citations.yaml

# DO NOT EDIT, GENERATED AUTOMATICALLY

- id: doi:10.1093/jhered/esae022
  title: 'Missing history of a modern domesticate: Historical demographics and genetic
    diversity in farm-bred red fox populations'
  authors:
  - Halie M Rando
  - Emmarie P Alexander
  - Sophie Preckler-Quisquater
  - Cate B Quinn
  - Jeremy T Stutchman
  - Jennifer L Johnson
  - Estelle R Bastounes
  - Beata Horecka
  - Kristina L Black
  - Michael P Robson
  - Darya V Shepeleva
  - Yury E Herbeck
  - Anastasiya V Kharlamova
  - Lyudmila N Trut
  - Jonathan N Pauli
  - Benjamin N Sacks
  - Anna V Kukekova
  publisher: Journal of Heredity
  date: '2024-04-16'
  link: https://doi.org/gtq55b
  type: journal paper
  image: https://oup.silverchair-cdn.com/oup/backfile/Content_public/Journal/jhered/PAP/10.1093_jhered_esae022/2/esae022_fig5.jpeg?Expires=1723205087&Signature=mh2K5Shh-1aChRpFUPq8dPl4ialuOAmtNKsM7XG945m-JwAUUszmS4h4GE0v-rxl2AyRgTLF33b3g78SzVtNpTIpcOPVbmKDa2WQBbtW9LHyhy76-c2DRfWqiTu6oRSuBSilJSVIADe7vLNXMmEOcDT5sa7pAUnYJTDn-3zMoVFtakNdZVdyU7-M6Bm-KcJO1cemNxk2602QfDnSWmyZyvCGjPcjiQK2Eqv83vdBADVlDgVkgJ83~Dno4tSCV3vSrznWuwe3g-izFviWP-sQB-JbbjqRIguAZbund7hYvV8-gNaUof9UcjrbGOQQSiN8iJ1lJakfd8zxruLpA4FvLA__&Key-Pair-Id=APKAIE5G5CRDK6RD3PGA
  tags:
  - domestication
  - foxes
  - wildlife
  plugin: sources.py
  file: sources.yaml
- id: doi:10.2460/javma.23.07.0372
  title: Many direct-to-consumer canine genetic tests can identify the breed of purebred
    dogs
  authors:
  - Halie M. Rando
  - Kiley Graim
  - Greg Hampikian
  - Casey S. Greene
  publisher: Journal of the American Veterinary Medical Association
  date: '2024-05-01'
  link: https://doi.org/gtn72p
  type: journal paper
  image: https://user-images.githubusercontent.com/8975841/250271905-4eed44ba-528a-4a61-a4ec-fa90d51e61f9.jpg
  tags:
  - reproducibility
  - genetics
  - dogs
  plugin: sources.py
  file: sources.yaml
- id: url:https://icbo-conference.github.io/icbo2022/papers/ICBO-2022_paper_1882.pdf
  title: Classifying animal breeds with the vertebrate breed ontology (VBO)
  authors:
  - Sabrina Toro
  - Nicolas Matentzoglu
  - Kathleen R. Mullen
  - Nicole Vasilevsky
  - Halie M. Rando
  - Melissa Haendel
  - Christopher J. Mungall
  - Zhi-Liang Hu
  - Gregoire Leroy
  - Imke Tammen
  - Frank W. Nicholas
  publisher: Proceedings of the International Conference on Biomedical Ontology
  date: '2022-09-25'
  link: https://icbo-conference.github.io/icbo2022/papers/ICBO-2022_paper_1882.pdf
  type: conference paper
  image: https://user-images.githubusercontent.com/8975841/260512613-910f7bcd-2648-48db-8874-d37bca58c8f1.png
  tags:
  - ontology
  - animals
  - domestication
  plugin: sources.py
  file: sources.yaml
- id: doi:10.1016/j.ebiom.2021.103722
  title: 'Characterizing Long COVID: Deep Phenotype of a Complex Condition'
  authors:
  - Rachel R Deer
  - Madeline A Rock
  - Nicole Vasilevsky
  - Leigh Carmody
  - Halie Rando
  - Alfred J Anzalone
  - Marc D Basson
  - Tellen D Bennett
  - Timothy Bergquist
  - Eilis A Boudreau
  - Carolyn T Bramante
  - James Brian Byrd
  - Tiffany J Callahan
  - Lauren E Chan
  - Haitao Chu
  - Christopher G Chute
  - Ben D Coleman
  - Hannah E Davis
  - Joel Gagnier
