Daniel J Gaffney (Daniel Gaffney)

ORCID

Publication Activity (10 Years)

Years Active: 2018-2022
Publications (10 Years): 13

Top Venues

Nature genetics

Nature methods

Nature communications

Nature biotechnology

Wellcome Trust Sanger Institute

University of Edinburgh (PHD)

This page only lists publications with an associated author ORCID identifier.

Affiliation History

Wellcome Trust Sanger Institute Oct 02 2015

United Kingdom

Group Leader :: Cellular Genetics

Wellcome Trust Sanger Institute Jul 15 2011 - Oct 01 2015

United Kingdom

Career Development Fellow Group Leader :: Computational Genomics

University of Chicago Sep 01 2008 - Jul 12 2011

United States

Postdoctoral Fellow :: Human Genetics

McGill University and Genome Québec Innovation Centre Jul 14 2006 - Sep 01 2008

Canada

Postdoctoral Fellow

Education History

University of Edinburgh Sep 01 2002 - Feb 01 2006

United Kingdom

PHD :: Biological Sciences

University of Edinburgh Sep 01 2000 - Sep 01 2001

United Kingdom

MSC :: Biological Sciences

National University of Ireland - Galway Sep 01 1995 - Sep 01 1999

Ireland

BSC :: Science

Publications

Brandon T Wesley, Alexander D B Ross, Daniele Muraro, Zhichiao Miao, Sarah H Saxton, Rute A Tomaz, Carola M Morell, Katherine Ridley, Ekaterini D Zacharis, Sandra Petrus-Reurer, Judith Kraiczy, Krishnaa T A Mahbubani, Stephanie Brown, Jose Garcia-Bernardo, Clara Alsinet, Daniel J Gaffney, Dave Horsfall, Olivia C Tysoe, Rachel Anne Botting, Emily Stephenson, Dorin-Mirel Popescu, Sonya A MacParland, Gary D Baider, Ian D McGilvray, Daniel Ortmann, Fotios Sampaziotis, Kourosh Saeb Parsy, Muzlifah A Haniffa, Kelly R Stevens, Matthias Zilbauer, Sarah A Teichmann, Ludovic Vallier
Single-cell atlas of human liver development reveals pathways directing hepatic cell fates. Nature cell biology 24 (10) (2022)
Foad J Rouhani, Xueqing Zou, Petr Danecek, Cherif Badja, Tauanne Dias Amarante, Gene Koh, Qianxin Wu, Yasin Memari, Richard Durbin, Iñigo Martincorena, Andrew R Bassett, Daniel J Gaffney, Serena Nik-Zainal
Substantial somatic genomic variation and selection for BCOR mutations in human induced pluripotent stem cells. Nature genetics 54 (9) (2022)
Clara Alsinet, Maria Nascimento Primo, Valentina Lorenzi, Erica Bello, Iva Kelava, Carla P Jones, Roser Vilarrasa-Blasi, Carmen Sancho-Serra, Andrew J Knights, Jong-Eun Park, Beata S Wyspianska, Gosia Trynka, David F Tough, Andrew R Bassett, Daniel J Gaffney, Damiana Álvarez-Errico, Roser Vento-Tormo
Robust temporal map of human in vitro myelopoiesis using single-cell genomics. Nature communications 13 (1) (2022)
Wei Wei, Daniel J Gaffney, Patrick F Chinnery
Cell reprogramming shapes the mitochondrial DNA landscape. Nature communications 12 (1) (2021)
