Jonathan P Bollback
Bollback Group
37 Publications
2022 | Journal Article | IST-REx-ID: 10736 |
Lagator M, Sarikas S, Steinrueck M, Toledo-Aparicio D, Bollback JP, Guet CC, Tkačik G. 2022. Predicting bacterial promoter function and evolution from random sequences. eLife. 11, e64543.
[Published Version]
View
| Files available
| DOI
| WoS
| PubMed | Europe PMC
2020 | Journal Article | IST-REx-ID: 7652 |
Tomanek I, Grah R, Lagator M, Andersson AMC, Bollback JP, Tkačik G, Guet CC. 2020. Gene amplification as a form of population-level gene expression regulation. Nature Ecology & Evolution. 4(4), 612–625.
[Submitted Version]
View
| Files available
| DOI
| WoS
2018 | Journal Article | IST-REx-ID: 423 |
Payne P, Geyrhofer L, Barton NH, Bollback JP. 2018. CRISPR-based herd immunity can limit phage epidemics in bacterial populations. eLife. 7, e32035.
[Published Version]
View
| Files available
| DOI
| WoS
2018 | Research Data Reference | IST-REx-ID: 9840 |
Payne P, Geyrhofer L, Barton NH, Bollback JP. 2018. Data from: CRISPR-based herd immunity limits phage epidemics in bacterial populations, Dryad, 10.5061/dryad.42n44.
[Published Version]
View
| Files available
| DOI
| Download Published Version (ext.)
2018 | Journal Article | IST-REx-ID: 67 |
Igler C, Lagator M, Tkačik G, Bollback JP, Guet CC. 2018. Evolutionary potential of transcription factors for gene regulatory rewiring. Nature Ecology and Evolution. 2(10), 1633–1643.
[Submitted Version]
View
| Files available
| DOI
| WoS
2018 | Research Data | IST-REx-ID: 5585 |
Igler C, Lagator M, Tkačik G, Bollback JP, Guet CC. 2018. Data for the paper Evolutionary potential of transcription factors for gene regulatory rewiring, Institute of Science and Technology Austria, 10.15479/AT:ISTA:108.
[Published Version]
View
| Files available
| DOI
2017 | Journal Article | IST-REx-ID: 570 |
Lagator M, Sarikas S, Acar H, Bollback JP, Guet CC. 2017. Regulatory network structure determines patterns of intermolecular epistasis. eLife. 6, e28921.
[Published Version]
View
| Files available
| DOI
2017 | Journal Article | IST-REx-ID: 1077 |
Fernandes Redondo RA, de Vladar H, Włodarski T, Bollback JP. 2017. Evolutionary interplay between structure, energy and epistasis in the coat protein of the ϕX174 phage family. Journal of the Royal Society Interface. 14(126), 20160139.
[Published Version]
View
| Files available
| DOI
| WoS
2017 | Journal Article | IST-REx-ID: 954 |
Lagator M, Paixao T, Barton NH, Bollback JP, Guet CC. 2017. On the mechanistic nature of epistasis in a canonical cis-regulatory element. eLife. 6, e25192.
[Published Version]
View
| Files available
| DOI
| WoS
2016 | Journal Article | IST-REx-ID: 1427 |
Lagator M, Igler C, Moreno A, Guet CC, Bollback JP. 2016. Epistatic interactions in the arabinose cis-regulatory element. Molecular Biology and Evolution. 33(3), 761–769.
[Published Version]
View
| Files available
| DOI
2016 | Research Data Reference | IST-REx-ID: 9864 |
Fernandes Redondo RA, de Vladar H, Włodarski T, Bollback JP. 2016. Data from evolutionary interplay between structure, energy and epistasis in the coat protein of the ϕX174 phage family, The Royal Society, 10.6084/m9.figshare.4315652.v1.
[Published Version]
View
| Files available
| DOI
| Download Published Version (ext.)
2014 | Journal Article | IST-REx-ID: 2042 |
Kupczok A, Bollback JP. 2014. Motif depletion in bacteriophages infecting hosts with CRISPR systems. BMC Genomics. 15(1), 663.
