Follow
Niema Moshiri
Niema Moshiri
Associate Teaching Professor, University of California, San Diego
Verified email at ucsd.edu - Homepage
Title
Cited by
Cited by
Year
Wastewater sequencing reveals early cryptic SARS-CoV-2 variant transmission
Nature 609, 101–108, 2022
2352022
The molecular epidemiology of multiple zoonotic origins of SARS-CoV-2
JE Pekar, A Magee, E Parker, N Moshiri, K Izhikevich, JL Havens, ...
Science 377 (6609), 960-966, 2022
209*2022
Resurgence of SARS-CoV-2 infection in a highly vaccinated health system workforce
J Keehner, LE Horton, NJ Binkin, LC Laurent, D Pride, CA Longhurst, ...
New England Journal of Medicine 385 (14), 1330-1332, 2021
1902021
Timing the SARS-CoV-2 index case in Hubei province
J Pekar, M Worobey, N Moshiri, K Scheffler, JO Wertheim
Science 372 (6540), 412-417, 2021
1902021
Ten simple rules for writing and sharing computational analyses in Jupyter Notebooks
A Rule, A Birmingham, C Zuniga, I Altintas, SC Huang, R Knight, ...
PLoS computational biology 15 (7), e1007007, 2019
152*2019
TreeCluster: Clustering biological sequences using phylogenetic trees
M Balaban, N Moshiri, U Mai, X Jia, S Mirarab
PloS one 14 (8), e0221068, 2019
1162019
Geniehd: Efficient dna pattern matching accelerator using hyperdimensional computing
Y Kim, M Imani, N Moshiri, T Rosing
2020 Design, Automation & Test in Europe Conference & Exhibition (DATE), 115-120, 2020
842020
ViralMSA: Massively scalable reference-guided multiple sequence alignment of viral genomes
N Moshiri
Bioinformatics 37 (5), 714-716, 2021
632021
FAVITES: simultaneous simulation of transmission networks, phylogenetic trees and sequences
N Moshiri, M Ragonnet-Cronin, JO Wertheim, S Mirarab
Bioinformatics, bty921, 2018
492018
TreeSwift: A massively scalable Python tree package
N Moshiri
SoftwareX 11, 100436, 2020
272020
Accelerators for classical molecular dynamics simulations of biomolecules
D Jones, JE Allen, Y Yang, WF Drew Bennett, M Gokhale, N Moshiri, ...
Journal of chemical theory and computation 18 (7), 4047-4069, 2022
242022
Safer at school early alert: an observational study of wastewater and surface monitoring to detect COVID-19 in elementary schools
R Fielding-Miller, S Karthikeyan, T Gaines, RS Garfein, RA Salido, ...
The Lancet Regional Health–Americas 19, 2023
21*2023
Genetic evidence of susceptible wildlife in SARS-CoV-2 positive samples at the Huanan Wholesale Seafood Market, Wuhan: Analysis and interpretation of data released by the …
A Crits-Christoph, K Gangavarapu, J Pekar, N Moshiri, R Singh, J Levy, ...
15*2023
The dual-Barabási-Albert model
N Moshiri
arXiv preprint arXiv:1810.10538, 2018
152018
The ViReflow pipeline enables user friendly large scale viral consensus genome reconstruction
N Moshiri, KM Fisch, A Birmingham, P DeHoff, GW Yeo, K Jepsen, ...
Scientific reports 12 (1), 5077, 2022
122022
Ultra efficient acceleration for de novo genome assembly via near-memory computing
M Zhou, L Wu, M Li, N Moshiri, K Skadron, T Rosing
2021 30th International Conference on Parallel Architectures and Compilation …, 2021
72021
HIV care prioritization using phylogenetic branch length
N Moshiri, DM Smith, S Mirarab
JAIDS Journal of Acquired Immune Deficiency Syndromes 86 (5), 626-637, 2021
62021
An analysis of clinical and geographical metadata of over 75,000 records in the GISAID COVID-19 database
A Velazquez, M Bustria, Y Ouyang, N Moshiri
medRxiv, 2020.09. 22.20199497, 2020
62020
TreeN93: a non-parametric distance-based method for inferring viral transmission clusters
N Moshiri
bioRxiv, 383190, 2018
62018
A Two-State Model of Tree Evolution and Its Applications to Alu Retrotransposition
N Moshiri, S Mirarab
Systematic Biology 67 (3), 475-489, 2017
62017
The system can't perform the operation now. Try again later.
Articles 1–20