Adam M H Young, Natushiko Kumasaka, Fiona Calvert, Timothy R Hammond, Andrew J Knights, Nikolaos Panousis, Jun Sung Park, Jeremy A Schwartzentruber, Jimmy Liu, Kousik Kundu, Michael Segel, Natalia A Murphy, Christopher E McMurran, Harry Bulstrode, Jason Correia, Karol P Budohoski, Alexis Joannides, Mathew R Guilfoyle, Rikin Trivedi, Ramez Kirollos, Robert Morris, Matthew R Garnett, Ivan Timofeev, Ibrahim Jalloh, Katherine Holland, Richard Mannion, Richard Mair, Colin Watts, Stephen John Price, Peter J Kirkpatrick, Thomas Santarius, Edward Mountjoy, Maya Ghoussaini, Nicole Soranzo, Omer Ali Bayraktar, Beth Stevens, Peter J Hutchinson, Robin J M Franklin, Daniel J Gaffney
A map of transcriptional heterogeneity and regulatory variation in human microglia. Nature genetics 53 (6) (2021)
Jeremy A Schwartzentruber, Sarah Cooper, Jimmy Z Liu, Inigo Barrio-Hernandez, Erica Bello, Natushiko Kumasaka, Adam M H Young, Robin J M Franklin, Toby Johnson, Karol Estrada, Daniel J Gaffney, Pedro Beltrao, Andrew R Bassett
Genome-wide meta-analysis, fine-mapping and integrative prioritization implicate new Alzheimer's disease risk genes. Nature genetics 53 (3) (2021)
Julie Jerber, Daniel D Seaton, Anna S E Cuomo, Natushiko Kumasaka, James Haldane, Juliette Steer, Minal Patel, Daniel Pearce, Malin H L Andersson, Marc Jan Bonder, Ed Mountjoy, Maya Ghoussaini, Madeline A Lancaster, null null, John C Marioni, Florian T Merkle, Daniel J Gaffney, Oliver Stegle
Population-scale single-cell RNA-seq profiling across dopaminergic neuron differentiation. Nature genetics 53 (3) (2021)
Rebecca V Berrens, Andrian Yang, Christopher E Laumer, Aaron T L Lun, Florian Bieberich, Cheuk-Ting Law, Guocheng Lan, Maria Imaz, Joseph S Bowness, Neil Brockdorff, Daniel J Gaffney, John C Marioni
Locus-specific expression of transposable elements in single cells with CELLO-seq. Nature biotechnology (2021)
Haynes Heaton, Arthur M Talman, Andrew J Knights, Maria Imaz, Daniel J Gaffney, Richard Durbin, Martin Hemberg, Mara N K Lawniczak
Souporcell: robust clustering of single-cell RNA-seq data by genotype without reference genotypes. Nature methods 17 (6) (2020)
Daniel J Gaffney
Mapping and predicting gene-enhancer interactions. Nature genetics 51 (12) (2020)
Davis J McCarthy, Raghd Rostom, Yuanhua Huang, Daniel J Kunz, Petr Danecek, Marc Jan Bonder, Tzachi Hagai, Ruqian Lyu, null null, Wenyi Wang, Daniel J Gaffney, Benjamin David Simons, Oliver Stegle, Sarah A Teichmann
Cardelino: computational integration of somatic clonal substructure and single-cell transcriptomes. Nature methods 17 (4) (2020)
Abdulkadir Abakir, Tom C Giles, Agnese Cristini, Jeremy M Foster, Nan Dai, Marta Starczak, Alejandro Rubio-Roldan, Miaomiao Li, Maria Eleftheriou, James Crutchley, Luke Flatt, Lorraine Young, Daniel J Gaffney, Chris Denning, Bjørn Dalhus, Richard David Emes, Ryszard Olinski, Ivan R Corrêa, Jose Luis García-Pérez, Arne Klungland, Natalia Gromak, Alexey Ruzov
N6-methyladenosine regulates the stability of RNA:DNA hybrids in human cells. Nature genetics 52 (1) (2019)
Natsuhiko Kumasaka, Andrew J Knights, Daniel J Gaffney
High-resolution genetic mapping of putative causal interactions between regions of open chromatin. Nature genetics 51 (1) (2018)

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Publication Activity (10 Years)

Top Topics

Top Venues

Daniel J Gaffney (Daniel Gaffney)