[Published Version]
View
| Files available
| DOI
2013 | Journal Article | IST-REx-ID: 2412 |
Kupczok A, Bollback JP. 2013. Probabilistic models for CRISPR spacer content evolution . BMC Evolutionary Biology. 13(1), 54–54.
[Published Version]
View
| Files available
| DOI
2013 | Journal Article | IST-REx-ID: 2410 |
Fernandes Redondo RA, Kupczok A, Stift G, Bollback JP. 2013. Complete genome sequence of the novel phage MG-B1 infecting bacillus weihenstephanensis. Genome Announcements. 1(3).
[Published Version]
View
| Files available
| DOI
2013 | Journal Article | IST-REx-ID: 500 |
Ward M, Lycett S, Avila D, Bollback JP, Leigh Brown A. 2013. Evolutionary interactions between haemagglutinin and neuraminidase in avian influenza. BMC Evolutionary Biology. 13(1), 222.
[Published Version]
View
| Files available
| DOI
2010 | Journal Article | IST-REx-ID: 4358
Guinane C, Ben Zakour N, Tormo Mas M, Weinert L, Lowder B, Cartwright R, Smyth D, Smyth C, Lindsay J, Gould K, Witney A, Hinds J, Bollback JP, Rambaut A, Penades J, Fitzgerald JR. 2010. Evolutionary genomics of Staphylococcus aureus reveals insights into the origin and molecular basis of ruminant host adaptation. Genome Biology and Evolution. 2, 454–466.
View
| DOI
2008 | Journal Article | IST-REx-ID: 3435 |
Bollback JP, York T, Nielsen R. 2008. Estimation of 2Nes From Temporal Allele Frequency Data. Genetics. 179(1), 497–502.
View
| DOI
| Download (ext.)
2007 | Journal Article | IST-REx-ID: 4354
Freyhult E, Bollback JP, Gardner P. 2007. Exploring genomic dark matter: a critical assessment of the performance of homology search methods on noncoding RNA. Genome Research. 17(1), 117–25.
View
| DOI
| Download (ext.)
2006 | Journal Article | IST-REx-ID: 4352
Conn J, Vineis J, Bollback JP, Onyabe D, Wilkerson R, Povoa M. 2006. 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. 74(5), 798–806.
View
| Download (ext.)
2003 | Journal Article | IST-REx-ID: 4350
Harshman J, Huddleston C, Bollback JP, Parsons T, Braun M. 2003. True and false gharials: A nuclear gene phylogeny of crocodylia. Systematic Biology. 52(3), 386–402.
View
| DOI
| PubMed | Europe PMC
2003 | Journal Article | IST-REx-ID: 4348
Huelsenbeck J, Nielsen R, Bollback JP. 2003. Stochastic mapping of morphological characters. Systematic Biology. 52(2), 131–158.
View
| DOI
| PubMed | Europe PMC
2002 | Journal Article | IST-REx-ID: 4349
Bollback JP. 2002. Bayesian model adequacy and choice in phylogenetics. Molecular Biology and Evolution. 19(7), 1171–80.
View
| DOI
| PubMed | Europe PMC
2002 | Journal Article | IST-REx-ID: 4347
Huelsenbeck J, Bollback JP, Levine A. 2002. Inferring the root of a phylogenetic tree. Systematic Biology. 51(1), 32–43.
View
| DOI
| PubMed | Europe PMC
2001 | Journal Article | IST-REx-ID: 4229
Bollback JP, Huelsenbeck J. 2001. Phylogeny, genome evolution, and host specificity of single-stranded RNA bacteriophage (Family Leviviridae). Journal of Molecular Evolution. 52(2), 117–128.
View
| DOI
| PubMed | Europe PMC
2001 | Journal Article | IST-REx-ID: 3440
Huelsenbeck J, Bollback JP. 2001. Empirical and hierarchical Bayesian estimation of ancestral states. Systematic Biology. 50(3), 351–366.
View
| DOI
| PubMed | Europe PMC
2001 | Journal Article | IST-REx-ID: 3438
Huelsenbeck J, Ronquist F, Nielsen R, Bollback JP. 2001. Bayesian inference of phylogeny and its impact on evolutionary biology. Science. 294(5550), 2310–2314.