  - Casey S Greene
  - William B Hillegass
  - Ramakanth Kavuluru
  - Wesley D Kimble
  - Farrukh M Koraishy
  - "Sebastian K\xF6hler"
  - Chen Liang
  - Feifan Liu
  - Hongfang Liu
  - Vithal Madhira
  - Charisse R Madlock-Brown
  - Nicolas Matentzoglu
  - Diego R Mazzotti
  - Julie A McMurry
  - Douglas S McNair
  - Richard A Moffitt
  - Teshamae S Monteith
  - Ann M Parker
  - Mallory A Perry
  - Emily Pfaff
  - Justin T Reese
  - Joel Saltz
  - Robert A Schuff
  - Anthony E Solomonides
  - Julian Solway
  - Heidi Spratt
  - Gary S Stein
  - Anupam A Sule
  - Umit Topaloglu
  - George D. Vavougios
  - Liwei Wang
  - Melissa A Haendel
  - Peter N Robinson
  publisher: eBioMedicine
  date: '2021-12-01'
  link: https://doi.org/gnmkm7
  type: journal paper
  image: https://www.medrxiv.org/content/medrxiv/early/2021/06/29/2021.06.23.21259416/F1.large.jpg?width=800&height=600&carousel=1
  tags:
  - ontology
  - disease
  - humans
  plugin: sources.py
  file: sources.yaml
- id: url:http://ceur-ws.org/Vol-2976/paper-2.pdf
  title: An Open-Publishing Response to the COVID-19 Infodemic
  authors:
  - Halie M. Rando
  - Simina M. Boca
  - Lucy D'Agostino McGowan
  - Daniel S. Himmelstein
  - Michael P. Robson
  - Vincent Rubinetti
  - Ryan Velazquez
  - Casey S. Greene
  - Anthony Gitter
  publisher: Digital Infrastructures for Scholarly Content Objects 2021
  date: '2021-09-30'
  link: http://ceur-ws.org/Vol-2976/paper-2.pdf
  type: conference paper
  image: https://user-images.githubusercontent.com/8975841/137757668-cf24b018-5539-4969-965f-305fee56b2d3.png
  tags:
  - manubot
  - reproducibility
  - documents
  plugin: sources.py
  file: sources.yaml
- id: doi:10.1128/mSystems.00122-21
  title: Dietary Supplements and Nutraceuticals under Investigation for COVID-19 Prevention
    and Treatment
  authors:
  - Ronan Lordan
  - Halie M. Rando
  - Casey S. Greene
  publisher: mSystems
  date: '2021-06-29'
  link: https://doi.org/gj9qvs
  image: https://greenelab.github.io/covid19-review/images/N000-overview.png
  tags:
  - manubot
  - COVID-19
  plugin: sources.py
  file: sources.yaml
- id: doi:10.1128/msystems.00095-21
  title: Pathogenesis, Symptomatology, and Transmission of SARS-CoV-2 through Analysis
    of Viral Genomics and Structure
  authors:
  - Halie M. Rando
  - Adam L. MacLean
  - Alexandra J. Lee
  - Ronan Lordan
  - Sandipan Ray
  - Vikas Bansal
  - Ashwin N. Skelly
  - Elizabeth Sell
  - John J. Dziak
  - Lamonica Shinholster
  - "Lucy D\u2019Agostino McGowan"
  - Marouen Ben Guebila
  - Nils Wellhausen
  - Sergey Knyazev
  - Simina M. Boca
  - Stephen Capone
  - Yanjun Qi
  - YoSon Park
  - David Mai
  - Yuchen Sun
  - Joel D. Boerckel
  - Christian Brueffer
  - James Brian Byrd
  - Jeremy P. Kamil
  - Jinhui Wang
  - Ryan Velazquez
  - Gregory L. Szeto
  - John P. Barton
  - Rishi Raj Goel
  - Serghei Mangul
  - Tiago Lubiana
  - Anthony Gitter
  - Casey S. Greene
  publisher: mSystems
  date: '2021-10-26'
  link: https://doi.org/gm8k9b
  image: https://greenelab.github.io/covid19-review/images/N000-overview.png
  tags:
  - manubot
  - COVID-19
  plugin: sources.py
  file: sources.yaml
- id: doi:10.1128/mSystems.00233-21
  title: Identification and Development of Therapeutics for COVID-19
