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Brian Beliveau - Publications

Affiliations: 
University of Washington, Seattle, Seattle, WA 
Area:
Chromosome biology, in situ hybridization
Website:
beliveau.io
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30 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2024 Aguilar R, Camplisson CK, Lin Q, Miga KH, Noble WS, Beliveau BJ. Tigerfish designs oligonucleotide-based in situ hybridization probes targeting intervals of highly repetitive DNA at the scale of genomes. Nature Communications. 15: 1027. PMID 38310092 DOI: 10.1038/s41467-024-45385-x  0.533
2023 Dekker J, Alber F, Aufmkolk S, Beliveau BJ, Bruneau BG, Belmont AS, Bintu L, Boettiger A, Calandrelli R, Disteche CM, Gilbert DM, Gregor T, Hansen AS, Huang B, Huangfu D, et al. Spatial and temporal organization of the genome: Current state and future aims of the 4D nucleome project. Molecular Cell. PMID 37419111 DOI: 10.1016/j.molcel.2023.06.018  0.34
2023 Aguilar R, Camplisson CK, Lin Q, Miga KH, Noble WS, Beliveau BJ. Tigerfish designs oligonucleotide-based hybridization probes targeting intervals of highly repetitive DNA at the scale of genomes. Biorxiv : the Preprint Server For Biology. PMID 36945528 DOI: 10.1101/2023.03.06.530899  0.786
2023 Tsue AF, Kania EE, Lei DQ, Fields R, McGann CD, Hershberg E, Deng X, Kihiu M, Ong SE, Disteche CM, Kugel S, Beliveau BJ, Schweppe DK, Shechner DM. Oligonucleotide-directed proximity-interactome mapping (O-MAP): A unified method for discovering RNA-interacting proteins, transcripts and genomic loci . Biorxiv : the Preprint Server For Biology. PMID 36711823 DOI: 10.1101/2023.01.19.524825  0.754
2023 Generoso SF, Neguembor MV, Hershberg EA, Sadreyev RI, Kurimoto K, Yabuta Y, Ricci R, Audergon P, Bauer M, Saitou M, Hochedlinger K, Beliveau BJ, Cosma MP, Lee JT, Payer B. Cohesin controls X chromosome structure remodeling and X-reactivation during mouse iPSC-reprogramming. Proceedings of the National Academy of Sciences of the United States of America. 120: e2213810120. PMID 36669113 DOI: 10.1073/pnas.2213810120  0.768
2022 Deng Z, Beliveau BJ. An open source 16-channel fluidics system for automating sequential fluorescent hybridization (FISH)-based imaging. Hardwarex. 12: e00343. PMID 35959194 DOI: 10.1016/j.ohx.2022.e00343  0.334
2021 Hershberg EA, Camplisson CK, Close JL, Attar S, Chern R, Liu Y, Akilesh S, Nicovich PR, Beliveau BJ. Author Correction: PaintSHOP enables the interactive design of transcriptome- and genome-scale oligonucleotide FISH experiments. Nature Methods. PMID 34480162 DOI: 10.1038/s41592-021-01273-6  0.782
2021 Hershberg EA, Camplisson CK, Close JL, Attar S, Chern R, Liu Y, Akilesh S, Nicovich PR, Beliveau BJ. PaintSHOP enables the interactive design of transcriptome- and genome-scale oligonucleotide FISH experiments. Nature Methods. PMID 34226720 DOI: 10.1038/s41592-021-01187-3  0.816
2020 Nguyen HQ, Chattoraj S, Castillo D, Nguyen SC, Nir G, Lioutas A, Hershberg EA, Martins NMC, Reginato PL, Hannan M, Beliveau BJ, Church GM, Daugharthy ER, Marti-Renom MA, Wu CT. 3D mapping and accelerated super-resolution imaging of the human genome using in situ sequencing. Nature Methods. PMID 32719531 DOI: 10.1038/S41592-020-0890-0  0.806