View
| DOI
| PubMed | Europe PMC
37 Publications
2022 | Journal Article | IST-REx-ID: 10736 |
Lagator M, Sarikas S, Steinrueck M, Toledo-Aparicio D, Bollback JP, Guet CC, Tkačik G. 2022. Predicting bacterial promoter function and evolution from random sequences. eLife. 11, e64543.
[Published Version]
View
| Files available
| DOI
| WoS
| PubMed | Europe PMC
2020 | Journal Article | IST-REx-ID: 7652 |
Tomanek I, Grah R, Lagator M, Andersson AMC, Bollback JP, Tkačik G, Guet CC. 2020. Gene amplification as a form of population-level gene expression regulation. Nature Ecology & Evolution. 4(4), 612–625.
[Submitted Version]
View
| Files available
| DOI
| WoS
2018 | Journal Article | IST-REx-ID: 423 |
Payne P, Geyrhofer L, Barton NH, Bollback JP. 2018. CRISPR-based herd immunity can limit phage epidemics in bacterial populations. eLife. 7, e32035.
[Published Version]
View
| Files available
| DOI
| WoS
2018 | Research Data Reference | IST-REx-ID: 9840 |
Payne P, Geyrhofer L, Barton NH, Bollback JP. 2018. Data from: CRISPR-based herd immunity limits phage epidemics in bacterial populations, Dryad, 10.5061/dryad.42n44.
[Published Version]
View
| Files available
| DOI
| Download Published Version (ext.)
2018 | Journal Article | IST-REx-ID: 67 |
Igler C, Lagator M, Tkačik G, Bollback JP, Guet CC. 2018. Evolutionary potential of transcription factors for gene regulatory rewiring. Nature Ecology and Evolution. 2(10), 1633–1643.
[Submitted Version]
View
| Files available
| DOI
| WoS
2018 | Research Data | IST-REx-ID: 5585 |
Igler C, Lagator M, Tkačik G, Bollback JP, Guet CC. 2018. Data for the paper Evolutionary potential of transcription factors for gene regulatory rewiring, Institute of Science and Technology Austria, 10.15479/AT:ISTA:108.
[Published Version]
View
| Files available
| DOI
2017 | Journal Article | IST-REx-ID: 570 |
Lagator M, Sarikas S, Acar H, Bollback JP, Guet CC. 2017. Regulatory network structure determines patterns of intermolecular epistasis. eLife. 6, e28921.
[Published Version]
View
| Files available
| DOI
2017 | Journal Article | IST-REx-ID: 1077 |
Fernandes Redondo RA, de Vladar H, Włodarski T, Bollback JP. 2017. Evolutionary interplay between structure, energy and epistasis in the coat protein of the ϕX174 phage family. Journal of the Royal Society Interface. 14(126), 20160139.
[Published Version]
View
| Files available
| DOI
| WoS
2017 | Journal Article | IST-REx-ID: 954 |
Lagator M, Paixao T, Barton NH, Bollback JP, Guet CC. 2017. On the mechanistic nature of epistasis in a canonical cis-regulatory element. eLife. 6, e25192.
[Published Version]
View
| Files available
| DOI
| WoS
2016 | Journal Article | IST-REx-ID: 1427 |
Lagator M, Igler C, Moreno A, Guet CC, Bollback JP. 2016. Epistatic interactions in the arabinose cis-regulatory element. Molecular Biology and Evolution. 33(3), 761–769.
[Published Version]
View
| Files available
| DOI
2016 | Research Data Reference | IST-REx-ID: 9864 |
Fernandes Redondo RA, de Vladar H, Włodarski T, Bollback JP. 2016. Data from evolutionary interplay between structure, energy and epistasis in the coat protein of the ϕX174 phage family, The Royal Society, 10.6084/m9.figshare.4315652.v1.
[Published Version]
View
| Files available
| DOI
| Download Published Version (ext.)
2014 | Journal Article | IST-REx-ID: 2042 |
Kupczok A, Bollback JP. 2014. Motif depletion in bacteriophages infecting hosts with CRISPR systems. BMC Genomics. 15(1), 663.