  authors:
  - Halie M. Rando
  - Nils Wellhausen
  - Soumita Ghosh
  - Alexandra J. Lee
  - Anna Ada Dattoli
  - Fengling Hu
  - James Brian Byrd
  - Diane N. Rafizadeh
  - Ronan Lordan
  - Yanjun Qi
  - Yuchen Sun
  - Christian Brueffer
  - Jeffrey M. Field
  - Marouen Ben Guebila
  - Nafisa M. Jadavji
  - Ashwin N. Skelly
  - Bharath Ramsundar
  - Jinhui Wang
  - Rishi Raj Goel
  - YoSon Park
  - Simina M. Boca
  - Anthony Gitter
  - Casey S. Greene
  publisher: mSystems
  date: '2021-12-21'
  link: https://doi.org/gnbhqq
  image: https://greenelab.github.io/covid19-review/images/N000-overview.png
  tags:
  - manubot
  - COVID-19
  plugin: sources.py
  file: sources.yaml
- id: doi:10.48550/ARXIV.2204.12598
  title: Molecular and Serologic Diagnostic Technologies for SARS-CoV-2
  authors:
  - Halie M. Rando
  - Christian Brueffer
  - Ronan Lordan
  - Anna Ada Dattoli
  - David Manheim
  - Jesse G. Meyer
  - Ariel I. Mundo
  - Dimitri Perrin
  - David Mai
  - Nils Wellhausen
  - COVID-19 Review Consortium
  - Anthony Gitter
  - Casey S. Greene
  publisher: arXiv
  date: '2022-01-01'
  link: https://doi.org/gp4ftc
  image: https://greenelab.github.io/covid19-review/images/N000-overview.png
  tags:
  - manubot
  - COVID-19
  plugin: sources.py
  file: sources.yaml
- id: doi:10.1128/msystems.00927-22
  title: Application of Traditional Vaccine Development Strategies to SARS-CoV-2
  authors:
  - Halie M. Rando
  - Ronan Lordan
  - Alexandra J. Lee
  - Amruta Naik
  - Nils Wellhausen
  - Elizabeth Sell
  - Likhitha Kolla
  - Anthony Gitter
  - Casey S. Greene
  - Vikas Bansal
  - John P. Barton
  - Simina M. Boca
  - Joel D. Boerckel
  - Christian Brueffer
  - James Brian Byrd
  - Stephen Capone
  - Shikta Das
  - Anna Ada Dattoli
  - John J. Dziak
  - Jeffrey M. Field
  - Soumita Ghosh
  - Anthony Gitter
  - Rishi Raj Goel
  - Casey S. Greene
  - Marouen Ben Guebila
  - Daniel S. Himmelstein
  - Fengling Hu
  - Nafisa M. Jadavji
  - Jeremy P. Kamil
  - Sergey Knyazev
  - Likhitha Kolla
  - Alexandra J. Lee
  - Ronan Lordan
  - Tiago Lubiana
  - Temitayo Lukan
  - Adam L. MacLean
  - David Mai
  - Serghei Mangul
  - David Manheim
  - "Lucy D\u2019Agostino McGowan"
  - Jesse G. Meyer
  - Ariel I. Mundo
  - Amruta Naik
  - YoSon Park
  - Dimitri Perrin
  - Yanjun Qi
  - Diane N. Rafizadeh
  - Bharath Ramsundar
  - Halie M. Rando
  - Sandipan Ray
  - Michael P. Robson
  - Vincent Rubinetti
  - Elizabeth Sell
  - Lamonica Shinholster
  - Ashwin N. Skelly
  - Yuchen Sun
  - Yusha Sun
  - Gregory L. Szeto
  - Ryan Velazquez
  - Jinhui Wang
  - Nils Wellhausen
  publisher: mSystems
  date: '2023-04-27'
  link: https://doi.org/grv3d9
  image: https://greenelab.github.io/covid19-review/images/N000-overview.png
  tags:
  - manubot
  - COVID-19
  plugin: sources.py
  file: sources.yaml
- id: doi:10.1128/msystems.00928-22
  title: The Coming of Age of Nucleic Acid Vaccines during COVID-19
  authors:
  - Halie M. Rando
  - Ronan Lordan
  - Likhitha Kolla
  - Elizabeth Sell
  - Alexandra J. Lee
  - Nils Wellhausen
  - Amruta Naik
  - Jeremy P. Kamil
  - Anthony Gitter
  - Casey S. Greene
  - John P. Barton
  - Simina M. Boca
  - Joel D. Boerckel
