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Genetic perturbation of PU.1 binding and chromatin looping at neutrophil enhancers associates with autoimmune disease.
Published in:
Nature Communications, 2021, v. 12, n. 1, p. 1, doi. 10.1038/s41467-021-22548-8
By:
- Watt, Stephen;
- Vasquez, Louella;
- Walter, Klaudia;
- Mann, Alice L.;
- Kundu, Kousik;
- Chen, Lu;
- Sims, Ying;
- Ecker, Simone;
- Burden, Frances;
- Farrow, Samantha;
- Farr, Ben;
- Iotchkova, Valentina;
- Elding, Heather;
- Mead, Daniel;
- Tardaguila, Manuel;
- Ponstingl, Hannes;
- Richardson, David;
- Datta, Avik;
- Flicek, Paul;
- Clarke, Laura
Publication type:
Article
A reference genome for the Andean cavefish Trichomycterus rosablanca (Siluriformes, Trichomycteridae): Building genomic resources to study evolution in cave environments.
Published in:
Journal of Heredity, 2024, v. 115, n. 3, p. 311, doi. 10.1093/jhered/esae019
By:
- Cadena, Carlos Daniel;
- Pabón, Laura;
- DoNascimiento, Carlos;
- Abueg, Linelle;
- Tilley, Tatiana;
- O-Toole, Brian;
- Absolon, Dominic;
- Sims, Ying;
- Formenti, Giulio;
- Fedrigo, Olivier;
- Jarvis, Erich D;
- Torres, Mauricio
Publication type:
Article
A chromosome-level genome assembly for the dugong (Dugong dugon).
Published in:
Journal of Heredity, 2024, v. 115, n. 2, p. 212, doi. 10.1093/jhered/esae003
By:
- Baker, Dorothy Nevé;
- Abueg, Linelle;
- Escalona, Merly;
- Farquharson, Katherine A;
- Lanyon, Janet M;
- Duc, Diana Le;
- Schöneberg, Torsten;
- Absolon, Dominic;
- Sims, Ying;
- Fedrigo, Olivier;
- Jarvis, Erich D;
- Belov, Katherine;
- Hogg, Carolyn J;
- Shapiro, Beth
Publication type:
Article
Significantly improving the quality of genome assemblies through curation.
Published in:
GigaScience, 2021, v. 10, n. 1, p. 1, doi. 10.1093/gigascience/giaa153
By:
- Howe, Kerstin;
- Chow, William;
- Collins, Joanna;
- Pelan, Sarah;
- Pointon, Damon-Lee;
- Sims, Ying;
- Torrance, James;
- Tracey, Alan;
- Wood, Jonathan
Publication type:
Article
The gene-rich genome of the scallop Pecten maximus.
Published in:
GigaScience, 2020, v. 9, n. 5, p. N.PAG, doi. 10.1093/gigascience/giaa037
By:
- Kenny, Nathan J;
- McCarthy, Shane A;
- Dudchenko, Olga;
- James, Katherine;
- Betteridge, Emma;
- Corton, Craig;
- Dolucan, Jale;
- Mead, Dan;
- Oliver, Karen;
- Omer, Arina D;
- Pelan, Sarah;
- Ryan, Yan;
- Sims, Ying;
- Skelton, Jason;
- Smith, Michelle;
- Torrance, James;
- Weisz, David;
- Wipat, Anil;
- Aiden, Erez L;
- Howe, Kerstin
Publication type:
Article
Genomics of cold adaptations in the Antarctic notothenioid fish radiation.
Published in:
Nature Communications, 2023, v. 14, n. 1, p. 1, doi. 10.1038/s41467-023-38567-6
By:
- Bista, Iliana;
- Wood, Jonathan M. D.;
- Desvignes, Thomas;
- McCarthy, Shane A.;
- Matschiner, Michael;
- Ning, Zemin;
- Tracey, Alan;
- Torrance, James;
- Sims, Ying;
- Chow, William;
- Smith, Michelle;
- Oliver, Karen;
- Haggerty, Leanne;
- Salzburger, Walter;
- Postlethwait, John H.;
- Howe, Kerstin;
- Clark, Melody S.;
- William Detrich III, H.;
- Christina Cheng, C.-H.;
- Miska, Eric A.
Publication type:
Article
Chromosome level genome assembly of the Etruscan shrew Suncus etruscus.
Published in:
Scientific Data, 2024, v. 11, n. 1, p. 1, doi. 10.1038/s41597-024-03011-x
By:
- Bukhman, Yury V.;
- Meyer, Susanne;
- Chu, Li-Fang;
- Abueg, Linelle;
- Antosiewicz-Bourget, Jessica;
- Balacco, Jennifer;
- Brecht, Michael;
- Dinatale, Erica;
- Fedrigo, Olivier;
- Formenti, Giulio;
- Fungtammasan, Arkarachai;
- Giri, Swagarika Jaharlal;
- Hiller, Michael;
- Howe, Kerstin;
- Kihara, Daisuke;
- Mamott, Daniel;
- Mountcastle, Jacquelyn;
- Pelan, Sarah;
- Rabbani, Keon;
- Sims, Ying
Publication type:
Article
Caecilian Genomes Reveal the Molecular Basis of Adaptation and Convergent Evolution of Limblessness in Snakes and Caecilians.
