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covRNA: discovering covariate associations in large-scale gene expression data.
Published in:
BMC Research Notes, 2020, v. 13, n. 1, p. 1, doi. 10.1186/s13104-020-04946-1
By:
- Urban, Lara;
- Remmele, Christian W.;
- Dittrich, Marcus;
- Schwarz, Roland F.;
- Müller, Tobias
Publication type:
Article
Environmental DNA metabarcoding describes biodiversity across marine gradients.
Published in:
ICES Journal of Marine Science / Journal du Conseil, 2023, v. 80, n. 4, p. 953, doi. 10.1093/icesjms/fsad017
By:
- Adams, Clare I M;
- Jeunen, Gert-Jan;
- Cross, Hugh;
- Taylor, Helen R;
- Bagnaro, Antoine;
- Currie, Kim;
- Hepburn, Chris;
- Gemmell, Neil J;
- Urban, Lara;
- Baltar, Federico;
- Stat, Michael;
- Bunce, Michael;
- Knapp, Michael
Publication type:
Article
Freshwater monitoring by nanopore sequencing.
Published in:
eLife, 2021, p. 1, doi. 10.7554/eLife.61504
By:
- Urban, Lara;
- Holzer, Andre;
- Baronas, J. Jotautas;
- Hall, Michael B.;
- Braeuninger-Weimer, Philipp;
- Scherm, Michael J.;
- Kunz, Daniel J.;
- Perera, Surangi N.;
- Martin-Herranz, Daniel E.;
- Tipper, Edward T.;
- Salter, Susannah J.;
- Stammnitz, Maximilian R.
Publication type:
Article
Haplotype-resolved assembly of diploid genomes without parental data.
Published in:
Nature Biotechnology, 2022, v. 40, n. 9, p. 1332, doi. 10.1038/s41587-022-01261-x
By:
- Cheng, Haoyu;
- Jarvis, Erich D.;
- Fedrigo, Olivier;
- Koepfli, Klaus-Peter;
- Urban, Lara;
- Gemmell, Neil J.;
- Li, Heng
Publication type:
Article
The Kipoi repository accelerates community exchange and reuse of predictive models for genomics.
Published in:
2019
By:
- Avsec, Žiga;
- Kreuzhuber, Roman;
- Israeli, Johnny;
- Xu, Nancy;
- Cheng, Jun;
- Shrikumar, Avanti;
- Banerjee, Abhimanyu;
- Kim, Daniel S.;
- Beier, Thorsten;
- Urban, Lara;
- Kundaje, Anshul;
- Stegle, Oliver;
- Gagneur, Julien
Publication type:
Letter
Might Gene Duplication and Neofunctionalization Contribute to the Sexual Lability Observed in Fish?
Published in:
Sexual Development, 2021, v. 15, n. 1-3, p. 122, doi. 10.1159/000515425
By:
- Edgecombe, Jonika;
- Urban, Lara;
- Todd, Erica V.;
- Gemmell, Neil J.
Publication type:
Article
The genetic basis of the kākāpō structural color polymorphism suggests balancing selection by an extinct apex predator.
Published in:
PLoS Biology, 2024, v. 22, n. 9, p. 1, doi. 10.1371/journal.pbio.3002755
By:
- Urban, Lara;
- Santure, Anna W.;
- Uddstrom, Lydia;
- Digby, Andrew;
- Vercoe, Deidre;
- Eason, Daryl;
- Crane, Jodie;
- Wylie, Matthew J.;
- Davis, Tāne;
- LeLec, Marissa F.;
- Guhlin, Joseph;
- Poulton, Simon;
- Slate, Jon;
- Alexander, Alana;
- Fuentes-Cross, Patricia;
- Dearden, Peter K.;
- Gemmell, Neil J.;
- Azeem, Farhan;
- Weyland, Marvin;
- Schwefel, Harald G. L.
Publication type:
Article
Evidence of two deeply divergent co-existing mitochondrial genomes in the Tuatara reveals an extremely complex genomic organization.
Published in:
Communications Biology, 2021, v. 4, n. 1, p. 1, doi. 10.1038/s42003-020-01639-0
By:
- Macey, J. Robert;
- Pabinger, Stephan;
- Barbieri, Charles G.;
- Buring, Ella S.;
- Gonzalez, Vanessa L.;
- Mulcahy, Daniel G.;
- DeMeo, Dustin P.;
- Urban, Lara;
- Hime, Paul M.;
- Prost, Stefan;
- Elliott, Aaron N.;
- Gemmell, Neil J.
Publication type:
Article
Non-invasive real-time genomic monitoring of the critically endangered kākāpō.
Published in:
eLife, 2023, p. 1, doi. 10.7554/eLife.84553
By:
- Urban, Lara;
- Miller, Allison K.;
- Eason, Daryl;
- Vercoe, Deidre;
- Shaffer, Megan;
- Wilkinson, Shaun P.;
- Jeunen, Gert-Jan;
- Gemmell, Neil J.;
- Digby, Andrew
Publication type:
Article
Real‐time genomics for One Health.
