An ancient viral epidemic involving host coronavirus interacting genes more than 20,000 years ago in East Asia
Souilmi, Yassine, Lauterbur, M. Elise, Tobler, Ray, Huber, Christian D., Johar, Angad S., Moradi, Shayli Varasteh, Johnston, Wayne A., Krogan, Nevan J., Alexandrov, Kirill, Enard, David
Published in Current biology (23.08.2021)
Published in Current biology (23.08.2021)
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Journal Article
A global environmental crisis 42,000 years ago
Cooper, Alan, Turney, Chris S M, Palmer, Jonathan, Hogg, Alan, McGlone, Matt, Wilmshurst, Janet, Lorrey, Andrew M, Heaton, Timothy J, Russell, James M, McCracken, Ken, Anet, Julien G, Rozanov, Eugene, Friedel, Marina, Suter, Ivo, Peter, Thomas, Muscheler, Raimund, Adolphi, Florian, Dosseto, Anthony, Faith, J Tyler, Fenwick, Pavla, Fogwill, Christopher J, Hughen, Konrad, Lipson, Mathew, Liu, Jiabo, Nowaczyk, Norbert, Rainsley, Eleanor, Bronk Ramsey, Christopher, Sebastianelli, Paolo, Souilmi, Yassine, Stevenson, Janelle, Thomas, Zoë, Tobler, Raymond, Zech, Roland
Published in Science (American Association for the Advancement of Science) (19.02.2021)
Published in Science (American Association for the Advancement of Science) (19.02.2021)
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Journal Article
Developing reproducible bioinformatics analysis workflows for heterogeneous computing environments to support African genomics
Baichoo, Shakuntala, Souilmi, Yassine, Panji, Sumir, Botha, Gerrit, Meintjes, Ayton, Hazelhurst, Scott, Bendou, Hocine, Beste, Eugene de, Mpangase, Phelelani T, Souiai, Oussema, Alghali, Mustafa, Yi, Long, O'Connor, Brian D, Crusoe, Michael, Armstrong, Don, Aron, Shaun, Joubert, Fourie, Ahmed, Azza E, Mbiyavanga, Mamana, Heusden, Peter van, Magosi, Lerato E, Zermeno, Jennie, Mainzer, Liudmila Sergeevna, Fadlelmola, Faisal M, Jongeneel, C Victor, Mulder, Nicola
Published in BMC bioinformatics (29.11.2018)
Published in BMC bioinformatics (29.11.2018)
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Journal Article
Ancient DNA Studies in Pre-Columbian Mesoamerica
Roca-Rada, Xavier, Souilmi, Yassine, Teixeira, João C, Llamas, Bastien
Published in Genes (13.11.2020)
Published in Genes (13.11.2020)
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Journal Article
Ancient mitochondrial genomes from the Argentinian Pampas inform the early peopling of the Southern Cone of South America
Roca-Rada, Xavier, Politis, Gustavo, Messineo, Pablo G., Scheifler, Nahuel, Scabuzzo, Clara, González, Mariela, Harkins, Kelly M., Reich, David, Souilmi, Yassine, Teixeira, João C., Llamas, Bastien, Fehren-Schmitz, Lars
Published in iScience (25.06.2021)
Published in iScience (25.06.2021)
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Journal Article
A strategy for building and using a human reference pangenome [version 2; peer review: 2 approved]
Llamas, Bastien, Narzisi, Giuseppe, Schneider, Valerie, Audano, Peter A, Biederstedt, Evan, Blauvelt, Lon, Bradbury, Peter, Chang, Xian, Chin, Chen-Shan, Fungtammasan, Arkarachai, Clarke, Wayne E, Cleary, Alan, Ebler, Jana, Eizenga, Jordan, Sibbesen, Jonas A, Markello, Charles J, Garrison, Erik, Garg, Shilpa, Hickey, Glenn, Lazo, Gerard R, Lin, Michael F, Mahmoud, Medhat, Marschall, Tobias, Minkin, Ilia, Monlong, Jean, Musunuri, Rajeeva L, Sagayaradj, Sagayamary, Novak, Adam M, Rautiainen, Mikko, Regier, Allison, Sedlazeck, Fritz J, Siren, Jouni, Souilmi, Yassine, Wagner, Justin, Wrightsman, Travis, Yokoyama, Toshiyuki T, Zeng, Qiandong, Zook, Justin M, Paten, Benedict, Busby, Ben