[Published Version]
View
| Files available
| DOI
2013 | Journal Article | IST-REx-ID: 2412 |
Kupczok A, Bollback JP. 2013. Probabilistic models for CRISPR spacer content evolution . BMC Evolutionary Biology. 13(1), 54–54.
[Published Version]
View
| Files available
| DOI
2013 | Journal Article | IST-REx-ID: 2410 |
Fernandes Redondo RA, Kupczok A, Stift G, Bollback JP. 2013. Complete genome sequence of the novel phage MG-B1 infecting bacillus weihenstephanensis. Genome Announcements. 1(3).
[Published Version]
View
| Files available
| DOI
2013 | Journal Article | IST-REx-ID: 500 |
Ward M, Lycett S, Avila D, Bollback JP, Leigh Brown A. 2013. Evolutionary interactions between haemagglutinin and neuraminidase in avian influenza. BMC Evolutionary Biology. 13(1), 222.
[Published Version]
View
| Files available
| DOI
2010 | Journal Article | IST-REx-ID: 4358
Guinane C, Ben Zakour N, Tormo Mas M, Weinert L, Lowder B, Cartwright R, Smyth D, Smyth C, Lindsay J, Gould K, Witney A, Hinds J, Bollback JP, Rambaut A, Penades J, Fitzgerald JR. 2010. Evolutionary genomics of Staphylococcus aureus reveals insights into the origin and molecular basis of ruminant host adaptation. Genome Biology and Evolution. 2, 454–466.
View
| DOI
2008 | Journal Article | IST-REx-ID: 3435 |
Bollback JP, York T, Nielsen R. 2008. Estimation of 2Nes From Temporal Allele Frequency Data. Genetics. 179(1), 497–502.
View
| DOI
| Download (ext.)
2007 | Journal Article | IST-REx-ID: 4354
Freyhult E, Bollback JP, Gardner P. 2007. Exploring genomic dark matter: a critical assessment of the performance of homology search methods on noncoding RNA. Genome Research. 17(1), 117–25.
View
| DOI
| Download (ext.)
2006 | Journal Article | IST-REx-ID: 4352
Conn J, Vineis J, Bollback JP, Onyabe D, Wilkerson R, Povoa M. 2006. 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. 74(5), 798–806.
View
| Download (ext.)
2003 | Journal Article | IST-REx-ID: 4350
Harshman J, Huddleston C, Bollback JP, Parsons T, Braun M. 2003. True and false gharials: A nuclear gene phylogeny of crocodylia. Systematic Biology. 52(3), 386–402.
View
| DOI
| PubMed | Europe PMC
2003 | Journal Article | IST-REx-ID: 4348
Huelsenbeck J, Nielsen R, Bollback JP. 2003. Stochastic mapping of morphological characters. Systematic Biology. 52(2), 131–158.
View
| DOI
| PubMed | Europe PMC
2002 | Journal Article | IST-REx-ID: 4349
Bollback JP. 2002. Bayesian model adequacy and choice in phylogenetics. Molecular Biology and Evolution. 19(7), 1171–80.
View
| DOI
| PubMed | Europe PMC
2002 | Journal Article | IST-REx-ID: 4347
Huelsenbeck J, Bollback JP, Levine A. 2002. Inferring the root of a phylogenetic tree. Systematic Biology. 51(1), 32–43.
View
| DOI
| PubMed | Europe PMC
2001 | Journal Article | IST-REx-ID: 4229
Bollback JP, Huelsenbeck J. 2001. Phylogeny, genome evolution, and host specificity of single-stranded RNA bacteriophage (Family Leviviridae). Journal of Molecular Evolution. 52(2), 117–128.
View
| DOI
| PubMed | Europe PMC
2001 | Journal Article | IST-REx-ID: 3440
Huelsenbeck J, Bollback JP. 2001. Empirical and hierarchical Bayesian estimation of ancestral states. Systematic Biology. 50(3), 351–366.
View
| DOI
| PubMed | Europe PMC
2001 | Journal Article | IST-REx-ID: 3438
Huelsenbeck J, Ronquist F, Nielsen R, Bollback JP. 2001. Bayesian inference of phylogeny and its impact on evolutionary biology. Science. 294(5550), 2310–2314.
View
| DOI
| PubMed | Europe PMC