch occupancy models in the
California red-legged frog for Bayesian inference regarding past events
and future persistence. Conservation Biology 33: 685-696.
[Abstract]
[PDF]
[Supplement]
[Data
and Software]
AL Severson, S Carmi, NA Rosenberg (2019)
The effect of consanguinity on between-individual identity-by-descent
sharing. Genetics 212: 305-316.
[Abstract]
[PDF]
N Alcala, NA Rosenberg
(2019) G'ST, Jost's D,
and FST are similarly constrained by allele
frequencies: a mathematical, simulation, and empirical
study. Molecular Ecology 28: 1624-1636.
[Abstract]
[PDF]
[Supplement]
F Disanto, NA Rosenberg (2019) Enumeration of compact
coalescent histories for matching gene trees and species
trees. Journal of Mathematical Biology 78: 155-188.
[Abstract]
[PDF]
NA Rosenberg, MD Edge, JK Pritchard, MW Feldman (2019)
Interpreting polygenic scores, polygenic adaptation, and human phenotypic
differences. Evolution, Medicine, and Public Health 2019: 26-34.
[Abstract]
[PDF]
J Kim, F Disanto, NM Kopelman, NA
Rosenberg (2019) Mathematical and simulation-based analysis of the
behavior of admixed taxa in the neighbor-joining
algorithm. Bulletin of Mathematical Biology 81: 452-493.
[Abstract]
[PDF]
F Disanto, NA Rosenberg (2019) On the number of
non-equivalent ancestral configurations for matching gene trees and
species trees. Bulletin of Mathematical Biology 81: 384-407.
[Abstract]
[PDF]
NA Rosenberg (2019) Enumeration of lonely pairs of gene trees
and species trees by means of antipodal cherries. Advances in
Applied Mathematics 102:
1-17. [Abstract]
[PDF]
J Kim, MD Edge, BFB Algee-Hewitt, JZ Li, NA
Rosenberg (2018) Statistical detection of relatives typed with
disjoint forensic and biomedical loci. Cell 175: 848-858.
[Abstract]
[PDF]
[Supplement]
[Code]
AJ Aw, NA Rosenberg (2018) Bounding measures of
genetic similarity and diversity using majorization. Journal of
Mathematical Biology 77: 711-737.
[Abstract]
[PDF]
A Goldberg, LH Uricchio, NA Rosenberg (2018)
Natural selection in human populations. Oxford Bibliographies in
Evolutionary Biology doi:10.1093/OBO/9780199941728-0112.
[PDF]
NA Rosenberg (2018) Variance-partitioning and classification
in human population genetics. In RG Winther, ed. Phylogenetic
Inference, Selection Theory, and History of Science: Selected Papers
of A. W. F. Edwards with Commentaries, pp. 399-403. Cambridge:
Cambridge University Press.
[PDF]
TJ Pemberton*, P Verdu*, NS Becker, CJ Willer, BS
Hewlett, S Le Bomin, A Froment, NA Rosenberg, E Heyer (2018) A
genome scan for genes underlying adult body size differences between
Central African hunter-gatherers and farmers. Human Genetics 137:
487-509.
[Abstract]
[PDF]
[Supplement]
IM Arbisser, EM Jewett, NA Rosenberg (2018) On
the joint distribution of tree height and tree length under the
coalescent. Theoretical Population Biology 122: 46-56.
[Abstract]
[PDF]
F Disanto, NA Rosenberg (2017) Enumeration of ancestral
configurations for matching gene trees and species trees. Journal of
Computational Biology 24: 831-850.
[Abstract]
[PDF]
P Verdu*, EM Jewett*, TJ Pemberton, NA
Rosenberg, M Baptista (2017) Parallel trajectories of genetic and
linguistic admixture in a genetically admixed creole
population. Current Biology 27: 2529-2535.
[Abstract]
[PDF]
[Supplement]
OK Kamneva, J Syring, A Liston, NA Rosenberg (2017)
Evaluating allopolyploid origins in strawberries (Fragaria)
using haplotypes generated from target capture sequencing. BMC
Evolutionary Biology 17: 180.
[Abstract]
[PDF]
[File S1 Table S1]
[File S2 Sequences]
[File S3 Table S2]
[File S4 Figures S1-S11]
[File S5 Table S3]
[File S6 R code]
N Alcala, NA Rosenberg (2017) Mathematical
constraints on FST: biallelic markers in
arbitrarily many populations.
Genetics 206: 1581-1600.
[Abstract]
[PDF]
[File
S1]
[File
S2]
MD Edge, BFB Algee-Hewitt, TJ Pemberton, JZ
Li, NA Rosenberg (2017) Linkage disequilibrium matches forensic
genetic records to disjoint genomic marker sets.
Proceedings of the National Academy of Sciences USA 114: 5671-5676.
[Abstract]
[PDF]
[Supplement]
A Goldberg, T Günther, NA Rosenberg, M Jakobsson
(2017) Robust model-based inference of male-biased admixture during
Bronze Age migration from the Pontic-Caspian Steppe.
Proceedings of the National Academy of Sciences USA 114:
E3875-E3877.
[PDF]
A Goldberg, T Günther, NA Rosenberg, M Jakobsson
(2017) Ancient X chromosomes reveal contrasting sex bias in Neolithic
and Bronze Age migrations. Proceedings of the National Academy of
Sciences USA 114: 2657-2662.
