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Nature Methods|September 30, 2025
InterPLM: discovering interpretable features in protein language models via sparse autoencodersElana Simon, James ZouNature Methods|September 25, 2025
EpiAgent: foundation model for single-cell epigenomicsXiaoyang Chen, Keyi Li, Xuejian Cui, et al.Nature Methods|April 7, 2020
Genetic tool development in marine protists: emerging model organisms for experimental cell biologyDrahomíra Faktorová, R Ellen R Nisbet, José A Fernández Robledo, et al.Nature Methods|March 24, 2020
Cardelino: computational integration of somatic clonal substructure and single-cell transcriptomesDavis J McCarthy, Raghd Rostom, Yuanhua Huang, et al.Nature Methods|October 30, 2019
Kilohertz two-photon brain imaging in awake miceTong Zhang, Oscar Hernandez, Radosław Chrapkiewicz, et al.Nature Methods|October 13, 2020
A systematic evaluation of the design and context dependencies of massively parallel reporter assaysJason C Klein, Vikram Agarwal, Fumitaka Inoue, et al.Nature Methods|July 30, 2021
Deep learning-based mixed-dimensional Gaussian mixture model for characterizing variability in cryo-EMMuyuan Chen, Steven J LudtkeNature Methods|July 9, 2021
Mass spectrometry-based metabolomics: a guide for annotation, quantification and best reporting practicesSaleh Alseekh, Asaph Aharoni, Yariv Brotman, et al.Nature Methods|June 2, 2022
Identification of cell types in multiplexed in situ images by combining protein expression and spatial information using CELESTAWeiruo Zhang, Irene Li, Nathan E Reticker-Flynn, et al.Pageof 338