Scaling single-cell genomics from phenomenology to mechanism

A Tanay, A Regev - Nature, 2017 - nature.com
Three of the most fundamental questions in biology are how individual cells differentiate to
form tissues, how tissues function in a coordinated and flexible fashion and which gene …

CD4+ T-cell differentiation and function: Unifying glycolysis, fatty acid oxidation, polyamines NAD mitochondria

L Almeida, A Dhillon-LaBrooy, G Carriche… - Journal of Allergy and …, 2021 - Elsevier
The progression through different steps of T-cell development, activation, and effector
function is tightly bound to specific cellular metabolic processes. Previous studies …

The human cell atlas

A Regev, SA Teichmann, ES Lander, I Amit, C Benoist… - elife, 2017 - elifesciences.org
The recent advent of methods for high-throughput single-cell molecular profiling has
catalyzed a growing sense in the scientific community that the time is ripe to complete the …

[HTML][HTML] Single-cell RNA sequencing of the T helper cell response to house dust mites defines a distinct gene expression signature in airway Th2 cells

CA Tibbitt, JM Stark, L Martens, J Ma, JE Mold… - Immunity, 2019 - cell.com
Naive CD4+ T cells differentiate into functionally diverse T helper (Th) cell subsets. Th2 cells
play a pathogenic role in asthma, yet a clear picture of their transcriptional profile is lacking …

scds: computational annotation of doublets in single-cell RNA sequencing data

AS Bais, D Kostka - Bioinformatics, 2020 - academic.oup.com
Motivation Single-cell RNA sequencing (scRNA-seq) technologies enable the study of
transcriptional heterogeneity at the resolution of individual cells and have an increasing …

Metabolism in type 2 immune responses

AM Kabat, EL Pearce, EJ Pearce - Immunity, 2023 - cell.com
The immune response is tailored to the environment in which it takes place. Immune cells
sense and adapt to changes in their surroundings, and it is now appreciated that in addition …

Alternative polyadenylation: methods, findings, and impacts

W Chen, Q Jia, Y Song, H Fu, G Wei… - Genomics, Proteomics …, 2017 - academic.oup.com
Alternative polyadenylation (APA), a phenomenon that RNA molecules with different 3′
ends originate from distinct polyadenylation sites of a single gene, is emerging as a …

Systems immunology: learning the rules of the immune system

AC Villani, S Sarkizova… - Annual review of …, 2018 - annualreviews.org
Given the many cell types and molecular components of the human immune system, along
with vast variations across individuals, how should we go about developing causal and …

The regulation of lymphocyte activation and proliferation

S Heinzel, JM Marchingo, MB Horton… - Current opinion in …, 2018 - Elsevier
Highlights•Activation induces a programmed timed division burst before return to
quiescence.•Clonal integration of activation signals, stochastic probabilities and ongoing …

Single cell analysis of human foetal liver captures the transcriptional profile of hepatobiliary hybrid progenitors

JM Segal, D Kent, DJ Wesche, SS Ng, M Serra… - Nature …, 2019 - nature.com
The liver parenchyma is composed of hepatocytes and bile duct epithelial cells (BECs).
Controversy exists regarding the cellular origin of human liver parenchymal tissue …