34 Publications

Mark all

[34]
2020 | Journal Article | IST-REx-ID: 7652
I. Tomanek et al., “Gene amplification as a form of population-level gene expression regulation,” Nature Ecology & Evolution, vol. 4, no. 4, pp. 612–625, 2020.
View | Files available | DOI
 
[33]
2018 | Journal Article | IST-REx-ID: 423   OA
P. Payne, L. Geyrhofer, N. H. Barton, and J. P. Bollback, “CRISPR-based herd immunity can limit phage epidemics in bacterial populations,” eLife, vol. 7, 2018.
View | Files available | DOI
 
[32]
2018 | Journal Article | IST-REx-ID: 67   OA
C. Igler, M. Lagator, G. Tkacik, J. P. Bollback, and C. C. Guet, “Evolutionary potential of transcription factors for gene regulatory rewiring,” Nature Ecology and Evolution, vol. 2, no. 10, pp. 1633–1643, 2018.
View | Files available | DOI
 
[31]
2018 | Research Data | IST-REx-ID: 5585
C. Igler, M. Lagator, G. Tkacik, J. P. Bollback, and C. C. Guet, Data for the paper Evolutionary potential of transcription factors for gene regulatory rewiring. IST Austria, 2018.
View | Files available | DOI
 
[30]
2017 | Journal Article | IST-REx-ID: 1077   OA
R. A. Fernandes Redondo, H. Vladar, T. Włodarski, and J. P. Bollback, “Evolutionary interplay between structure, energy and epistasis in the coat protein of the fX174 phage family,” Journal of the Royal Society Interface, vol. 14, no. 126, 2017.
View | Files available | DOI
 
[29]
2017 | Journal Article | IST-REx-ID: 954   OA
M. Lagator, T. Paixao, N. H. Barton, J. P. Bollback, and C. C. Guet, “On the mechanistic nature of epistasis in a canonical cis-regulatory element,” eLife, vol. 6, 2017.
View | Files available | DOI
 
[28]
2017 | Journal Article | IST-REx-ID: 570   OA
M. Lagator, S. Sarikas, H. Acar, J. P. Bollback, and C. C. Guet, “Regulatory network structure determines patterns of intermolecular epistasis,” eLife, vol. 6, 2017.
View | Files available | DOI
 
[27]
2016 | Journal Article | IST-REx-ID: 1427   OA
M. Lagator, C. Igler, A. Moreno, C. C. Guet, and J. P. Bollback, “Epistatic interactions in the arabinose cis-regulatory element,” Molecular Biology and Evolution, vol. 33, no. 3, pp. 761–769, 2016.
View | Files available | DOI
 
[26]
2014 | Journal Article | IST-REx-ID: 2042   OA
A. Kupczok and J. P. Bollback, “Motif depletion in bacteriophages infecting hosts with CRISPR systems,” BMC Genomics, vol. 15, no. 1, 2014.
View | Files available | DOI
 
[25]
2013 | Journal Article | IST-REx-ID: 2412   OA
A. Kupczok and J. P. Bollback, “Probabilistic models for CRISPR spacer content evolution ,” BMC Evolutionary Biology, vol. 13, no. 1, pp. 54–54, 2013.
View | Files available | DOI
 
[24]
2013 | Journal Article | IST-REx-ID: 500   OA
M. Ward, S. Lycett, D. Avila, J. P. Bollback, and A. Leigh Brown, “Evolutionary interactions between haemagglutinin and neuraminidase in avian influenza,” BMC Evolutionary Biology, vol. 13, no. 1, 2013.
View | Files available | DOI
 
[23]
2013 | Journal Article | IST-REx-ID: 2410   OA
R. A. Fernandes Redondo, A. Kupczok, G. Stift, and J. P. Bollback, “Complete genome sequence of the novel phage MG-B1 infecting bacillus weihenstephanensis,” Genome Announcements, vol. 1, no. 3, 2013.
View | Files available | DOI
 
[22]
2010 | Journal Article | IST-REx-ID: 4358
C. Guinane et al., “Evolutionary genomics of Staphylococcus aureus reveals insights into the origin and molecular basis of ruminant host adaptation,” Genome Biology and Evolution, vol. 2, pp. 454–466, 2010.
View | DOI
 
[21]
2009 | Journal Article | IST-REx-ID: 4357
J. P. Bollback and J. Huelsenbeck, “Parallel genetic evolution within and between bacteriophage species of varying degrees of divergence,” Genetics, vol. 181, no. 1, pp. 225–234, 2009.
View | DOI
 
[20]
2008 | Journal Article | IST-REx-ID: 3435   OA
J. P. Bollback, T. York, and R. Nielsen, “Estimation of 2Nes From Temporal Allele Frequency Data,” Genetics, vol. 179, no. 1, pp. 497–502, 2008.
View | DOI | Download (ext.)
 