[Abstract]
[PDF]
[Supplement]
OK Kamneva, NA Rosenberg (2017) Simulation-based
evaluation of hybridization network reconstruction methods in the presence
of incomplete lineage sorting. Evolutionary Bioinformatics 13:
1176934317691935.
[Abstract]
[PDF]
[Supplement]
JTL Kang, A Goldberg, MD Edge, DM Behar, NA
Rosenberg (2016) Consanguinity rates predict long runs of
homozygosity in Jewish populations. Human Heredity 82:
87-102.
[Abstract]
[PDF]
LH Uricchio, T Warnow, NA Rosenberg (2016) An analytical
upper bound on the number of loci required for all splits of a species
tree to appear in a set of gene trees. BMC Bioinformatics 17:
417.
[Abstract]
[PDF]
F Disanto, NA Rosenberg (2016) Asymptotic properties of
the number of matching coalescent histories for caterpillar-like
families of species trees.
IEEE/ACM Transactions on Computational Biology and Bioinformatics
13: 913-925.
[Abstract]
[PDF]
RS Mehta, D Bryant, NA Rosenberg (2016) The probability
of monophyly of a sample of gene lineages on a species
tree. Proceedings of the National Academy of Sciences USA 113:
8002-8009.
[Abstract]
[PDF]
[Supplement]
[Software]
T Stadler, JH Degnan, NA Rosenberg (2016) Does gene tree
discordance explain the mismatch between macroevolutionary models and
empirical patterns of tree shape and branching times?
Systematic Biology 65: 628-639.
[Abstract]
[PDF]
[Supplement]
M DeGiorgio, NA Rosenberg (2016) Consistency and
inconsistency of consensus methods for inferring species trees from gene
trees in the presence of ancestral population structure.
Theoretical Population Biology 110: 12-24.
[Abstract]
[PDF]
BFB Algee-Hewitt*, MD Edge*, J Kim, JZ Li, NA
Rosenberg (2016) Individual identifiability predicts population
identifiability in forensic microsatellite markers. Current
Biology 26: 935-942.
[Abstract]
[PDF]
[Supplement]
NA Rosenberg (2016) Admixture models and the breeding systems of
H. S. Jennings: a GENETICS connection. Genetics 202:
9-13.
[PDF]
MD Edge, NA Rosenberg (2015) A general model of the
relationship between the apportionment of human genetic diversity and
the apportionment of human phenotypic diversity. Human Biology
87: 313-337.
[Abstract]
[PDF]
JTL Kang, P Zhang, S Zöllner, NA Rosenberg (2015)
Choosing subsamples for sequencing studies by minimizing the average distance
to the closest leaf. Genetics 201: 499-511.
[Abstract]
[PDF]
F Disanto, NA Rosenberg (2015) Coalescent histories for
lodgepole species trees. Journal of Computational Biology 22:
918-929.
[Abstract]
[PDF]
R Ronen*, G Tesler*, A Akbari*, S Zakov, NA Rosenberg, V Bafna
(2015) Predicting carriers of ongoing selective sweeps without knowledge
of the favored allele. PLoS Genetics 11: e1005527.
[Abstract]
[PDF]
[Supplement]
A Goldberg, NA Rosenberg (2015) Beyond 2/3 and 1/3: the
complex signatures of sex-biased admixture on the X
chromosome. Genetics 201: 263-279.
[Abstract]
[PDF]
NA Rosenberg, JTL Kang (2015) Genetic diversity and
societally important disparities. Genetics 201: 1-12.
[Abstract]
[PDF]
[Supplement]
NM Kopelman, J Mayzel, M Jakobsson, NA Rosenberg,
I Mayrose (2015) CLUMPAK: a program for identifying clustering modes and
packaging population structure inferences
across K. Molecular Ecology Resources 15: 1179-1191.
[Abstract]
[PDF]
[Supplement]
[Software]
MD Edge, NA Rosenberg (2015) Implications of the
apportionment of human genetic diversity for the apportionment of human
phenotypic diversity. Studies in History and Philosophy of
Biological and Biomedical Sciences 52: 32-45.
[Abstract]
[PDF]
NR Garud, NA Rosenberg (2015) Enhancing the mathematical
properties of new haplotype homozygosity statistics for the detection of
selective sweeps. Theoretical Population Biology 102: 94-101.
[Abstract]
[PDF]
N Creanza, M Ruhlen, T Pemberton, NA Rosenberg, MW
Feldman, S Ramachandran (2015) Comparison of worldwide phonemic and
genetic variation in human populations. Proceedings of the National
Academy of Sciences USA 112: 1265-1272.
[Abstract]
[PDF]
[Supplementary
Appendix]
[Supplementary
Data S1]
[Supplementary
Data S2]
[Supplementary
Data S3]
EO Buzbas, NA Rosenberg (2015) AABC: approximate
approximate Bayesian computation for inference in population-genetic
models. Theoretical Population Biology 99: 31-42.
[Abstract]
[PDF]
F Disanto, NA Rosenberg (2014) On the number of ranked
species trees producing anomalous ranked gene trees. IEEE/ACM
Transactions on Computational Biology and Bioinformatics 11:
1229-1238.
[Abstract]
[PDF]
A Goldberg, P Verdu, NA Rosenberg (2014) Autosomal
admixture levels are informative about sex bias in admixed populations.
