Anacapa Toolkit: An environmental DNA toolkit for processing multilocus metabarcode datasets EE Curd, Z Gold, GS Kandlikar, J Gomer, M Ogden, T O'Connell, L Pipes, ... Methods in Ecology and Evolution 10 (9), 1469-1475, 2019 | 102 | 2019 |
Genomic responses to selection for tame/aggressive behaviors in the silver fox (Vulpes vulpes) X Wang, L Pipes, LN Trut, Y Herbeck, AV Vladimirova, RG Gulevich, ... Proceedings of the National Academy of Sciences 115 (41), 10398-10403, 2018 | 82 | 2018 |
Synonymous mutations and the molecular evolution of SARS-Cov-2 origins H Wang, L Pipes, R Nielsen Virus evolution 7 (1), veaa098, 2021 | 79 | 2021 |
The non-human primate reference transcriptome resource (NHPRTR) for comparative functional genomics L Pipes, S Li, M Bozinoski, R Palermo, X Peng, P Blood, S Kelly, ... Nucleic acids research 41 (D1), D906-D914, 2013 | 75 | 2013 |
Sooty mangabey genome sequence provides insight into AIDS resistance in a natural SIV host D Palesch, SE Bosinger, GK Tharp, TH Vanderford, M Paiardini, ... Nature 553 (7686), 77-81, 2018 | 71 | 2018 |
AutoDecon, a deconvolution algorithm for identification and characterization of luteinizing hormone secretory bursts: Description and validation using synthetic data ML Johnson, L Pipes, PP Veldhuis, LS Farhy, DG Boyd, WS Evans Analytical biochemistry 381 (1), 8-17, 2008 | 70 | 2008 |
Tissue-specific transcriptome sequencing analysis expands the non-human primate reference transcriptome resource (NHPRTR) X Peng, J Thierry-Mieg, D Thierry-Mieg, A Nishida, L Pipes, M Bozinoski, ... Nucleic acids research 43 (D1), D737-D742, 2015 | 69 | 2015 |
AutoDecon: a robust numerical method for the quantification of pulsatile events ML Johnson, L Pipes, PP Veldhuis, LS Farhy, R Nass, MO Thorner, ... Methods in enzymology 454, 367-404, 2009 | 64 | 2009 |
Assessing uncertainty in the rooting of the SARS-CoV-2 phylogeny L Pipes, H Wang, JP Huelsenbeck, R Nielsen Molecular biology and evolution 38 (4), 1537-1543, 2021 | 53 | 2021 |
The CALeDNA program: Citizen scientists and researchers inventory California’s biodiversity RS Meyer, MM Ramos, M Lin, TM Schweizer, Z Gold, DR Ramos, ... California Agriculture 75 (1), 2021 | 23 | 2021 |
Enabling large-scale next-generation sequence assembly with Blacklight MB Couger, L Pipes, PD Blood, CE Mason Proceedings of the Conference on Extreme Science and Engineering Discovery …, 2013 | 13 | 2013 |
The California environmental DNA “CALeDNA” program RS Meyer, EE Curd, T Schweizer, Z Gold, DR Ramos, S Shirazi, ... BioRxiv, 503383, 2019 | 11 | 2019 |
Anacapa Toolkit: an environmental DNA toolkit for processing multilocus metabarcode datasets. Methods Ecol Evol 10: 1469–1475 EE Curd, Z Gold, GS Kandlikar, J Gomer, M Ogden, T O’connell, L Pipes, ... | 7 | 2019 |
The California environmental DNA “CALeDNA” Program, bioRxiv, 503383 RS Meyer, EE Curd, T Schweizer, Z Gold, DR Ramos, S Shirazi, ... | 7 | 2019 |
The prehistory of Mongolian populations as revealed by studies of osteological, dental, and genetic variation T Schurr, L Pipes na, 2011 | 7 | 2011 |
AncestralClust: clustering of divergent nucleotide sequences by ancestral sequence reconstruction using phylogenetic trees L Pipes, R Nielsen Bioinformatics 38 (3), 663-670, 2022 | 6 | 2022 |
Estimating the relative proportions of SARS-CoV-2 strains from wastewater samples L Pipes, Z Chen, S Afanaseva, R Nielsen medRxiv, 2022.01. 13.22269236, 2022 | 6 | 2022 |
Assessment and improvement of Indian‐origin rhesus macaque and M auritian‐origin cynomolgus macaque genome annotations using deep transcriptome sequencing data X Peng, L Pipes, H Xiong, RR Green, DC Jones, WL Ruzzo, GP Schroth, ... Journal of medical primatology 43 (5), 317-328, 2014 | 5 | 2014 |
High‐throughput RNA sequencing reveals structural differences of orthologous brain‐expressed genes between western lowland gorillas and humans L Lipovich, ZC Hou, H Jia, C Sinkler, M McGowen, KN Sterner, A Weckle, ... Journal of Comparative Neurology 524 (2), 288-308, 2016 | 4 | 2016 |
Estimating the relative proportions of SARS-CoV-2 haplotypes from wastewater samples L Pipes, Z Chen, S Afanaseva, R Nielsen Cell reports methods 2 (10), 2022 | 3 | 2022 |