  - Christian Brueffer
  - James Brian Byrd
  - Stephen Capone
  - Shikta Capone
  - Anna Ada Dattoli
  - John J. Dziak
  - Jeffrey M. Field
  - Soumita Ghosh
  - Anthony Gitter
  - Rishi Raj Goel
  - Casey S. Greene
  - Marouen Ben Guebila
  - Daniel S. Himmelstein
  - Fengling Hu
  - Nafisa M. Jadavji
  - Jeremy P. Kamil
  - Sergey Knyazev
  - Likhitha Kolla
  - Alexandra J. Lee
  - Ronan Lordan
  - Tiago Lubiana
  - Temitayo Lukan
  - Adam L. MacLean
  - David Mai
  - Serghei Mangul
  - David Manheim
  - "Lucy D\u2019Agostino McGowan"
  - Jesse G. Meyer
  - Ariel I. Mundo
  - Amruta Naik
  - YoSon Park
  - Dimitri Perrin
  - Yanjun Qi
  - Diane N. Rafizadeh
  - Bharath Ramsundar
  - Halie M. Rando
  - Sandipan Ray
  - Michael P. Robson
  - Vincent Rubinetti
  - Elizabeth Sell
  - Lamonica Shinholster
  - Ashwin N. Skelly
  - Yuchen Sun
  - Yusha Sun
  - Gregory L. Szeto
  - Ryan Velazquez
  - Jinhui Wang
  - Nils Wellhausen
  publisher: mSystems
  date: '2023-04-27'
  link: https://doi.org/grv5vq
  image: https://greenelab.github.io/covid19-review/images/N000-overview.png
  tags:
  - manubot
  - COVID-19
  plugin: sources.py
  file: sources.yaml
- id: doi:10.1101/2021.03.20.21253896
  title: 'Challenges in defining Long COVID: Striking differences across literature,
    Electronic Health Records, and patient-reported information'
  authors:
  - Halie M. Rando
  - Tellen D. Bennett
  - James Brian Byrd
  - Carolyn Bramante
  - Tiffany J. Callahan
  - Christopher G. Chute
  - Hannah E. Davis
  - Rachel Deer
  - Joel Gagnier
  - Farrukh M Koraishy
  - Feifan Liu
  - Julie A. McMurry
  - Richard A. Moffitt
  - Emily R. Pfaff
  - Justin T. Reese
  - Rose Relevo
  - Peter N. Robinson
  - Joel H. Saltz
  - Anthony Solomonides
  - Anupam Sule
  - Umit Topaloglu
  - Melissa A. Haendel
  publisher: Cold Spring Harbor Laboratory
  date: '2021-03-26'
  link: https://doi.org/gjk3ng
  image: https://user-images.githubusercontent.com/8975841/112666874-013a3400-8e33-11eb-9be9-5c74f3e397ea.png
  type: preprint
  tags:
  - ontology
  - disease
  - humans
  plugin: sources.py
  file: sources.yaml
- id: doi:10.3390/genes10060409
  title: The Red Fox Y-Chromosome in Comparative Context
  authors:
  - Halie M. Rando
  - William H. Wadlington
  - Jennifer L. Johnson
  - Jeremy T. Stutchman
  - Lyudmila N. Trut
  - "Marta Farr\xE9"
  - Anna V. Kukekova
  publisher: Genes
  date: '2019-05-28'
  link: https://doi.org/gk67ng
  image: images/thumbnails/sequencing_red_fox.png
  tags:
  - foxes
  - genomes
  - machine learning
  plugin: sources.py
  file: sources.yaml
- id: doi:10.3390/genes12010097
  title: Sequencing Red Fox Y Chromosome Fragments to Develop Phylogenetically Informative
    SNP Markers and Glimpse Male-Specific Trans-Pacific Phylogeography
  authors:
  - Benjamin N. Sacks
  - Zachary T. Lounsberry
  - Halie M. Rando
  - Kristopher Kluepfel
  - Steven R. Fain
  - Sarah K. Brown
  - Anna V. Kukekova
  publisher: Genes
  date: '2021-01-14'
  link: https://doi.org/gtj95c
  image: images/thumbnails/Red_fox_ychromosome_genes10060409.png
  tags:
  - foxes
  - genomes
  - wildlife
  plugin: sources.py
  file: sources.yaml
- id: doi:10.1111/age.12755