Published in F1000 research (29.07.2021)
Published in F1000 research (29.07.2021)
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Journal Article
A strategy for building and using a human reference pangenome [version 1; peer review: 1 approved, 1 approved with reservations]
Llamas, Bastien, Narzisi, Giuseppe, Schneider, Valerie, Audano, Peter A, Biederstedt, Evan, Blauvelt, Lon, Bradbury, Peter, Chang, Xian, Chin, Chen-Shan, Fungtammasan, Arkarachai, Clarke, Wayne E, Cleary, Alan, Ebler, Jana, Eizenga, Jordan, Sibbesen, Jonas A, Markello, Charles J, Garrison, Erik, Garg, Shilpa, Hickey, Glenn, Lazo, Gerard R, Lin, Michael F, Mahmoud, Medhat, Marschall, Tobias, Minkin, Ilia, Monlong, Jean, Musunuri, Rajeeva L, Sagayaradj, Sagayamary, Novak, Adam M, Rautiainen, Mikko, Regier, Allison, Sedlazeck, Fritz J, Siren, Jouni, Souilmi, Yassine, Wagner, Justin, Wrightsman, Travis, Yokoyama, Toshiyuki T, Zeng, Qiandong, Zook, Justin M, Paten, Benedict, Busby, Ben
Published in F1000 research (2019)
Published in F1000 research (2019)
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Journal Article
Highlights of the first ISCB Student Council Symposium in Africa 2015
Souilmi, Yassine, Allali, Imane, Badad, Oussama, Dwibedi, Chinmay Kumar
Published in F1000 research (2015)
Published in F1000 research (2015)
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Journal Article
Genozip: a universal extensible genomic data compressor
Lan, Divon, Tobler, Ray, Souilmi, Yassine, Llamas, Bastien
Published in Bioinformatics (Oxford, England) (25.08.2021)
Published in Bioinformatics (Oxford, England) (25.08.2021)
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Journal Article
genozip: a fast and efficient compression tool for VCF files
Lan, Divon, Tobler, Raymond, Souilmi, Yassine, Llamas, Bastien
Published in Bioinformatics (01.07.2020)
Published in Bioinformatics (01.07.2020)
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Journal Article
Systematic benchmark of ancient DNA read mapping
Oliva, Adrien, Tobler, Raymond, Cooper, Alan, Llamas, Bastien, Souilmi, Yassine
Published in Briefings in bioinformatics (02.09.2021)
Published in Briefings in bioinformatics (02.09.2021)
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Journal Article
The role of genetic selection and climatic factors in the dispersal of anatomically modern humans out of Africa
Tobler, Raymond, Souilmi, Yassine, Huber, Christian D, Bean, Nigel, Turney, Chris S M, Grey, Shane T, Cooper, Alan
Published in Proceedings of the National Academy of Sciences - PNAS (30.05.2023)
Published in Proceedings of the National Academy of Sciences - PNAS (30.05.2023)
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Journal Article
Ancient genomes reveal over two thousand years of dingo population structure
Souilmi, Yassine, Wasef, Sally, Williams, Matthew P., Conroy, Gabriel, Bar, Ido, Bover, Pere, Dann, Jackson, Heiniger, Holly, Llamas, Bastien, Ogbourne, Steven, Archer, Michael, Ballard, J. William O., Reed, Elizabeth, Tobler, Raymond, Koungoulos, Loukas, Walshe, Keryn, Wright, Joanne L., Balme, Jane, O’Connor, Sue, Cooper, Alan, Mitchell, Kieren J.