Published in:
Molecular Biology & Evolution, 2023, v. 40, n. 5, p. 1, doi. 10.1093/molbev/msad102
By:
- Ovchinnikov, Vladimir;
- Uliano-Silva, Marcela;
- Wilkinson, Mark;
- Wood, Jonathan;
- Smith, Michelle;
- Oliver, Karen;
- Sims, Ying;
- Torrance, James;
- Suh, Alexander;
- McCarthy, Shane A;
- Durbin, Richard;
- O'Connell, Mary J
Publication type:
Article
A high-quality, chromosome-level genome assembly of the Black Soldier Fly (Hermetia illucens L.).
Published in:
G3: Genes | Genomes | Genetics, 2021, v. 11, n. 5, p. 1, doi. 10.1093/g3journal/jkab085
By:
- Generalovic, Tomas N.;
- McCarthy, Shane A.;
- Warren, Ian A.;
- Wood, Jonathan M. D.;
- Torrance, James;
- Ying Sims;
- Quail, Michael;
- Howe, Kerstin;
- Pipan, Miha;
- Durbin, Richard;
- Jiggins, Chris D.
Publication type:
Article
Chromosome-scale Genome Assembly of the Rough Periwinkle Littorina saxatilis.
Published in:
Genome Biology & Evolution, 2024, v. 16, n. 4, p. 1, doi. 10.1093/gbe/evae076
By:
- Jode, Aurélien De;
- Faria, Rui;
- Formenti, Giulio;
- Sims, Ying;
- Smith, Timothy P;
- Tracey, Alan;
- Wood, Jonathan M D;
- Zagrodzka, Zuzanna B;
- Johannesson, Kerstin;
- Butlin, Roger K;
- Leder, Erica H
Publication type:
Article
A Chromosome-Level Reference Genome for the Black-Legged Kittiwake (Rissa tridactyla), a Declining Circumpolar Seabird.
Published in:
Genome Biology & Evolution, 2023, v. 15, n. 8, p. 1, doi. 10.1093/gbe/evad153
By:
- Sozzoni, Marcella;
- Obiol, Joan Ferrer;
- Formenti, Giulio;
- Tigano, Anna;
- Paris, Josephine R;
- Balacco, Jennifer R;
- Jain, Nivesh;
- Tilley, Tatiana;
- Collins, Joanna;
- Sims, Ying;
- Wood, Jonathan;
- Benowitz-Fredericks, Z Morgan;
- Field, Kenneth A;
- Seyoum, Eyuel;
- Gatt, Marie Claire;
- Léandri-Breton, Don-Jean;
- Nakajima, Chinatsu;
- Whelan, Shannon;
- Gianfranceschi, Luca;
- Hatch, Scott A
Publication type:
Article
Hi‐C scaffolded short‐ and long‐read genome assemblies of the California sea lion are broadly consistent for syntenic inference across 45 million years of evolution.
Published in:
Molecular Ecology Resources, 2021, v. 21, n. 7, p. 2455, doi. 10.1111/1755-0998.13443
By:
- Peart, Claire R.;
- Williams, Christina;
- Pophaly, Saurabh D.;
- Neely, Benjamin A.;
- Gulland, Frances M. D.;
- Adams, David J.;
- Ng, Bee Ling;
- Cheng, William;
- Goebel, Michael E.;
- Fedrigo, Olivier;
- Haase, Bettina;
- Mountcastle, Jacquelyn;
- Fungtammasan, Arkarachai;
- Formenti, Giulio;
- Collins, Joanna;
- Wood, Jonathan;
- Sims, Ying;
- Torrance, James;
- Tracey, Alan;
- Howe, Kerstin
Publication type:
Article
Prioritizing Endangered Species in Genome Sequencing: Conservation Genomics in Action with the First Platinum-Standard Reference-Quality Genome of the Critically Endangered European Mink Mustela lutreola L., 1761.
Published in:
International Journal of Molecular Sciences, 2023, v. 24, n. 19, p. 14816, doi. 10.3390/ijms241914816
By:
- Skorupski, Jakub;
- Brandes, Florian;
- Seebass, Christian;
- Festl, Wolfgang;
- Śmietana, Przemysław;
- Balacco, Jennifer;
- Jain, Nivesh;
- Tilley, Tatiana;
- Abueg, Linelle;
- Wood, Jonathan;
- Sims, Ying;
- Formenti, Giulio;
- Fedrigo, Olivier;
- Jarvis, Erich D.
Publication type:
Article
Chromosome-level Genome Assembly of Acanthopagrus latus Provides Insights into Salinity Stress Adaptation of Sparidae.
Published in:
Marine Biotechnology, 2022, v. 24, n. 3, p. 655, doi. 10.1007/s10126-022-10119-x
By:
- Lu, Jianguo;
- Gao, Dong;
- Sims, Ying;
- Fang, Wenyu;
- Collins, Joanna;
- Torrance, James;
- Lin, Genmei;
- Xie, Jingui;
- Liu, Jian;
- Howe, Kerstin
Publication type:
Article

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