Genetics 198: 1209-1229.
[Abstract]
[PDF]
MD Edge, NA Rosenberg (2014) Upper bounds
on FST in terms of the frequency of the most
frequent allele and total homozygosity: the case of a specified number
of alleles. Theoretical Population Biology 97: 20-34.
[Abstract]
[PDF]
P Verdu, TJ Pemberton, R Laurent, BM Kemp, A Gonzalez-Oliver,
C Gorodezky, CE Hughes, MR Shattuck, B Petzelt, J Mitchell, H Harry, T
William, R Worl, JS Cybulski, NA Rosenberg, RS
Malhi (2014) Patterns of admixture and population structure in native
populations of northwest North America. PLoS Genetics 10: e1004530.
[Abstract]
[PDF]
[Supplement]
TJ Pemberton, NA Rosenberg (2014) Population-genetic
influences on genomic estimates of the inbreeding coefficient: a global
perspective. Human Heredity 77: 37-48.
[Abstract]
[PDF]
[Supplementary
Figure 1]
[Supplementary
Figure 2]
[Supplementary
Table
1]
[Supplementary
Table 2]
[Supplementary
Table 3]
CV Than, NA Rosenberg (2014) Mean deep coalescence cost
under exchangeable probability distributions. Discrete Applied
Mathematics 174: 11-26.
[Abstract]
[PDF]
M DeGiorgio, J Syring, AJ Eckert, AI Liston, R Cronn, DB
Neale, NA Rosenberg (2014) An empirical evaluation of two-stage
species tree inference strategies using a multilocus dataset from North
American pines. BMC Evolutionary Biology 14: 67.
[Abstract]
[PDF]
[Supplementary
File 1 (.xlsx, accession numbers)]
[Supplementary
File 2 (.pdf, supplementary analyses)]
[Supplementary
File 3 (.zip, data)]
EM Jewett, NA Rosenberg (2014) Theory and applications of
a deterministic approximation to the coalescent model. Theoretical
Population Biology 93: 14-29.
[Abstract]
[PDF]
DM Behar*, M Metspalu*, Y Baran, NM Kopelman, B Yunusbayev, A
Gladstein, S Tzur, H Sahakyan, A Bahmanimehr, L Yepiskoposyan, K Tambets,
EK Khusnutdinova, A Kushniarevich, O Balanovsky, E Balanovsky, L
Kovacevic, D Marjanovic, E Mihailov, A Kouvatsi, C Triantaphyllidis, RJ
King, O Semino, A Torroni, MF Hammer, E Metspalu, K Skorecki, S Rosset, E
Halperin, R Villems, NA Rosenberg (2013) No evidence from
genome-wide data of a Khazar origin for the Ashkenazi Jews. Human
Biology 85: 859-900.
[Abstract]
[PDF]
PJ Oefner, G Hölzl, P Shen, I Shpirer, D Gefel, T Lavi, E
Woolf, J Cohen, C Cinnioglu, PA Underhill, NA Rosenberg, J Hochrein,
JM Granka, J Hillel, MW Feldman (2013) Genetics and the history of the
Samaritans: Y-chromosomal microsatellites and genetic affinity between
Samaritans and Cohanim. Human Biology 85: 825-857.
[Abstract]
[PDF]
NA Rosenberg (2013) Coalescent histories for caterpillar-like
families. IEEE/ACM Transactions on Computational Biology and
Bioinformatics 10:
1253-1262. [Abstract]
[PDF]
MD Edge, P Gorroochurn, NA Rosenberg (2013) Windfalls and
pitfalls: applications of population genetics to the search for disease
genes. Evolution, Medicine, and Public Health 2013: 254-272.
[Abstract]
[Full-text
at journal website]
[PDF]
NA Rosenberg (2013) Discordance of species trees with their most
likely gene trees: a unifying principle. Molecular Biology and
Evolution 30: 2709-2713.
[Abstract]
[Full-text
at journal website]
[PDF]
P Zhang, X Zhan, NA Rosenberg, S Zöllner (2013) Genotype
imputation reference panel selection using maximal phylogenetic
diversity. Genetics 195: 319-330.
[Abstract]
[PDF]
NA Rosenberg, TJ Pemberton, JZ Li, JW Belmont (2013) Runs
of homozygosity and parental relatedness. Genetics in Medicine
15: 753-754. [PDF]
L Huang, EO Buzbas, NA Rosenberg (2013) Genotype
imputation in a coalescent model with infinitely-many-sites mutation.
Theoretical Population Biology 87: 62-74.
[Abstract]
[PDF]
ZA Szpiech, J Xu, TJ Pemberton, W Peng, S
Zöllner, NA Rosenberg, JZ Li (2013) Long runs of homozygosity
are enriched for deleterious variation. American Journal of Human
Genetics 93: 90-102.
[Abstract]
[PDF]
[Supplement]
[Data]
TJ Pemberton, M DeGiorgio, NA Rosenberg (2013)
Population structure in a comprehensive data set on human microsatellite
variation. G3: Genes, Genomes, Genetics 3: 891-907.
[Abstract]
[Full-text at
journal website]
[PDF]
[Supplement]
[Data
(.zip) - File S1]
CV Than, NA Rosenberg (2013) Mathematical properties of
the deep coalescence cost. IEEE/ACM Transactions on Computational
Biology and Bioinformatics 10: 61-72.