Published in Proceedings of the National Academy of Sciences - PNAS (23.07.2024)
Published in Proceedings of the National Academy of Sciences - PNAS (23.07.2024)
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Journal Article
A 1000-year-old case of Klinefelter's syndrome diagnosed by integrating morphology, osteology, and genetics
Roca-Rada, Xavier, Tereso, Sofia, Rohrlach, Adam B, Brito, André, Williams, Matthew P, Umbelino, Cláudia, Curate, Francisco, Deveson, Ira W, Souilmi, Yassine, Amorim, António, Carvalho, Pedro C, Llamas, Bastien, Teixeira, João C
Published in The Lancet (British edition) (27.08.2022)
Published in The Lancet (British edition) (27.08.2022)
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Journal Article
The impact of the cytoplasmic ubiquitin ligase TNFAIP3 gene variation on transcription factor NF-κB activation in acute kidney injury
Rogers, Natasha M., Zammit, Nathan, Nguyen-Ngo, Danny, Souilmi, Yassine, Minhas, Nikita, Meijles, Daniel N., Self, Eleanor, Walters, Stacey N., Warren, Joanna, Cultrone, Daniele, El-Rashid, Maryam, Li, Jennifer, Chtanova, Tatyana, O’Connell, Philip J., Grey, Shane T.
Published in Kidney international (01.06.2023)
Published in Kidney international (01.06.2023)
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Journal Article
An ancient viral epidemic involving host coronavirus interacting genes more than 20,000 years ago in East Asia
Souilmi, Yassine, Lauterbur, M. Elise, Tobler, Ray, Huber, Christian D., Johar, Angad S., Moradi, Shayli Varasteh, Johnston, Wayne A., Krogan, Nevan J., Alexandrov, Kirill, Enard, David
Published in Current biology (23.08.2021)
Published in Current biology (23.08.2021)
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Journal Article
MC-GenomeKey: a multicloud system for the detection and annotation of genomic variants
Elshazly, Hatem, Souilmi, Yassine, Tonellato, Peter J, Wall, Dennis P, Abouelhoda, Mohamed
Published in BMC bioinformatics (20.01.2017)
Published in BMC bioinformatics (20.01.2017)
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Journal Article
Equitable Expanded Carrier Screening Needs Indigenous Clinical and Population Genomic Data
Easteal, Simon, Arkell, Ruth M., Balboa, Renzo F., Bellingham, Shayne A., Brown, Alex D., Calma, Tom, Cook, Matthew C., Davis, Megan, Dawkins, Hugh J.S., Dinger, Marcel E., Dobbie, Michael S., Farlow, Ashley, Gwynne, Kylie G., Hermes, Azure, Hoy, Wendy E., Jenkins, Misty R., Jiang, Simon H., Kaplan, Warren, Leslie, Stephen, Llamas, Bastien, Mann, Graham J., McMorran, Brendan J., McWhirter, Rebekah E., Meldrum, Cliff J., Nagaraj, Shivashankar H., Newman, Saul J., Nunn, Jack S., Ormond-Parker, Lyndon, Orr, Neil J., Paliwal, Devashi, Patel, Hardip R., Pearson, Glenn, Pratt, Greg R., Rambaldini, Boe, Russell, Lynette W., Savarirayan, Ravi, Silcocks, Matthew, Skinner, John C., Souilmi, Yassine, Vinuesa, Carola G., Baynam, Gareth
Published in American journal of human genetics (06.08.2020)
Published in American journal of human genetics (06.08.2020)
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Journal Article
Response to Comment on "A global environmental crisis 42,000 years ago"
Cooper, Alan, Turney, Chris S M, Palmer, Jonathan, Hogg, Alan, McGlone, Matt, Wilmshurst, Janet, Lorrey, Andrew M, Heaton, Timothy J, Russell, James M, McCracken, Ken, Anet, Julien G, Rozanov, Eugene, Friedel, Marina, Suter, Ivo, Peter, Thomas, Muscheler, Raimund, Adolphi, Florian, Dosseto, Anthony, Faith, J Tyler, Fenwick, Pavla, Fogwill, Christopher J, Hughen, Konrad, Lipson, Matthew, Liu, Jiabo, Nowaczyk, Norbert, Rainsley, Eleanor, Bronk Ramsey, Christopher, Sebastianelli, Paolo, Souilmi, Yassine, Stevenson, Janelle, Thomas, Zoe, Tobler, Raymond, Zech, Roland
Published in Science (American Association for the Advancement of Science) (19.11.2021)
Published in Science (American Association for the Advancement of Science) (19.11.2021)
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Journal Article