[19]
2007 | Journal Article | IST-REx-ID: 4355
J. P. Bollback and J. Huelsenbeck, “Clonal interference is alleviated by high mutation rates in large populations,” Molecular Biology and Evolution, vol. 24, no. 6, pp. 1397–1406, 2007.
View | DOI
 
[18]
2007 | Journal Article | IST-REx-ID: 4356
L. Petersen, J. P. Bollback, M. Dimmic, M. Hubisz, and R. Nielsen, “Genes under positive selection in Escherichia coli,” Genome Research, vol. 17, no. 9, pp. 1336–1343, 2007.
View | DOI
 
[17]
2007 | Journal Article | IST-REx-ID: 3436
S. Reynolds et al., “Behavioral paternity predicts genetic paternity in satin bowerbirds, a species with a non-resource-based mating system,” The Auk, vol. 124, no. 3, pp. 857–867, 2007.
View | DOI
 
[16]
2007 | Book Chapter | IST-REx-ID: 3432
J. P. Bollback, P. Gardner, and R. Nielsen, “Estimating the history of mutations on a phylogeny,” in Ancestral Sequence Reconstruction, D. Liberles, Ed. Oxford University Press, 2007, pp. 69–79.
View | DOI
 
[15]
2007 | Journal Article | IST-REx-ID: 4353
J. Binladen et al., “The use of coded PCR primers enables high-throughput sequencing of multiple homolog amplification products by 454 parallel sequencing,” PLoS One, vol. 2, no. 2, 2007.
View | DOI
 
[14]
2007 | Journal Article | IST-REx-ID: 4354
E. Freyhult, J. P. Bollback, and P. Gardner, “Exploring genomic dark matter: a critical assessment of the performance of homology search methods on noncoding RNA,” Genome Research, vol. 17, no. 1, pp. 117–25, 2007.
View | DOI | Download (ext.)
 
[13]
2006 | Journal Article | IST-REx-ID: 4351
J. P. Bollback, “SIMMAP: stochastic character mapping of discrete traits on phylogenies,” BMC Bioinformatics, vol. 7, 2006.
View | DOI
 
[12]
2006 | Journal Article | IST-REx-ID: 4352
J. Conn, J. Vineis, J. P. Bollback, D. Onyabe, R. Wilkerson, and M. Povoa, “Population structure of the malaria vector Anopheles darlingi in a malaria-endemic region of eastern Amazonian Brazil,” The American Journal of Tropical Medicine and Hygiene, vol. 74, no. 5, pp. 798–806, 2006.
View | Download (ext.)
 
[11]
2006 | Journal Article | IST-REx-ID: 3437
A. Betancourt and J. P. Bollback, “Fitness effects of beneficial mutations: the mutational landscape model in experimental evolution,” Current Opinion in Genetics & Development, vol. 16, no. 6, pp. 618–623, 2006.
View | DOI
 
[10]
2005 | Book Chapter | IST-REx-ID: 3433
J. P. Bollback, “Posterior mapping and posterior predictive distributions,” in Statistical methods in Molecular Evolution, R. Nielsen, Ed. Springer, 2005, pp. 439–462.
View | DOI
 
[9]
2003 | Journal Article | IST-REx-ID: 4348
J. Huelsenbeck, R. Nielsen, and J. P. Bollback, “Stochastic mapping of morphological characters,” Systematic Biology, vol. 52, no. 2, pp. 131–58, 2003.
View | DOI
 
[8]
2003 | Journal Article | IST-REx-ID: 4350
J. Harshman, C. Huddleston, J. P. Bollback, T. Parsons, and M. Braun, “True and false gharials: A nuclear gene phylogeny of crocodylia,” Systematic Biology, vol. 52, no. 3, pp. 386–402, 2003.
View | DOI
 
[7]
2002 | Journal Article | IST-REx-ID: 4349
J. P. Bollback, “Bayesian model adequacy and choice in phylogenetics,” Molecular Biology and Evolution, vol. 19, no. 7, pp. 1171–80, 2002.
View | Download (ext.)
 
