Rosenberg lab at Stanford University

Typos and thinkos

Inexhaustive list of known errors of a nontrivial nature in published papers.

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]

  • In the caption for Figure 1, the symbol for the San population was omitted. Individuals from this population are represented as open orange squares.

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]

  • On page 771, column 2, second full paragraph, line 11, the figure reference should be to Figure 7, not Figure 10.

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]

  • On page 1422, in Figure 7, some of the parameters are misspecified in the legend so that they do not reflect the curves plotted. In part a, the correct value of s2 is 0.03. In part b, the correct value of s1 is 0.03. In the caption, the correct long-term limit of the variance is 10/1045 ≈ 0.096 (rather than 60/5523, corresponding to the misspecified parameter value of 0.3).

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]

  • This paper unfortunately had a very large number of printer's typos in our section on estimating allele age. A complete list of typos (in this section only) is available here.

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] [Full text at journal website] [PDF] [Supplement] [Data] [Readme for datafile]

  • Affiliations for two authors were listed incorrectly. Affiliation 9 should read "Facultad de Medicina and Laboratorios de Investigación y Desarrollo, Universidad Peruana Cayetano Heredia, Lima, Peru". Giovanni Poletti should be listed with affiliation 8.

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] [Full-text at journal website] [PDF] [Data]

  • On page 671 it was stated that θ was estimated using equation 5.12 of Weir (1996). This is not correct. Actually, θ was estimated using the GDA (Genetic Data Analysis) software of P. O. Lewis and D. Zaykin. The computation was therefore done by separately computing for each allele at each locus the numerator and the denominator of the first equation on p. 173. The overall estimate of θ was then obtained as the ratio of the mean of the numerators and the mean of the denominators.

NA Rosenberg, AE Hirsh (2003) On the use of star-shaped genealogies in inference of coalescence times. Genetics 164: 1677-1682. [Abstract] [PDF]

  • In the denominator of eq. 4, (n-1/n) should be (n-1)/n.

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]

  • On page 1468, line 6, H_{k-1} and k-1 should be replaced with H_k and k respectively. In the following equation line, H_{k-1} should be replaced with H_k. The equation marked (10) is correct.

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 Excel] [Data in structure and NEXUS formats] [Software for drawing figures] [Español]

  • In Supplementary Figure 1A, the yellow component of the pie chart (1.33%) should refer to "Africa, Central/South Asia, Europe, Middle East". The percent associated with "Africa, Central/South Asia, East Asia, Middle East" is 1.00%.

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]

  • A superscript 1 should have been added to indicate that author K Elo was part of the alphabetical list.

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]

  • In the note below Table 3, reference (27) should be (29).