High-dimensional single-cell analysis predicts response to anti-PD-1 immunotherapy C Krieg, M Nowicka, S Guglietta, S Schindler, FJ Hartmann, LM Weber, ... Nature medicine 24 (2), 144-153, 2018 | 692 | 2018 |
Transcriptome-scale spatial gene expression in the human dorsolateral prefrontal cortex KR Maynard, L Collado-Torres, LM Weber, C Uytingco, BK Barry, ... Nature neuroscience 24 (3), 425-436, 2021 | 585 | 2021 |
CyTOF workflow: differential discovery in high-throughput high-dimensional cytometry datasets M Nowicka, C Krieg, HL Crowell, LM Weber, FJ Hartmann, S Guglietta, ... F1000Research 6, 2017 | 463 | 2017 |
Comparison of clustering methods for high‐dimensional single‐cell flow and mass cytometry data LM Weber, MD Robinson Cytometry Part A 89 (12), 1084-1096, 2016 | 386 | 2016 |
Maximizing mutagenesis with solubilized CRISPR-Cas9 ribonucleoprotein complexes A Burger, H Lindsay, A Felker, C Hess, C Anders, E Chiavacci, J Zaugg, ... Development 143 (11), 2025-2037, 2016 | 317 | 2016 |
diffcyt: Differential discovery in high-dimensional cytometry via high-resolution clustering LM Weber, M Nowicka, C Soneson, MD Robinson Communications biology 2 (1), 183, 2019 | 196 | 2019 |
Essential guidelines for computational method benchmarking LM Weber, W Saelens, R Cannoodt, C Soneson, A Hapfelmeier, ... Genome biology 20, 1-12, 2019 | 147 | 2019 |
Statistical methods for detecting differentially methylated loci and regions MD Robinson, A Kahraman, CW Law, H Lindsay, M Nowicka, LM Weber, ... Frontiers in genetics 5, 324, 2014 | 137 | 2014 |
High-dimensional single-cell analysis reveals the immune signature of narcolepsy FJ Hartmann, R Bernard-Valnet, C Quériault, D Mrdjen, LM Weber, E Galli, ... The Journal of experimental medicine 213 (12), 2621, 2016 | 114 | 2016 |
Circulating neutrophil subsets in advanced lung cancer patients exhibit unique immune signature and relate to prognosis ME Shaul, O Eyal, S Guglietta, P Aloni, A Zlotnik, E Forkosh, L Levy, ... The FASEB Journal 34 (3), 4204-4218, 2020 | 85 | 2020 |
spatialLIBD: an R/Bioconductor package to visualize spatially-resolved transcriptomics data B Pardo, A Spangler, LM Weber, SC Page, SC Hicks, AE Jaffe, ... BMC genomics 23 (1), 434, 2022 | 82 | 2022 |
SpatialExperiment: infrastructure for spatially-resolved transcriptomics data in R using Bioconductor D Righelli, LM Weber, HL Crowell, B Pardo, L Collado-Torres, ... Bioinformatics 38 (11), 3128-3131, 2022 | 81 | 2022 |
miQC: An adaptive probabilistic framework for quality control of single-cell RNA-sequencing data AA Hippen, MM Falco, LM Weber, EP Erkan, K Zhang, JA Doherty, ... PLoS computational biology 17 (8), e1009290, 2021 | 59 | 2021 |
An updated guide for the perplexed: cytometry in the high-dimensional era T Liechti, LM Weber, TM Ashhurst, N Stanley, M Prlic, S Van Gassen, ... Nature Immunology 22 (10), 1190-1197, 2021 | 58 | 2021 |
Genetic demultiplexing of pooled single-cell RNA-sequencing samples in cancer facilitates effective experimental design LM Weber, AA Hippen, PF Hickey, KC Berrett, J Gertz, JA Doherty, ... Gigascience 10 (9), giab062, 2021 | 27 | 2021 |
nnSVG for the scalable identification of spatially variable genes using nearest-neighbor Gaussian processes LM Weber, A Saha, A Datta, KD Hansen, SC Hicks Nature communications 14 (1), 4059, 2023 | 26 | 2023 |
VistoSeg: Processing utilities for high-resolution images for spatially resolved transcriptomics data M Tippani, HR Divecha, JL Catallini, SH Kwon, LM Weber, A Spangler, ... Biological Imaging 3, e23, 2023 | 19* | 2023 |
HDCytoData: collection of high-dimensional cytometry benchmark datasets in Bioconductor object formats LM Weber, C Soneson F1000Research 8, 2019 | 19 | 2019 |
Performance of computational algorithms to deconvolve heterogeneous bulk ovarian tumor tissue depends on experimental factors AA Hippen, DK Omran, LM Weber, E Jung, R Drapkin, JA Doherty, ... Genome biology 24 (1), 239, 2023 | 11* | 2023 |
A roadmap for the generation of benchmarking resources for antimicrobial resistance detection using next generation sequencing M Petrillo, M Fabbri, DM Kagkli, M Querci, G Van den Eede, E Alm, ... F1000Research 10, 2021 | 11 | 2021 |