[6]
2002 | Journal Article | IST-REx-ID: 4347
J. Huelsenbeck, J. P. Bollback, and A. Levine, “Inferring the root of a phylogenetic tree,” Systematic Biology, vol. 51, no. 1, pp. 32–43, 2002.
View | DOI
 
[5]
2001 | Book Chapter | IST-REx-ID: 3434
J. Huelsenbeck and J. P. Bollback, “Application of the likelihood function in phylogenetic analysis,” in Handbook of Statistical Genetics, D. Balding, M. Bishop, and C. Cannings, Eds. Wiley-Blackwell, 2001, pp. 415–439.
View | DOI
 
[4]
2001 | Journal Article | IST-REx-ID: 3439
J. Conn, J. P. Bollback, D. Onyabe, T. Robinson, R. Wilkerson, and M. Povoa, “Isolation of polymorphic microsatellite markers from the malaria vector Anopheles darlingi,” Molecular Ecology Notes, vol. 1, no. 4, pp. 223–225, 2001.
View | DOI
 
[3]
2001 | Journal Article | IST-REx-ID: 4229
J. P. Bollback and J. Huelsenbeck, “Phylogeny, genome evolution, and host specificity of single-stranded RNA bacteriophage (Family Leviviridae),” Journal of Molecular Evolution, vol. 52, no. 2, pp. 117–128, 2001.
View | DOI
 
[2]
2001 | Journal Article | IST-REx-ID: 3438
J. Huelsenbeck, F. Ronquist, R. Nielsen, and J. P. Bollback, “Bayesian inference of phylogeny and its impact on evolutionary biology,” Science, vol. 294, no. 5550, pp. 2310–2314, 2001.
View | DOI
 
[1]
2001 | Journal Article | IST-REx-ID: 3440
J. Huelsenbeck and J. P. Bollback, “Empirical and hierarchical Bayesian estimation of ancestral states,” Systematic Biology, vol. 50, no. 3, pp. 351–366, 2001.
View | DOI
 

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34 Publications

Mark all

[34]
2020 | Journal Article | IST-REx-ID: 7652
I. Tomanek et al., “Gene amplification as a form of population-level gene expression regulation,” Nature Ecology & Evolution, vol. 4, no. 4, pp. 612–625, 2020.
View | Files available | DOI
 
[33]
2018 | Journal Article | IST-REx-ID: 423   OA
P. Payne, L. Geyrhofer, N. H. Barton, and J. P. Bollback, “CRISPR-based herd immunity can limit phage epidemics in bacterial populations,” eLife, vol. 7, 2018.
View | Files available | DOI
 
[32]
2018 | Journal Article | IST-REx-ID: 67   OA
C. Igler, M. Lagator, G. Tkacik, J. P. Bollback, and C. C. Guet, “Evolutionary potential of transcription factors for gene regulatory rewiring,” Nature Ecology and Evolution, vol. 2, no. 10, pp. 1633–1643, 2018.
View | Files available | DOI
 
[31]
2018 | Research Data | IST-REx-ID: 5585
C. Igler, M. Lagator, G. Tkacik, J. P. Bollback, and C. C. Guet, Data for the paper Evolutionary potential of transcription factors for gene regulatory rewiring. IST Austria, 2018.
View | Files available | DOI
 
[30]
2017 | Journal Article | IST-REx-ID: 1077   OA
R. A. Fernandes Redondo, H. Vladar, T. Włodarski, and J. P. Bollback, “Evolutionary interplay between structure, energy and epistasis in the coat protein of the fX174 phage family,” Journal of the Royal Society Interface, vol. 14, no. 126, 2017.
View | Files available | DOI
 
[29]
2017 | Journal Article | IST-REx-ID: 954   OA
M. Lagator, T. Paixao, N. H. Barton, J. P. Bollback, and C. C. Guet, “On the mechanistic nature of epistasis in a canonical cis-regulatory element,” eLife, vol. 6, 2017.
View | Files available | DOI
 
[28]
2017 | Journal Article | IST-REx-ID: 570   OA
M. Lagator, S. Sarikas, H. Acar, J. P. Bollback, and C. C. Guet, “Regulatory network structure determines patterns of intermolecular epistasis,” eLife, vol. 6, 2017.
View | Files available | DOI
 