[Abstract]
[PDF]
M Jakobsson, MD Edge, NA Rosenberg (2013) The
relationship between FST and the frequency of the
most frequent allele.
Genetics 193: 515-528.
[Abstract]
[PDF]
M DeGiorgio, NA Rosenberg (2013) Geographic sampling
scheme as a determinant of the major axis of genetic variation in
principal components analysis. Molecular Biology and Evolution
30:
480-488. [Abstract]
[PDF]
NM Kopelman, L Stone, O Gascuel, NA Rosenberg (2013) The
behavior of admixed populations in neighbor-joining inference of
population trees. Pacific Symposium on Biocomputing 18:
273-284. [Abstract]
[PDF]
JH Degnan, NA Rosenberg, T Stadler (2012) A characterization
of the set of species trees that produce anomalous ranked gene trees.
IEEE/ACM Transactions on Computational Biology and Bioinformatics
9: 1558-1568.
[Abstract]
[PDF]
EO Buzbas (2012) On the article titled "Estimating species trees
using approximate Bayesian computation" (Fan and Kubatko, Molecular
Phylogenetics and Evolution 59:354-363). Molecular
Phylogenetics and Evolution 65: 1014-1016 (2012).
[PDF]
C Wang, KB Schroeder, NA Rosenberg (2012) A
maximum-likelihood method to correct for allelic dropout in microsatellite
data with no replicate genotypes. Genetics 192: 651-669.
[Abstract]
[Full-text at
journal website]
[PDF]
[Supplement]
[Software]
C Wang, S Zöllner, NA Rosenberg (2012) A quantitative
comparison of the similarity between genes and geography in worldwide
human populations. PLoS Genetics 8: e1002886.
[Abstract]
[Full-text
at journal website]
[PDF]
[Supplement]
TJ Pemberton, F-Y Li, EK Hanson, NU Mehta, S Choi, J Ballantyne,
JW Belmont, NA Rosenberg, C Tyler-Smith, PI Patel (2012) Impact of
restricted marital practices on genetic variation in an endogamous
Gujarati group. American Journal of Physical Anthropology 149:
92-103. [Abstract]
[PDF]
[Supplement (.docx)]
[Data]
EM Jewett*, M Zawistowski*, NA Rosenberg, S Zöllner
(2012) A coalescent model for genotype imputation.
Genetics 191:
1239-1255. [Abstract]
[PDF]
TJ Pemberton, D Absher, MW Feldman, RM Myers, NA
Rosenberg, JZ Li (2012) Genomic patterns of homozygosity in worldwide
human populations. American Journal of Human Genetics 91:
275-292. [Abstract]
[PDF]
[Main Supplement]
[Supplementary
Table 2 (.zip)]
[Supplementary
Table 3 (.zip)]
[Supplementary
Table 4 (.zip)]
[Supplementary
Table 5 (.zip)]
D Bryant, R Bouckaert, J Felsenstein, NA Rosenberg, A
RoyChoudhury (2012) Inferring species trees directly from biallelic
genetic markers: bypassing gene trees in a full coalescent analysis.
Molecular Biology and Evolution 29: 1917-1932.
[Abstract]
[PDF]
[Supplement]
LJ Helmkamp, EM Jewett, NA Rosenberg (2012)
Improvements to a class of distance matrix methods for inferring species
trees from gene trees. Journal of Computational Biology 19:
632-649.
[Abstract]
[PDF]
EM Jewett, NA Rosenberg (2012) iGLASS: an improvement to
the GLASS method for estimating species trees from gene
trees. Journal of Computational Biology 19: 293-315.
[Abstract]
[PDF]
SB Reddy, NA Rosenberg (2012) Refining the relationship
between homozygosity and the frequency of the most frequent
allele. Journal of Mathematical Biology 64: 87-108.
[Abstract]
[PDF]
FA San Lucas, NA Rosenberg, P Scheet (2012) Haploscope: a tool
for the graphical display of haplotype structure in
populations. Genetic Epidemiology 35: 17-21.
[Abstract]
[PDF]
JH Degnan, NA Rosenberg, T Stadler (2012) The probability
distribution of ranked gene trees on a species tree.
Mathematical Biosciences 235:
45-55. [Abstract]
[PDF]
NA Rosenberg (2011) A population-genetic perspective on the
similarities and differences among worldwide human populations. Human
Biology 83: 659-684.
[Abstract]
[PDF]
L Huang*, M Jakobsson*, TJ Pemberton, M Ibrahim, T
Nyambo, S Omar, JK Pritchard, SA Tishkoff, NA Rosenberg (2011)
Haplotype variation and genotype imputation in African populations.
Genetic Epidemiology 35: 766-780.
[Abstract]
[PDF]
[Supplement]
[Data]
P Verdu, NA Rosenberg (2011) A general mechanistic model
for admixture histories of hybrid populations. Genetics 189:
1413-1426. [Abstract]
[PDF]
[Supplementary
Text]
[Supplementary
Figure 1]
[Supplementary
Table 1]
S Ramachandran, NA Rosenberg (2011) A test of the influence
of continental axes of orientation on patterns of human gene flow.
American Journal of Physical Anthropology 146: 515-529.