2020 Passaro M, Martinovic M, Bevilacqua V, Hershberg EA, Rossetti G, Beliveau BJ, Bonnal RJP, Pagani M. OligoMinerApp: a web-server application for the design of genome-scale oligonucleotide in situ hybridization probes through the flexible OligoMiner environment. Nucleic Acids Research. 48: W332-W339. PMID 32313927 DOI: 10.1093/nar/gkaa251  0.815
2020 Lee YCG, Ogiyama Y, Martins NMC, Beliveau BJ, Acevedo D, Wu CT, Cavalli G, Karpen GH. Pericentromeric heterochromatin is hierarchically organized and spatially contacts H3K9me2 islands in euchromatin. Plos Genetics. 16: e1008673. PMID 32203508 DOI: 10.1371/journal.pgen.1008673  0.348
2019 Minev D, Guerra R, Kishi JY, Smith C, Krieg E, Said K, Hornick A, Sasaki HM, Filsinger G, Beliveau BJ, Yin P, Church GM, Shih WM. Rapid in vitro production of single-stranded DNA. Nucleic Acids Research. PMID 31713635 DOI: 10.1093/Nar/Gkz998  0.456
2019 Saka SK, Wang Y, Kishi JY, Zhu A, Zeng Y, Xie W, Kirli K, Yapp C, Cicconet M, Beliveau BJ, Lapan SW, Yin S, Lin M, Boyden ES, Kaeser PS, et al. Immuno-SABER enables highly multiplexed and amplified protein imaging in tissues. Nature Biotechnology. PMID 31427819 DOI: 10.1038/S41587-019-0207-Y  0.482
2019 Kishi JY, Lapan SW, Beliveau BJ, West ER, Zhu A, Sasaki HM, Saka SK, Wang Y, Cepko CL, Yin P. SABER amplifies FISH: enhanced multiplexed imaging of RNA and DNA in cells and tissues. Nature Methods. PMID 31110282 DOI: 10.1038/S41592-019-0404-0  0.587
2019 Chang CH, Chavan A, Palladino J, Wei X, Martins NMC, Santinello B, Chen CC, Erceg J, Beliveau BJ, Wu CT, Larracuente AM, Mellone BG. Islands of retroelements are major components of Drosophila centromeres. Plos Biology. 17: e3000241. PMID 31086362 DOI: 10.1371/Journal.Pbio.3000241  0.577
2018 Nir G, Farabella I, Pérez Estrada C, Ebeling CG, Beliveau BJ, Sasaki HM, Lee SH, Nguyen SC, McCole RB, Chattoraj S, Erceg J, AlHaj Abed J, Martins NMC, Nguyen HQ, Hannan MA, et al. Walking along chromosomes with super-resolution imaging, contact maps, and integrative modeling. Plos Genetics. 14: e1007872. PMID 30586358 DOI: 10.1371/Journal.Pgen.1007872  0.799
2018 Beliveau BJ, Kishi JY, Nir G, Sasaki HM, Saka SK, Nguyen SC, Wu CT, Yin P. OligoMiner provides a rapid, flexible environment for the design of genome-scale oligonucleotide in situ hybridization probes. Proceedings of the National Academy of Sciences of the United States of America. PMID 29463736 DOI: 10.1073/Pnas.1714530115  0.805
2017 Schueder F, Lara-Gutiérrez J, Beliveau BJ, Saka SK, Sasaki HM, Woehrstein JB, Strauss MT, Grabmayr H, Yin P, Jungmann R. Multiplexed 3D super-resolution imaging of whole cells using spinning disk confocal microscopy and DNA-PAINT. Nature Communications. 8: 2090. PMID 29233999 DOI: 10.1038/S41467-017-02028-8  0.654
2017 Beliveau BJ, Boettiger AN, Nir G, Bintu B, Yin P, Zhuang X, Wu CT. In Situ Super-Resolution Imaging of Genomic DNA with OligoSTORM and OligoDNA-PAINT. Methods in Molecular Biology (Clifton, N.J.). 1663: 231-252. PMID 28924672 DOI: 10.1007/978-1-4939-7265-4_19  0.536
