Ruth V. Nichols

Oregon Health & Science University — United States

Environmental Science · Physical Sciences

11h-index752citations23works5.02yr avg
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Research Topics

Environmental DNA in Biodiversity Studies(10), Single-cell and spatial transcriptomics(9), Wildlife Ecology and Conservation(8), Epigenetics and DNA Methylation(7), Identification and Quantification in Food(4)

Publications23 total

Single-cell DNA methylation analysis tool Amethyst resolves distinct non-CG methylation patterns in human astrocytes and oligodendrocytes
Communications Biology·2025Open Access
Atlas-scale single-cell DNA methylation profiling with sciMETv3
Cell Genomics·2024· 11 citedOpen Access
Atlas-scale Single-cell DNA Methylation Profiling with sciMETv3
2024· 2 citedOpen Access
Single-cell DNA methylation analysis tool Amethyst reveals distinct noncanonical methylation patterns in human glial cells
2024· 4 citedOpen Access
A Bayesian Analysis of the Probability of the Origin of Life Per Site Conducive to Abiogenesis
Astrobiology·2024· 3 cited
Increased intake of tree forage by moose is associated with intake of crops rich in nonstructural carbohydrates
Ecology·2024· 5 citedOpen Access
sciMET-cap: high-throughput single-cell methylation analysis with a reduced sequencing burden
Genome biology·2024· 10 citedOpen Access
Accessible high-throughput single-cell whole-genome sequencing with paired chromatin accessibility
Cell Reports Methods·2023· 8 citedOpen Access
sciMET-cap: High-throughput single-cell methylation analysis with a reduced sequencing burden
2023· 2 citedOpen Access
Atlas-scale single-cell chromatin accessibility using nanowell-based combinatorial indexing
Genome Research·2023· 8 citedOpen Access
High-throughput robust single-cell DNA methylation profiling with sciMETv2
Nature Communications·2022· 58 citedOpen Access
Targeted Amplification and Sequencing of Ancient Environmental and Sedimentary DNA
Methods in molecular biology·2019· 29 cited
A probable prehistoric case of meningococcal disease from San Francisco Bay: Next generation sequencing of Neisseria meningitidis from dental calculus and osteological evidence
International Journal of Paleopathology·2018· 21 cited
Minimizing polymerase biases in metabarcoding
Molecular Ecology Resources·2018· 250 citedOpen Access
An eDNA-Based SNP Assay for Ungulate Species and Sex Identification
Diversity·2017· 13 citedOpen Access
Diet Assessment Based on Rumen Contents: A Comparison between DNA Metabarcoding and Macroscopy
PLoS ONE·2016· 88 citedOpen Access
Using eDNA to experimentally test ungulate browsing preferences
SpringerPlus·2015· 47 citedOpen Access
DNA left on browsed twigs uncovers bite-scale resource use patterns in European ungulates
Oecologia·2014· 65 cited
Ungulate browsing on conifers during summer as revealed by DNA
Scandinavian Journal of Forest Research·2014· 20 cited
Busted by the bite
2013
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Frequent Co-authors

Brendan L. O’Connell(10), Andrew C. Adey(9), Sonia N. Acharya(6), Lauren Rylaarsdam(6), Göran Spong(5), Beth Shapiro(3), Peter D. Heintzman(2), Joris P. G. M. Cromsigt(2), Jerushah Thomas(2), Dmitry Pokholok(2), Frank J. Steemers(2), Zohar Shipony(2), Nika Iremadze(2), Theodore P. Braun(2), Galip Gürkan Yardımcı(2), Christopher Vollmers(1), Lee A. Newsom(1), Yue Wang(1), McKenna Leighton(1), Richard E. Green(1)