[Abstract]
[PDF]
[Supplementary
Figure 1]
[Supplementary
Figure 2]
[Supplementary
Tables]
M DeGiorgio, JH Degnan, NA Rosenberg (2011)
Coalescence-time distributions in a serial founder model of human
evolutionary history. Genetics 189: 579-593.
[Abstract]
[PDF]
SM Boca, NA Rosenberg (2011) Mathematical properties of
Fst between admixed populations and their parental
source populations. Theoretical Population Biology 80: 208-216.
[Abstract]
[PDF]
ZA Szpiech, NA Rosenberg (2011) On the size
distribution of private microsatellite alleles. Theoretical
Population Biology 80: 100-113.
[Abstract]
[PDF]
Z Yang, M Rosenthal, NA Rosenberg, S Talarico, L Zhang, C
Marrs, VO Thomsen, T Lillebaek, AB Andersen (2011) How dormant is
Mycobacterium tuberculosis during latency? A study
integrating genomics and molecular epidemiology.
Infection, Genetics and Evolution 11: 1164-1167.
[Abstract]
[PDF]
EO Buzbas, P Joyce, NA Rosenberg (2011) Inference on
the strength of balancing selection for epistatically interacting
loci. Theoretical Population Biology 79: 102-113.
[Abstract]
[PDF]
CV Than, NA Rosenberg (2011) Consistency properties
of species tree inference by minimizing deep coalescences.
Journal of Computational Biology 18: 1-15.
[Abstract]
[PDF]
M DeGiorgio*, I Jankovic*, NA Rosenberg (2010)
Unbiased estimation of gene diversity in samples containing related
individuals: exact variance and arbitrary ploidy. Genetics
186: 1367-1387. [Abstract]
[PDF]
TJ Pemberton, C Wang, JZ Li, NA Rosenberg
(2010) Inference of unexpected genetic relatedness among individuals
in HapMap Phase III. American Journal of Human Genetics 87: 457-464.
[Abstract]
[PDF]
[Supplement]
E Borràs*, M Pineda*, I Blanco, EM Jewett, F Wang, A
Teulé, T Caldés, M Urioste, C Martínez-Bouzas, J
Brunet, J Balmaña, A Torres, T Ramón y Cajal, J Sanz, L
Pérez-Cabornero, S Castellví-Bel, A Alonso, A Lanas, S
González, V Moreno, SB Gruber, NA Rosenberg, B Mukherjee, C
Lázaro, G Capellá (2010) MLH1 founder mutations
with moderate penetrance in Spanish Lynch syndrome families. Cancer
Research 70:
7379-7391. [Abstract]
[PDF]
[Supplementary
Figure 1]
[Supplementary
Table 1]
[Supplementary
Table 2]
[Supplementary
Methods]
I Jankovic, BM vonHoldt, NA Rosenberg (2010)
Heterozygosity of the Yellowstone wolves. Molecular Ecology
19: 3246-3249. [PDF]
NA Rosenberg, L Huang*, EM Jewett*, ZA
Szpiech*, I Jankovic*, M Boehnke (2010) Genome-wide
association studies in diverse populations. Nature Reviews
Genetics 11: 356-366. [Abstract]
[PDF]
NA Rosenberg, JH Degnan (2010) Coalescent histories
for discordant gene trees and species trees. Theoretical
Population Biology 77: 145-151. [Abstract]
[PDF]
M DeGiorgio, JH Degnan (2010) Fast and consistent
estimation of species trees using supermatrix rooted triples.
Molecular Biology and Evolution 27: 552-569.
[Abstract]
[PDF]
C Wang, ZA Szpiech, JH Degnan,
M Jakobsson, TJ Pemberton, JA Hardy, AB Singleton, NA
Rosenberg (2010) Comparing spatial maps of human
population-genetic variation using Procrustes
analysis. Statistical Applications in Genetics and Molecular
Biology 9: 13. [Abstract]
[PDF]
JT Mosher, TJ Pemberton, K Harter, C Wang,
EO Buzbas, P Dvorak, C Simon, SJ Morrison, NA Rosenberg
(2010) Lack of population diversity in commonly used human embryonic
stem-cell lines. New England Journal of Medicine 362: 183-185.
[PDF]
[Supplement]
TJ Pemberton, CI Sandefur, M Jakobsson, NA
Rosenberg (2009) Sequence determinants of human microsatellite
variability. BMC Genomics 10: 612. [Abstract] [Full-text at
journal website] [PDF] [Supplementary table 1
(XLS)] [Supplementary table 2
(XLS)] [Supplementary
tables 3-6 (PDF)] [Data]
NM Kopelman, L Stone, C Wang, D Gefel, MW Feldman, J
Hillel, NA Rosenberg (2009) Genomic microsatellites identify
shared Jewish ancestry intermediate between Middle Eastern and
European populations. BMC Genetics 10: 80. [Abstract] [Full-text at
journal website] [PDF]
[Data]
L Huang, C Wang, NA Rosenberg (2009) The
relationship between imputation error and statistical power in genetic
association studies in diverse populations. American Journal of
Human Genetics 85: 692-698. [Abstract]
[PDF]
[Supplement]
M DeGiorgio, M Jakobsson, NA Rosenberg (2009)
Explaining worldwide patterns of human genetic variation using a
coalescent-based serial founder model of migration outward from
Africa. Proceedings of the National Academy of Sciences USA
106: 16057-16062.
