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Rosenberg lab peer-reviewed publications
[1999-2005] [2006-2010] [2011-2015] [2016-2020] [Review articles]
L Agranat-Tamir, JA Mooney, NA Rosenberg (2024). Counting the genetic ancestors from source populations in members of an admixed population. Genetics in press.
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