Chromosome-level assembly of the water buffalo genome surpasses human and goat genomes in sequence contiguity
Low, Wai Yee, Tearle, Rick, Bickhart, Derek M., Rosen, Benjamin D., Kingan, Sarah B., Swale, Thomas, Thibaud-Nissen, Françoise, Murphy, Terence D., Young, Rachel, Lefevre, Lucas, Hume, David A., Collins, Andrew, Ajmone-Marsan, Paolo, Smith, Timothy P. L., Williams, John L.
Published in Nature communications (16.01.2019)
Published in Nature communications (16.01.2019)
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Journal Article
Extended haplotype-phasing of long-read de novo genome assemblies using Hi-C
Kronenberg, Zev N., Rhie, Arang, Koren, Sergey, Concepcion, Gregory T., Peluso, Paul, Munson, Katherine M., Porubsky, David, Kuhn, Kristen, Mueller, Kathryn A., Low, Wai Yee, Hiendleder, Stefan, Fedrigo, Olivier, Liachko, Ivan, Hall, Richard J., Phillippy, Adam M., Eichler, Evan E., Williams, John L., Smith, Timothy P. L., Jarvis, Erich D., Sullivan, Shawn T., Kingan, Sarah B.
Published in Nature communications (28.04.2021)
Published in Nature communications (28.04.2021)
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Journal Article
Long read isoform sequencing reveals hidden transcriptional complexity between cattle subspecies
Ren, Yan, Tseng, Elizabeth, Smith, Timothy P L, Hiendleder, Stefan, Williams, John L, Low, Wai Yee
Published in BMC genomics (13.03.2023)
Published in BMC genomics (13.03.2023)
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Journal Article
Analysis of immune-related microRNAs in cows and newborn calves
Hue, Do T., Petrovski, Kiro, Chen, Tong, Williams, John L., Bottema, Cynthia D.K.
Published in Journal of dairy science (01.04.2023)
Published in Journal of dairy science (01.04.2023)
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Journal Article
Responses of Bovine Innate Immunity to Mycobacterium avium subsp. paratuberculosis Infection Revealed by Changes in Gene Expression and Levels of MicroRNA
Malvisi, Michela, Palazzo, Fiorentina, Morandi, Nicola, Lazzari, Barbara, Williams, John L, Pagnacco, Giulio, Minozzi, Giulietta
Published in PloS one (19.10.2016)
Published in PloS one (19.10.2016)
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Journal Article
Haplotype-resolved genomes provide insights into structural variation and gene content in Angus and Brahman cattle
Low, Wai Yee, Tearle, Rick, Liu, Ruijie, Koren, Sergey, Rhie, Arang, Bickhart, Derek M., Rosen, Benjamin D., Kronenberg, Zev N., Kingan, Sarah B., Tseng, Elizabeth, Thibaud-Nissen, Françoise, Martin, Fergal J., Billis, Konstantinos, Ghurye, Jay, Hastie, Alex R., Lee, Joyce, Pang, Andy W. C., Heaton, Michael P., Phillippy, Adam M., Hiendleder, Stefan, Smith, Timothy P. L., Williams, John L.
Published in Nature communications (29.04.2020)
Published in Nature communications (29.04.2020)
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Journal Article
Whole genome analysis of water buffalo and global cattle breeds highlights convergent signatures of domestication
Dutta, Prasun, Talenti, Andrea, Young, Rachel, Jayaraman, Siddharth, Callaby, Rebecca, Jadhav, Santosh Kumar, Dhanikachalam, Velu, Manikandan, Mayakannan, Biswa, Bhim B., Low, Wai Y., Williams, John L., Cook, Elizabeth, Toye, Phil, Wall, Eileen, Djikeng, Appolinaire, Marshall, Karen, Archibald, Alan L., Gokhale, Suresh, Kumar, Satish, Hume, David A., Prendergast, James G. D.