Published in:
Molecular Systems Biology, 2023, v. 19, n. 8, p. 1, doi. 10.15252/msb.202311686
By:
- Urban, Lara;
- Perlas, Albert;
- Francino, Olga;
- Martí‐Carreras, Joan;
- Muga, Brenda A;
- Mwangi, Jenniffer W;
- Boykin Okalebo, Laura;
- Stanton, Jo‐Ann L;
- Black, Amanda;
- Waipara, Nick;
- Fontsere, Claudia;
- Eccles, David;
- Urel, Harika;
- Reska, Tim;
- Morales, Hernán E;
- Palmada‐Flores, Marc;
- Marques‐Bonet, Tomas;
- Watsa, Mrinalini;
- Libke, Zane;
- Erkenswick, Gideon
Publication type:
Article
eLife's new model and its impact on science communication.
Published in:
eLife, 2022, p. 1, doi. 10.7554/eLife.84816
By:
- URBAN, LARA;
- DE NIZ, MARIANA;
- FERNÁNDEZ-CHIAPPE, FLORENCIA;
- EBRAHIMI, HEDYEH;
- HAN, LAURA K. M.;
- MEHTA, DEVANG;
- MENCIA, REGINA;
- MITTAL, DIVYANSH;
- OCHOLA, ELIZABETH;
- QUEZADA, CAROLINA PAZ;
- ROMANI, FACUNDO;
- SINAPAYEN, LANA;
- TAY, ANDY;
- VARMA, AALOK;
- MOHAMED ELKHEIR, LAMIS YAHIA
Publication type:
Article
Hidden impacts of conservation management on fertility of the critically endangered kākāpō.
Published in:
PeerJ, 2023, p. 1, doi. 10.7717/peerj.14675
By:
- Digby, Andrew;
- Eason, Daryl;
- Catalina, Alejandro;
- Lierz, Michael;
- Galla, Stephanie;
- Urban, Lara;
- Le Lec, Marissa F.;
- Guhlin, Joseph;
- Steeves, Tammy E.;
- Dearden, Peter K.;
- Joustra, Tineke;
- Lees, Caroline;
- Davis, Tane;
- Vercoe, Deidre
Publication type:
Article
Capturing species‐wide diversity of the gut microbiota and its relationship with genomic variation in the critically endangered kākāpō.
Published in:
Molecular Ecology, 2023, v. 32, n. 15, p. 4224, doi. 10.1111/mec.16999
By:
- West, Annie G.;
- Digby, Andrew;
- Santure, Anna W.;
- Guhlin, Joseph G.;
- Dearden, Peter;
- Kākāpō Recovery Team;
- Taylor, Michael W.;
- Urban, Lara
Publication type:
Article
Detection of hidden antibiotic resistance through real-time genomics.
Published in:
Nature Communications, 2024, v. 15, n. 1, p. 1, doi. 10.1038/s41467-024-49851-4
By:
- Sauerborn, Ela;
- Corredor, Nancy Carolina;
- Reska, Tim;
- Perlas, Albert;
- Vargas da Fonseca Atum, Samir;
- Goldman, Nick;
- Wantia, Nina;
- Prazeres da Costa, Clarissa;
- Foster-Nyarko, Ebenezer;
- Urban, Lara
Publication type:
Article
Combined single-cell profiling of expression and DNA methylation reveals splicing regulation and heterogeneity.
Published in:
Genome Biology, 2019, v. 20, n. 1, p. N.PAG, doi. 10.1186/s13059-019-1644-0
By:
- Linker, Stephanie M.;
- Urban, Lara;
- Clark, Stephen J.;
- Chhatriwala, Mariya;
- Amatya, Shradha;
- McCarthy, Davis J.;
- Ebersberger, Ingo;
- Vallier, Ludovic;
- Reik, Wolf;
- Stegle, Oliver;
- Bonder, Marc Jan
Publication type:
Article
Assessing the utility of marine filter feeders for environmental DNA (eDNA) biodiversity monitoring.
Published in:
Molecular Ecology Resources, 2023, v. 23, n. 4, p. 771, doi. 10.1111/1755-0998.13754
By:
- Jeunen, Gert‐Jan;
- Cane, Jasmine S.;
- Ferreira, Sara;
- Strano, Francesca;
- von Ammon, Ulla;
- Cross, Hugh;
- Day, Robert;
- Hesseltine, Sean;
- Ellis, Kaleb;
- Urban, Lara;
- Pearson, Niall;
- Olmedo‐Rojas, Pamela;
- Kardailsky, Anya;
- Gemmell, Neil J.;
- Lamare, Miles
Publication type:
Article
Commonly used Hardy–Weinberg equilibrium filtering schemes impact population structure inferences using RADseq data.
Published in:
Molecular Ecology Resources, 2022, v. 22, n. 7, p. 2599, doi. 10.1111/1755-0998.13646
By:
- Pearman, William S.;
- Urban, Lara;
- Alexander, Alana
Publication type:
Article

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