Moderated designs can balance between batch-effect mitigation and cell loss due to hashtag-assisted pooling in single-cell experiments
Budhaditya Chatterjee, Katrina Gorga, Carly Blair…·Nevil J. Singh
Author
National Institutes of HealthORCID 0000-0002-8754-6377Unclaimed ORCID profile · follow to get notified of new preprints
Mutual co-authors in cluster
6 papers
Recent·Most cited
Budhaditya Chatterjee, Katrina Gorga, Carly Blair…·Nevil J. Singh
Nathan P. Manes, Fengkai Zhang, Bin Lin…·Aleksandra Nita‐Lazar
The paper develops a rule-based model of TLR4 signaling in mouse macrophages, identifies a missing negative feedback checkpoint involving TANK and IKKε, and validates its role in restraining inflammation.
Christopher T. Boughter, Budhaditya Chatterjee, Yuko Ohta…·Martin Meier‐Schellersheim
CountASAP converts ASAPseq FASTQ data into count matrices for downstream analysis.
Budhaditya Chatterjee, Christopher T. Boughter, Katrina Gorga…·Nevil J. Singh
This study compares the early single-cell transcriptional responses to live attenuated and inactivated Yellow Fever vaccines in mice, identifying distinct kinetic patterns and differential gene expression.
Hannes Bongartz, Christopher T. Boughter, Bernadette Marrero…·Martin Meier‐Schellersheim
The paper shows macrophages use TLR4 memory and IL-10 susceptibility gating to adjust inflammation based on pathogen dynamics.
Margaret E. Johnson, Athena Chen, James R. Faeder…·Adelinde M. Uhrmacher
The paper compares different computational methods for simulating cellular biochemistry and identifies discrepancies in results, emphasizing the need for critical evaluation of models.