2016 Wang S, Su JH, Beliveau BJ, Bintu B, Moffitt JR, Wu CT, Zhuang X. Spatial organization of chromatin domains and compartments in single chromosomes. Science (New York, N.Y.). PMID 27445307 DOI: 10.1126/Science.Aaf8084  0.592
2016 Boettiger AN, Bintu B, Moffitt JR, Wang S, Beliveau BJ, Fudenberg G, Imakaev M, Mirny LA, Wu CT, Zhuang X. Super-resolution imaging reveals distinct chromatin folding for different epigenetic states. Nature. PMID 26760202 DOI: 10.1038/Nature16496  0.509
2015 Schmidt TL, Beliveau BJ, Uca YO, Theilmann M, Da Cruz F, Wu CT, Shih WM. Scalable amplification of strand subsets from chip-synthesized oligonucleotide libraries. Nature Communications. 6: 8634. PMID 26567534 DOI: 10.1038/Ncomms9634  0.535
2015 Beliveau BJ, Boettiger AN, Avendaño MS, Jungmann R, McCole RB, Joyce EF, Kim-Kiselak C, Bantignies F, Fonseka CY, Erceg J, Hannan MA, Hoang HG, Colognori D, Lee JT, Shih WM, et al. Single-molecule super-resolution imaging of chromosomes and in situ haplotype visualization using Oligopaint FISH probes. Nature Communications. 6: 7147. PMID 25962338 DOI: 10.1038/Ncomms8147  0.785
2015 Pinter SF, Colognori D, Beliveau BJ, Sadreyev RI, Payer B, Yildirim E, Wu CT, Lee JT. Allelic Imbalance Is a Prevalent and Tissue-Specific Feature of the Mouse Transcriptome. Genetics. 200: 537-49. PMID 25858912 DOI: 10.1534/Genetics.115.176263  0.482
2015 Zordan RE, Beliveau BJ, Trow JA, Craig NL, Cormack BP. Avoiding the ends: internal epitope tagging of proteins using transposon Tn7. Genetics. 200: 47-58. PMID 25745023 DOI: 10.1534/Genetics.114.169482  0.605
2014 Murgha Y, Beliveau B, Semrau K, Schwartz D, Wu CT, Gulari E, Rouillard JM. Combined in vitro transcription and reverse transcription to amplify and label complex synthetic oligonucleotide probe libraries. Biotechniques. 58: 301-7. PMID 26054766 DOI: 10.2144/000114298  0.602
2014 Beliveau BJ, Apostolopoulos N, Wu CT. Visualizing genomes with Oligopaint FISH probes. Current Protocols in Molecular Biology / Edited by Frederick M. Ausubel ... [Et Al.]. 105: Unit 14.23.. PMID 24510436 DOI: 10.1002/0471142727.mb1423s105  0.64
2013 Joyce EF, Apostolopoulos N, Beliveau BJ, Wu CT. Germline progenitors escape the widespread phenomenon of homolog pairing during Drosophila development. Plos Genetics. 9: e1004013. PMID 24385920 DOI: 10.1371/journal.pgen.1004013  0.7
2013 Beliveau BJ, Joyce EF, Apostolopoulosa N, Yilmaza F, Fonseka CY, McCole RB, Chang Y, Li JB, Senaratne TN, Williams BR, Rouillard J, Wu C. Oligopaints: highly efficient, bioinformatically designed probes for fluorescence in situ hybridization Epigenetics & Chromatin. 6. DOI: 10.1186/1756-8935-6-S1-P5  0.824
2012 Beliveau BJ, Joyce EF, Apostolopoulos N, Yilmaz F, Fonseka CY, McCole RB, Chang Y, Li JB, Senaratne TN, Williams BR, Rouillard JM, Wu CT. Versatile design and synthesis platform for visualizing genomes with Oligopaint FISH probes. Proceedings of the National Academy of Sciences of the United States of America. 109: 21301-6. PMID 23236188 DOI: 10.1073/Pnas.1213818110  0.815
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