The immunoregulatory landscape of human tuberculosis granulomas

EF McCaffrey, M Donato, L Keren, Z Chen… - Nature …, 2022 - nature.com
Tuberculosis (TB) in humans is characterized by formation of immune-rich granulomas in
infected tissues, the architecture and composition of which are thought to affect disease …

Predictive overfitting in immunological applications: Pitfalls and solutions

JP Gygi, SH Kleinstein, L Guan - Human Vaccines & …, 2023 - Taylor & Francis
Overfitting describes the phenomenon where a highly predictive model on the training data
generalizes poorly to future observations. It is a common concern when applying machine …

A survey of gene expression meta-analysis: methods and applications

D Toro-Domínguez, JA Villatoro-Garciá… - Briefings in …, 2021 - academic.oup.com
The increasing use of high-throughput gene expression quantification technologies over the
last two decades and the fact that most of the published studies are stored in public …

Pan-vaccine analysis reveals innate immune endotypes predictive of antibody responses to vaccination

S Fourati, LE Tomalin, MP Mulè, DG Chawla… - Nature …, 2022 - nature.com
Several studies have shown that the pre-vaccination immune state is associated with the
antibody response to vaccination. However, the generalizability and mechanisms that …

An immune-cell signature of bacterial sepsis

M Reyes, MR Filbin, RP Bhattacharyya, K Billman… - Nature medicine, 2020 - nature.com
Dysregulation of the immune response to bacterial infection can lead to sepsis, a condition
with high mortality. Multiple whole-blood gene-expression studies have defined sepsis …

NRF2 activation induces NADH-reductive stress, providing a metabolic vulnerability in lung cancer

T Weiss-Sadan, M Ge, M Hayashi, M Gohar, CH Yao… - Cell metabolism, 2023 - cell.com
Multiple cancers regulate oxidative stress by activating the transcription factor NRF2 through
mutation of its negative regulator, KEAP1. NRF2 has been studied extensively in KEAP1 …

A unified metric of human immune health

R Sparks, N Rachmaninoff, WW Lau, DC Hirsch… - Nature Medicine, 2024 - nature.com
Immunological health has been challenging to characterize but could be defined as the
absence of immune pathology. While shared features of some immune diseases and the …

A multi-cohort study of the immune factors associated with M. tuberculosis infection outcomes

R Roy Chowdhury, F Vallania, Q Yang… - Nature, 2018 - nature.com
Most infections with Mycobacterium tuberculosis (Mtb) manifest as a clinically asymptomatic,
contained state, known as latent tuberculosis infection, that affects approximately one …

Antigen-specific B cells direct T follicular-like helper cells into lymphoid follicles to mediate Mycobacterium tuberculosis control

RV Swanson, A Gupta, TW Foreman, L Lu… - Nature …, 2023 - nature.com
Tuberculosis (TB), caused by Mycobacterium tuberculosis (Mtb), is a global cause of death.
Granuloma-associated lymphoid tissue (GrALT) correlates with protection during TB, but the …

RISK6, a 6-gene transcriptomic signature of TB disease risk, diagnosis and treatment response

A Penn-Nicholson, SK Mbandi, E Thompson… - Scientific reports, 2020 - nature.com
Improved tuberculosis diagnostics and tools for monitoring treatment response are urgently
needed. We developed a robust and simple, PCR-based host-blood transcriptomic …