[27]
2016 | Journal Article | IST-REx-ID: 1427   OA
M. Lagator, C. Igler, A. Moreno, C. C. Guet, and J. P. Bollback, “Epistatic interactions in the arabinose cis-regulatory element,” Molecular Biology and Evolution, vol. 33, no. 3, pp. 761–769, 2016.
View | Files available | DOI
 
[26]
2014 | Journal Article | IST-REx-ID: 2042   OA
A. Kupczok and J. P. Bollback, “Motif depletion in bacteriophages infecting hosts with CRISPR systems,” BMC Genomics, vol. 15, no. 1, 2014.
View | Files available | DOI
 
[25]
2013 | Journal Article | IST-REx-ID: 2412   OA
A. Kupczok and J. P. Bollback, “Probabilistic models for CRISPR spacer content evolution ,” BMC Evolutionary Biology, vol. 13, no. 1, pp. 54–54, 2013.
View | Files available | DOI
 
[24]
2013 | Journal Article | IST-REx-ID: 500   OA
M. Ward, S. Lycett, D. Avila, J. P. Bollback, and A. Leigh Brown, “Evolutionary interactions between haemagglutinin and neuraminidase in avian influenza,” BMC Evolutionary Biology, vol. 13, no. 1, 2013.
View | Files available | DOI
 
[23]
2013 | Journal Article | IST-REx-ID: 2410   OA
R. A. Fernandes Redondo, A. Kupczok, G. Stift, and J. P. Bollback, “Complete genome sequence of the novel phage MG-B1 infecting bacillus weihenstephanensis,” Genome Announcements, vol. 1, no. 3, 2013.
View | Files available | DOI
 
[22]
2010 | Journal Article | IST-REx-ID: 4358
C. Guinane et al., “Evolutionary genomics of Staphylococcus aureus reveals insights into the origin and molecular basis of ruminant host adaptation,” Genome Biology and Evolution, vol. 2, pp. 454–466, 2010.
View | DOI
 
[21]
2009 | Journal Article | IST-REx-ID: 4357
J. P. Bollback and J. Huelsenbeck, “Parallel genetic evolution within and between bacteriophage species of varying degrees of divergence,” Genetics, vol. 181, no. 1, pp. 225–234, 2009.
View | DOI
 
[20]
2008 | Journal Article | IST-REx-ID: 3435   OA
J. P. Bollback, T. York, and R. Nielsen, “Estimation of 2Nes From Temporal Allele Frequency Data,” Genetics, vol. 179, no. 1, pp. 497–502, 2008.
View | DOI | Download (ext.)
 
[19]
2007 | Journal Article | IST-REx-ID: 4355
J. P. Bollback and J. Huelsenbeck, “Clonal interference is alleviated by high mutation rates in large populations,” Molecular Biology and Evolution, vol. 24, no. 6, pp. 1397–1406, 2007.
View | DOI
 
[18]
2007 | Journal Article | IST-REx-ID: 4356
L. Petersen, J. P. Bollback, M. Dimmic, M. Hubisz, and R. Nielsen, “Genes under positive selection in Escherichia coli,” Genome Research, vol. 17, no. 9, pp. 1336–1343, 2007.
View | DOI
 
[17]
2007 | Journal Article | IST-REx-ID: 3436
S. Reynolds et al., “Behavioral paternity predicts genetic paternity in satin bowerbirds, a species with a non-resource-based mating system,” The Auk, vol. 124, no. 3, pp. 857–867, 2007.
View | DOI
 
[16]
2007 | Book Chapter | IST-REx-ID: 3432
J. P. Bollback, P. Gardner, and R. Nielsen, “Estimating the history of mutations on a phylogeny,” in Ancestral Sequence Reconstruction, D. Liberles, Ed. Oxford University Press, 2007, pp. 69–79.
View | DOI
 
[15]
2007 | Journal Article | IST-REx-ID: 4353
J. Binladen et al., “The use of coded PCR primers enables high-throughput sequencing of multiple homolog amplification products by 454 parallel sequencing,” PLoS One, vol. 2, no. 2, 2007.
View | DOI
 
[14]
2007 | Journal Article | IST-REx-ID: 4354
E. Freyhult, J. P. Bollback, and P. Gardner, “Exploring genomic dark matter: a critical assessment of the performance of homology search methods on noncoding RNA,” Genome Research, vol. 17, no. 1, pp. 117–25, 2007.
View | DOI | Download (ext.)
 