  title: "Four structural variants associated with human\u2010directed sociability\
    \ in dogs are not found in tame red foxes (<i>Vulpes vulpes</i>)"
  authors:
  - Estelle R. Bastounes
  - Halie M. Rando
  - Jennifer L. Johnson
  - Lyudmila N. Trut
  - Benjamin N. Sacks
  - Carlos A. Driscoll
  - Bridgett vonHoldt
  - Anna V. Kukekova
  publisher: Animal Genetics
  date: '2018-12-10'
  link: https://doi.org/gtj95d
  image: images/thumbnails/Four_structural_variants.png
  tags:
  - foxes
  - genomes
  - dogs
  - behavior
  - domestication
  plugin: sources.py
  file: sources.yaml
- id: doi:10.1038/s41559-018-0611-6
  title: Red fox genome assembly identifies genomic regions associated with tame and
    aggressive behaviours
  authors:
  - Anna V. Kukekova
  - Jennifer L. Johnson
  - Xueyan Xiang
  - Shaohong Feng
  - Shiping Liu
  - Halie M. Rando
  - Anastasiya V. Kharlamova
  - Yury Herbeck
  - Natalya A. Serdyukova
  - Zijun Xiong
  - Violetta Beklemischeva
  - Klaus-Peter Koepfli
  - Rimma G. Gulevich
  - Anastasiya V. Vladimirova
  - Jessica P. Hekman
  - Polina L. Perelman
  - Aleksander S. Graphodatsky
  - "Stephen J. O\u2019Brien"
  - Xu Wang
  - Andrew G. Clark
  - Gregory M. Acland
  - Lyudmila N. Trut
  - Guojie Zhang
  publisher: Nature Ecology &amp; Evolution
  date: '2018-08-06'
  link: https://doi.org/csvn
  image: images/thumbnails/red_fox_genome_assembly.png
  tags:
  - foxes
  - genomes
  - behavior
  - domestication
  plugin: sources.py
  file: sources.yaml
- id: doi:10.3390/genes9060308
  title: Construction of Red Fox Chromosomal Fragments from the Short-Read Genome
    Assembly
  authors:
  - Halie M. Rando
  - "Marta Farr\xE9"
  - Michael P. Robson
  - Naomi B. Won
  - Jennifer L. Johnson
  - Ronak Buch
  - Estelle R. Bastounes
  - Xueyan Xiang
  - Shaohong Feng
  - Shiping Liu
  - Zijun Xiong
  - Jaebum Kim
  - Guojie Zhang
  - Lyudmila N. Trut
  - Denis M. Larkin
  - Anna V. Kukekova
  publisher: Genes
  date: '2018-06-20'
  link: https://doi.org/gf4p6z
  image: images/thumbnails/red_fox_chromosomal_fragments.png
  tags:
  - foxes
  - genomes
  - high-performance computing
  plugin: sources.py
  file: sources.yaml
- id: doi:10.1002/ece3.3583
  title: "Development of a genotype\u2010by\u2010sequencing immunogenetic assay as\
    \ exemplified by screening for variation in red fox with and without endemic rabies\
    \ exposure"
  authors:
  - Michael E. Donaldson
  - Yessica Rico
  - Karsten Hueffer
  - Halie M. Rando
  - Anna V. Kukekova
  - Christopher J. Kyle
  publisher: Ecology and Evolution
  date: '2017-12-02'
  link: https://doi.org/gctwp9
  image: images/thumbnails/immunogenetic_assay.png
  tags:
  - foxes
  - genomes
  - wildlife
  plugin: sources.py
  file: sources.yaml
- id: doi:10.1093/jhered/esx066
  title: Y-Chromosome Markers for the Red Fox
  authors:
  - Halie M Rando
  - Jeremy T Stutchman
  - Estelle R Bastounes
  - Jennifer L Johnson
  - Carlos A Driscoll
  - Christina S Barr
  - Lyudmila N Trut
  - Benjamin N Sacks
  - Anna V Kukekova
  publisher: Journal of Heredity
  date: '2017-08-14'
  link: https://doi.org/gbt6tq
  image: images/thumbnails/y_chromosome_markers.png
  tags:
  - foxes
  - genomes
  - wildlife
  plugin: sources.py
  file: sources.yaml