Published in Nature communications (21.09.2020)
Published in Nature communications (21.09.2020)
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Journal Article
Genome wide analysis of fertility and production traits in Italian Holstein cattle
Minozzi, Giulietta, Nicolazzi, Ezequiel L, Stella, Alessandra, Biffani, Stefano, Negrini, Riccardo, Lazzari, Barbara, Ajmone-Marsan, Paolo, Williams, John L
Published in PloS one (12.11.2013)
Published in PloS one (12.11.2013)
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Journal Article
Study of whole genome linkage disequilibrium patterns of Iranian water buffalo breeds using the Axiom Buffalo Genotyping 90K Array
Mokhber, Mahdi, Shahrbabak, Mohammad Moradi, Sadeghi, Mostafa, Shahrbabak, Hossein Moradi, Stella, Alessandra, Nicolzzi, Ezequiel, Williams, John L
Published in PloS one (31.05.2019)
Published in PloS one (31.05.2019)
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Journal Article
RNA-sequence analysis of gene expression from honeybees (Apis mellifera) infected with Nosema ceranae
Badaoui, Bouabid, Fougeroux, André, Petit, Fabien, Anselmo, Anna, Gorni, Chiara, Cucurachi, Marco, Cersini, Antonella, Granato, Anna, Cardeti, Giusy, Formato, Giovanni, Mutinelli, Franco, Giuffra, Elisabetta, Williams, John L, Botti, Sara
Published in PloS one (28.03.2017)
Published in PloS one (28.03.2017)
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Journal Article
A genome-wide scan for signatures of selection in Azeri and Khuzestani buffalo breeds
Mokhber, Mahdi, Moradi-Shahrbabak, Mohammad, Sadeghi, Mostafa, Moradi-Shahrbabak, Hossein, Stella, Alessandra, Nicolzzi, Ezequiel, Rahmaninia, Javad, Williams, John L
Published in BMC genomics (11.06.2018)
Published in BMC genomics (11.06.2018)
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Journal Article
Maternal peri-conceptional undernourishment perturbs offspring sperm methylome
Toschi, Paola, Capra, Emanuele, Anzalone, Debora A, Lazzari, Barbara, Turri, Federica, Pizzi, Flavia, Scapolo, Pier A, Stella, Alessandra, Williams, John L, Ajmone Marsan, Paolo, Loi, Pasqualino
Published in Reproduction (Cambridge, England) (01.05.2020)
Published in Reproduction (Cambridge, England) (01.05.2020)
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Journal Article
Distinctive gene expression patterns and imprinting signatures revealed in reciprocal crosses between cattle sub-species
Liu, Ruijie, Tearle, Rick, Low, Wai Yee, Chen, Tong, Thomsen, Dana, Smith, Timothy P L, Hiendleder, Stefan, Williams, John L
Published in BMC genomics (03.06.2021)
Published in BMC genomics (03.06.2021)
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Journal Article
AffyPipe: an open-source pipeline for Affymetrix Axiom genotyping workflow
Nicolazzi, Ezequiel L, Iamartino, Daniela, Williams, John L
Published in Bioinformatics (Oxford, England) (01.11.2014)
Published in Bioinformatics (Oxford, England) (01.11.2014)
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Journal Article
The distribution of runs of homozygosity in the genome of river and swamp buffaloes reveals a history of adaptation, migration and crossbred events
Macciotta, Nicolo P P, Colli, Licia, Cesarani, Alberto, Ajmone-Marsan, Paolo, Low, Wai Y, Tearle, Rick, Williams, John L
Published in Genetics selection evolution (Paris) (27.02.2021)
Published in Genetics selection evolution (Paris) (27.02.2021)
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Journal Article
New insights into mammalian sex chromosome structure and evolution using high-quality sequences from bovine X and Y chromosomes
Liu, Ruijie, Low, Wai Yee, Tearle, Rick, Koren, Sergey, Ghurye, Jay, Rhie, Arang, Phillippy, Adam M, Rosen, Benjamin D, Bickhart, Derek M, Smith, Timothy P L, Hiendleder, Stefan, Williams, John L
Published in BMC genomics (19.12.2019)
Published in BMC genomics (19.12.2019)
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Journal Article
Integrative analysis of methylomic and transcriptomic data in fetal sheep muscle tissues in response to maternal diet during pregnancy
Namous, Hadjer, Peñagaricano, Francisco, Del Corvo, Marcello, Capra, Emanuele, Thomas, David L, Stella, Alessandra, Williams, John L, Marsan, Paolo Ajmone, Khatib, Hasan
Published in BMC genomics (06.02.2018)
Published in BMC genomics (06.02.2018)
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Journal Article
A genetically unique Chinese cattle population shows evidence of common ancestry with wild species when analysed with a reduced ascertainment bias SNP panel
Barbato, Mario, Reichel, Michael P, Passamonti, Matilde, Low, Wai Yee, Colli, Licia, Tearle, Rick, Williams, John L, Ajmone Marsan, Paolo
Published in PloS one (09.04.2020)
Published in PloS one (09.04.2020)
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