[13]
2006 | Journal Article | IST-REx-ID: 4351
J. P. Bollback, “SIMMAP: stochastic character mapping of discrete traits on phylogenies,” BMC Bioinformatics, vol. 7, 2006.
View | DOI
 
[12]
2006 | Journal Article | IST-REx-ID: 4352
J. Conn, J. Vineis, J. P. Bollback, D. Onyabe, R. Wilkerson, and M. Povoa, “Population structure of the malaria vector Anopheles darlingi in a malaria-endemic region of eastern Amazonian Brazil,” The American Journal of Tropical Medicine and Hygiene, vol. 74, no. 5, pp. 798–806, 2006.
View | Download (ext.)
 
[11]
2006 | Journal Article | IST-REx-ID: 3437
A. Betancourt and J. P. Bollback, “Fitness effects of beneficial mutations: the mutational landscape model in experimental evolution,” Current Opinion in Genetics & Development, vol. 16, no. 6, pp. 618–623, 2006.
View | DOI
 
[10]
2005 | Book Chapter | IST-REx-ID: 3433
J. P. Bollback, “Posterior mapping and posterior predictive distributions,” in Statistical methods in Molecular Evolution, R. Nielsen, Ed. Springer, 2005, pp. 439–462.
View | DOI
 
[9]
2003 | Journal Article | IST-REx-ID: 4348
J. Huelsenbeck, R. Nielsen, and J. P. Bollback, “Stochastic mapping of morphological characters,” Systematic Biology, vol. 52, no. 2, pp. 131–58, 2003.
View | DOI
 
[8]
2003 | Journal Article | IST-REx-ID: 4350
J. Harshman, C. Huddleston, J. P. Bollback, T. Parsons, and M. Braun, “True and false gharials: A nuclear gene phylogeny of crocodylia,” Systematic Biology, vol. 52, no. 3, pp. 386–402, 2003.
View | DOI
 
[7]
2002 | Journal Article | IST-REx-ID: 4349
J. P. Bollback, “Bayesian model adequacy and choice in phylogenetics,” Molecular Biology and Evolution, vol. 19, no. 7, pp. 1171–80, 2002.
View | Download (ext.)
 
[6]
2002 | Journal Article | IST-REx-ID: 4347
J. Huelsenbeck, J. P. Bollback, and A. Levine, “Inferring the root of a phylogenetic tree,” Systematic Biology, vol. 51, no. 1, pp. 32–43, 2002.
View | DOI
 
[5]
2001 | Book Chapter | IST-REx-ID: 3434
J. Huelsenbeck and J. P. Bollback, “Application of the likelihood function in phylogenetic analysis,” in Handbook of Statistical Genetics, D. Balding, M. Bishop, and C. Cannings, Eds. Wiley-Blackwell, 2001, pp. 415–439.
View | DOI
 
[4]
2001 | Journal Article | IST-REx-ID: 3439
J. Conn, J. P. Bollback, D. Onyabe, T. Robinson, R. Wilkerson, and M. Povoa, “Isolation of polymorphic microsatellite markers from the malaria vector Anopheles darlingi,” Molecular Ecology Notes, vol. 1, no. 4, pp. 223–225, 2001.
View | DOI
 
[3]
2001 | Journal Article | IST-REx-ID: 4229
J. P. Bollback and J. Huelsenbeck, “Phylogeny, genome evolution, and host specificity of single-stranded RNA bacteriophage (Family Leviviridae),” Journal of Molecular Evolution, vol. 52, no. 2, pp. 117–128, 2001.
View | DOI
 
[2]
2001 | Journal Article | IST-REx-ID: 3438
J. Huelsenbeck, F. Ronquist, R. Nielsen, and J. P. Bollback, “Bayesian inference of phylogeny and its impact on evolutionary biology,” Science, vol. 294, no. 5550, pp. 2310–2314, 2001.
View | DOI
 
[1]
2001 | Journal Article | IST-REx-ID: 3440
J. Huelsenbeck and J. P. Bollback, “Empirical and hierarchical Bayesian estimation of ancestral states,” Systematic Biology, vol. 50, no. 3, pp. 351–366, 2001.
View | DOI
 

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Citation Style: IEEE

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