NF-κB signaling in macrophages: dynamics, crosstalk, and signal integration

MG Dorrington, IDC Fraser - Frontiers in immunology, 2019 - frontiersin.org
The nuclear factor-κB (NF-κB) signaling pathway is one of the best understood immune-
related pathways thanks to almost four decades of intense research. NF-κB signaling is …

Bridging live-cell imaging and next-generation cancer treatment

M Alieva, AKL Wezenaar, EJ Wehrens… - Nature Reviews Cancer, 2023 - nature.com
By providing spatial, molecular and morphological data over time, live-cell imaging can
provide a deeper understanding of the cellular and signalling events that determine cancer …

High-throughput and high-efficiency sample preparation for single-cell proteomics using a nested nanowell chip

J Woo, SM Williams, LM Markillie, S Feng… - Nature …, 2021 - nature.com
Global quantification of protein abundances in single cells could provide direct information
on cellular phenotypes and complement transcriptomics measurements. However, single …

A practical guide to methods controlling false discoveries in computational biology

K Korthauer, PK Kimes, C Duvallet, A Reyes… - Genome biology, 2019 - Springer
Background In high-throughput studies, hundreds to millions of hypotheses are typically
tested. Statistical methods that control the false discovery rate (FDR) have emerged as …

Functional hallmarks of healthy macrophage responses: their regulatory basis and disease relevance

KM Sheu, A Hoffmann - Annual review of immunology, 2022 - annualreviews.org
Macrophages are first responders for the immune system. In this role, they have both effector
functions for neutralizing pathogens and sentinel functions for alerting other immune cells of …

CHETAH: a selective, hierarchical cell type identification method for single-cell RNA sequencing

JK De Kanter, P Lijnzaad, T Candelli… - Nucleic acids …, 2019 - academic.oup.com
Cell type identification is essential for single-cell RNA sequencing (scRNA-seq) studies,
currently transforming the life sciences. CHETAH (CHaracterization of cEll Types Aided by …

Six distinct NFκB signaling codons convey discrete information to distinguish stimuli and enable appropriate macrophage responses

A Adelaja, B Taylor, KM Sheu, Y Liu, S Luecke… - Immunity, 2021 - cell.com
Macrophages initiate inflammatory responses via the transcription factor NFκB. The temporal
pattern of NFκB activity determines which genes are expressed and thus, the type of …

Single cell multi-omics technology: methodology and application

Y Hu, Q An, K Sheu, B Trejo, S Fan… - Frontiers in cell and …, 2018 - frontiersin.org
In the era of precision medicine, multi-omics approaches enable the integration of data from
diverse omics platforms, providing multi-faceted insight into the interrelation of these omics …

NF-κB dynamics in the language of immune cells

M Aqdas, MH Sung - Trends in immunology, 2023 - cell.com
Biological discovery has been driven by advances in throughput and resolution of analysis
technologies. They have also created an indelible bias for snapshot-based knowledge …

[HTML][HTML] Cell-cycle-dependent ERK signaling dynamics direct fate specification in the mammalian preimplantation embryo

MJ Pokrass, KA Ryan, T Xin, B Pielstick, W Timp… - Developmental Cell, 2020 - cell.com
Despite the noisy nature of single cells, multicellular organisms robustly generate different
cell types from one zygote. This process involves dynamic cross regulation between …