[Abstract]
[PDF]
[Supplement]
NA Rosenberg, JM VanLiere (2009) Replication of
genetic associations as pseudoreplication due to shared
genealogy. Genetic Epidemiology 33: 479-487.
[Abstract]
[PDF]
JH Degnan, M DeGiorgio, D Bryant, NA Rosenberg
(2009) Properties of consensus methods for inferring species trees
from gene trees. Systematic Biology 58: 35-54.
[Abstract]
[PDF]
JH Degnan, NA Rosenberg (2009) Gene tree discordance,
phylogenetic inference and the multispecies coalescent. Trends in
Ecology and Evolution 24: 332-340. [Abstract] [PDF] [Supplement]
KB Schroeder, M Jakobsson, MH Crawford, TG Schurr, SM Boca,
DF Conrad, RY Tito, LP Osipova, LA Tarskaia, SI Zhadanov, JD Wall, JK
Pritchard, RS Malhi, DG Smith, NA Rosenberg (2009) Haplotypic
background of a private allele at high frequency in the
Americas. Molecular Biology and Evolution 26: 995-1016.
[Abstract]
[PDF]
[Supplement]
M DeGiorgio, NA Rosenberg (2009) An unbiased estimator of
gene diversity in samples containing related individuals.
Molecular Biology and Evolution 26: 501-512.
[Abstract]
[PDF]
L Huang, Y Li, AB Singleton, JA Hardy, G Abecasis, NA
Rosenberg, P Scheet (2009) Genotype-imputation accuracy
across worldwide human populations. American Journal of Human
Genetics 84: 235-250. [Abstract]
[PDF]
[Supplement]
S Ramachandran, NA Rosenberg, MW Feldman, J Wakeley (2008)
Population differentiation and migration: coalescence times in a
two-sex island model for autosomal and X-linked loci. Theoretical
Population Biology 74: 291-301. [Abstract] [PDF]
ZA Szpiech, M Jakobsson, NA Rosenberg (2008)
ADZE: a rarefaction approach for counting alleles private to
combinations of populations. Bioinformatics 24:
2498-2504. [Abstract] [Full
text at journal website] [PDF]
[Software]
NA Rosenberg, M Jakobsson (2008) The relationship
between homozygosity and the frequency of the most frequent
allele. Genetics 179: 2027-2036. [Abstract] [PDF]
JM VanLiere, NA Rosenberg (2008) Mathematical
properties of the r2 measure of linkage disequilibrium.
Theoretical Population Biology 74: 130-137. [Abstract] [PDF]
TJ Pemberton*, M Jakobsson*, DF Conrad, G Coop, JD
Wall, JK Pritchard, PI Patel, NA Rosenberg (2008) Using
population mixtures to optimize the utility of genomic databases:
linkage disequilibrium and association study design in
India. Annals of Human Genetics 72: 535-546. [Abstract] [PDF] [Data]
O François, MGB Blum, M Jakobsson, NA Rosenberg
(2008) Demographic history of European populations of Arabidopsis
thaliana. PLoS Genetics 4: e1000075. [Abstract] [Full
text at journal website] [PDF] [Supplement]
JM Macpherson, J Gonzalez, DM Witten, JC Davis, NA
Rosenberg, AE Hirsh, DA Petrov (2008) Nonadaptive explanations for
signatures of partial selective sweeps in Drosophila. Molecular
Biology and Evolution 25: 1025-1042. [Abstract] [PDF]
NA Rosenberg, R Tao (2008) Discordance of species trees
with their most likely gene trees: the case of five taxa. Systematic
Biology 57:
131-140. [Abstract]
[PDF]
[Supplement]
M Jakobsson*, SW Scholz*, P Scheet*, JR Gibbs, JM
VanLiere, H-C Fung, ZA Szpiech, JH Degnan, K Wang, R
Guerreiro, JM Bras, JC Schymick, DG Hernandez, BJ Traynor, J
Simon-Sanchez, M Matarin, A Britton, J van de Leemput, I Rafferty, M
Bucan, HM Cann, JA Hardy, NA Rosenberg, AB Singleton (2008)
Genotype, haplotype and copy-number variation in worldwide human
populations. Nature 451: 998-1003. [Abstract] [PDF] [Supplement]
K Zhang, NA Rosenberg (2007) On the genealogy of a
duplicated microsatellite. Genetics 177: 2109-2122.
[Abstract]
[PDF]
S Wang*, CM Lewis Jr*, M Jakobsson*, S Ramachandran, N Ray, G
Bedoya, W Rojas, MV Parra, JA Molina, C Gallo, G Mazzotti, G Poletti, K
Hill, AM Hurtado, D Labuda, W Klitz, R Barrantes, MC Bortolini, FM
Salzano, ML Petzl-Erler, LT Tsuneto, E Llop, F Rothhammer, L Excoffier, MW
Feldman, NA Rosenberg, A Ruiz-Linares (2007) Genetic variation and
population structure in Native Americans. PLoS Genetics 3:
2049-2067. [Abstract]
[PDF]
[Supplement]
[Data]
[Readme for datafile]
M Jakobsson, NA Rosenberg (2007) CLUMPP: a cluster
matching and permutation program for dealing with label switching and
multimodality in analysis of population structure.
Bioinformatics 23: 1801-1806. [Abstract] [Full
text at journal website] [PDF]
[Software]
MGB Blum, NA Rosenberg (2007) Estimating the number
of ancestral lineages using a maximum-likelihood method based on
rejection sampling. Genetics 176: 1741-1757. [Abstract]
[PDF]
NA Rosenberg (2007) Counting coalescent histories.
Journal of Computational Biology 14: 360-377. [Abstract]
[PDF]
NA Rosenberg, MGB Blum (2007) Sampling properties of
homozygosity-based statistics for linkage
disequilibrium. Mathematical Biosciences 208: 33-47. [Abstract]
[PDF]
M Jakobsson, NA Rosenberg (2007) The probability
distribution under a population divergence model of the number of
genetic founding lineages of a population or species. Theoretical
Population Biology 71: 502-523. [Abstract]
[PDF]
L David, NA Rosenberg, U Lavi, MW Feldman, J Hillel
(2007) Genetic diversity and population structure inferred from the
partially duplicated genome of domesticated carp, Cyprinus
carpio L. Genetics Selection Evolution 39: 319-340.
[Abstract]
[PDF]
KB Schroeder, TG Schurr, JC Long, NA Rosenberg, MH Crawford,
LA Tarskaia, LP Osipova, SI Zhadanov, DG Smith (2007) A private
allele ubiquitous in the Americas. Biology Letters 3:
218-223. [Abstract] [PDF] [Supplement]
NA Rosenberg (2007) Statistical tests for taxonomic
distinctiveness from observations of monophyly. Evolution 61: 317-323.
[Abstract] [PDF]
NA Rosenberg, S Mahajan, C Gonzalez-Quevedo, MGB
Blum, L Nino-Rosales, V Ninis, P Das, M Hegde, L Molinari, G
Zapata, JL Weber, JW Belmont, PI Patel (2006) Low levels of genetic
divergence across geographically and linguistically diverse
populations from India. PLoS Genetics 2: 2052-2061. [Abstract]
[PDF] [Supplementary Tables
1-3 (DOC)] [Supplementary Tables
1-3 (PDF)]
DF Conrad*, M Jakobsson*, G Coop*, X Wen, JD Wall, NA
Rosenberg, JK Pritchard (2006) A worldwide survey of haplotype
variation and linkage disequilibrium in the human genome. Nature
Genetics 38: 1251-1260. [Abstract] [PDF] [Supplement
(methods, note, and figures)] [Supplementary
Table 1] [Data]
NA Rosenberg (2006) Standardized subsets of the HGDP-CEPH
Human Genome Diversity Cell Line Panel, accounting for atypical and
duplicated samples and pairs of close relatives. Annals of Human
Genetics 70: 841-847. [Abstract] [PDF] [Supplement] [Data] [Spreadsheet with
recommended subsets (txt format)] [Spreadsheet with
recommended subsets (xls format)]
NA Rosenberg (2006) Gene genealogies. Chapter 12 in CW Fox
and JB Wolf, eds. Evolutionary Genetics: Concepts and Case
Studies. Oxford: Oxford University Press, pp. 173-189. [PDF of final
version]
NA Rosenberg, M Nordborg (2006) A general population-genetic model
for the production by population structure of spurious
genotype-phenotype associations in discrete, admixed or spatially
distributed populations. Genetics 173: 1665-1678. [Abstract] [PDF]
JH Degnan, NA Rosenberg (2006) Discordance of species trees
with their most likely gene trees. PLoS Genetics 2: 762-768.
[Abstract]
[PDF]
NA Rosenberg (2006) The mean and variance of the numbers of
r-pronged nodes and r-caterpillars in Yule-generated
genealogical trees. Annals of Combinatorics 10: 129-146. [Abstract] [PDF]
NA Rosenberg, S Mahajan, S Ramachandran, C Zhao, JK
Pritchard, MW Feldman (2005) Clines, clusters, and the effect of study
design on the inference of human population structure. PLoS
Genetics 1: 660-671. [Abstract]
[PDF] [Data]
NA Rosenberg (2005) Algorithms for selecting informative
marker panels for population assignment. Journal of Computational
Biology 12: 1183-1201. [Abstract] [PDF]
S Ramachandran, O Deshpande, CC Roseman, NA Rosenberg, MW
Feldman, LL Cavalli-Sforza (2005) Support from the relationship of
genetic and geographic distance in human populations for a serial
founder effect originating in Africa. Proceedings of the National
Academy of Sciences USA 102: 15942-15947. [Abstract] [PDF] [Supplementary Figure 6]
[Supplementary Table
2] [Supplementary
text] [Data]
NA Rosenberg (2005) A sharp minimum on the mean number of
steps taken in adaptive walks. Journal of Theoretical Biology
237: 17-22. [Abstract] [PDF]
M Nordborg, TT Hu, Y Ishino, J Jhaveri, C Toomajian, H Zheng, E
Bakker, P Calabrese, J Gladstone, R Goyal, M Jakobsson, S Kim,
Y Morozov, B Padhukasahasram, V Plagnol, NA Rosenberg, C Shah,
JD Wall, J Wang, K Zhao, T Kalbfleisch, V Schulz, M Kreitman, J
Bergelson (2005) The pattern of polymorphism in Arabidopsis
thaliana. PLoS Biology 3: 1289-1299. [Abstract]
[PDF]
2005
H Innan, K Zhang, P Marjoram, S Tavaré, NA Rosenberg (2005)
Statistical tests of the coalescent model based on the haplotype
frequency distribution and the number of segregating
sites. Genetics 169: 1763-1777. [Abstract] [PDF] [Software]
NA Rosenberg, PP Calabrese (2004) Polyploid and multilocus
extensions of the Wahlund inequality. Theoretical Population
Biology 66: 381-391. [Abstract] [PDF]
MM Tanaka, NA Rosenberg, PM Small (2004) The control of copy
number of IS6110 in Mycobacterium
tuberculosis. Molecular Biology and Evolution 21:
2195-2201. [Abstract] [PDF]
S Ramachandran, NA Rosenberg, LA Zhivotovsky, MW Feldman
(2004) Robustness of the inference of human population structure: a
comparison of X-chromosomal and autosomal microsatellites. Human
Genomics 1: 87-97. [Abstract] [PDF]
NA Rosenberg (2004) Distruct: a program for the
graphical display of population structure. Molecular Ecology
Notes 4: 137-138. [Abstract] [PDF] [Software]
NA Rosenberg, LM Li, R Ward, JK Pritchard (2003)
Informativeness of genetic markers for inference of
ancestry. American Journal of Human Genetics 73: 1402-1422.
[Abstract] [PDF] [Supplement] [Microsatellite data] [SNP data] [SNP data readme] [Solution to Problem 11039 required in
appendix of paper (American Mathematical Monthly 112:
572-573, 2005)] [Software]
NA Rosenberg, AE Hirsh (2003) On the use of star-shaped
genealogies in inference of coalescence times. Genetics 164:
1677-1682. [Abstract]
[PDF]
NA Rosenberg (2003) The shapes of neutral gene genealogies
in two species: probabilities of monophyly, paraphyly, and polyphyly
in a coalescent model. Evolution 57: 1465-1477. [Abstract] [PDF]
NA Rosenberg, JK Pritchard, JL Weber, HM Cann, KK Kidd, LA
Zhivotovsky, MW Feldman (2003) Response to comment on "Genetic
structure of human populations." Science 300: 1877. [Abstract] [PDF] [Data]
NA Rosenberg, AG Tsolaki, MM Tanaka (2003) Estimating change
rates of genetic markers using serial samples: applications to the
transposon IS6110 in Mycobacterium tuberculosis.
Theoretical Population Biology 63: 347-363. [Abstract] [PDF]
LA Zhivotovsky, NA Rosenberg, MW Feldman (2003)
Features of evolution and expansion of modern humans, inferred from
genomewide microsatellite markers. American Journal of Human
Genetics 72: 1171-1186. [Abstract] [PDF] [Data]
NA Rosenberg, JK Pritchard, JL Weber, HM Cann, KK Kidd, LA
Zhivotovsky, MW Feldman (2002) Genetic structure of human
populations. Science 298: 2381-2385. [Abstract] [Full
Text at Science website] [PDF] [Supplement]
[Data in structure and
NEXUS formats] [Software for drawing
figures] [Español]
NA Rosenberg, M Nordborg (2002) Genealogical trees,
coalescent theory, and the analysis of genetic polymorphisms.
Nature Reviews Genetics 3: 380-390. [Abstract] [PDF]
NA Rosenberg (2002) The probability of topological
concordance of gene trees and species trees. Theoretical
Population Biology 61: 225-247. [Abstract] [PDF]
NA Rosenberg, MW Feldman (2002) The relationship between
coalescence times and population divergence times. Chapter 9 in M
Slatkin and M Veuille, eds. Modern Developments in Theoretical
Population Genetics. Oxford: Oxford University Press,
pp. 130-164. [Abstract] [PDF of final version]
NA Rosenberg, T Burke, K Elo, MW Feldman, P Friedlin,
MAM Groenen, J Hillel, A Mäki-Tanila, M Tixier-Boichard, A Vignal, K
Wimmers, S Weigend (2001) Empirical evaluation of genetic clustering
methods using multilocus genotypes from 20 chicken breeds.
Genetics 159: 699-713. [Abstract] [PDF] [Data] [Photo]
MM Tanaka, NA Rosenberg (2001) Optimal estimation of
transposition rates of insertion sequences for molecular epidemiology.
Statistics in Medicine 20: 2409-2420. [Abstract] [PDF]
NA Rosenberg, E Woolf, JK Pritchard, T Schaap, D Gefel,
I Shpirer, U Lavi, B Bonné-Tamir, J Hillel, MW Feldman (2001)
Distinctive genetic signatures in the Libyan Jews. Proceedings of
the National Academy of Sciences, USA 98: 858-863. [Abstract] [PDF] [Data]
L Jin, ML Baskett, LL Cavalli-Sforza, LA Zhivotovsky, MW Feldman,
NA Rosenberg (2000) Microsatellite evolution in modern humans:
a comparison of two data sets from the same populations. Annals of
Human Genetics 64: 117-134. [Abstract] [PDF] [Data]
JK Pritchard, M Stephens, NA Rosenberg, P Donnelly
(2000) Association mapping in structured populations. American
Journal of Human Genetics 67: 170-181. [Abstract] [PDF]
JK Pritchard, NA Rosenberg (1999) Use of unlinked genetic
markers to detect population stratification in association studies.
American Journal of Human Genetics 65: 220-228. [Abstract] [PDF]
Noah Rosenberg's publications 1999-2005
2004
2003
2002
2001
2000
1999