Wildfire-dependent changes in soil microbiome diversity and function

AR Nelson, AB Narrowe, CC Rhoades, TS Fegel… - Nature …, 2022 - nature.com
Forest soil microbiomes have crucial roles in carbon storage, biogeochemical cycling and
rhizosphere processes. Wildfire season length, and the frequency and size of severe fires …

Systematic assessment of tissue dissociation and storage biases in single-cell and single-nucleus RNA-seq workflows

E Denisenko, BB Guo, M Jones, R Hou, L De Kock… - Genome biology, 2020 - Springer
Background Single-cell RNA sequencing has been widely adopted to estimate the cellular
composition of heterogeneous tissues and obtain transcriptional profiles of individual cells …

Spatial immunophenotypes predict response to anti-PD1 treatment and capture distinct paths of T cell evasion in triple negative breast cancer

D Hammerl, JWM Martens, M Timmermans… - Nature …, 2021 - nature.com
Only a subgroup of triple-negative breast cancer (TNBC) responds to immune checkpoint
inhibitors (ICI). To better understand lack of response to ICI, we analyze 681 TNBCs for …

[HTML][HTML] ESR1 mutations: Moving towards guiding treatment decision-making in metastatic breast cancer patients

L Angus, N Beije, A Jager, JWM Martens… - Cancer treatment …, 2017 - Elsevier
Mutations in the gene coding for the estrogen receptor (ER), ESR1, have been associated
with acquired endocrine resistance in patients with ER-positive metastatic breast cancer …

[HTML][HTML] A stem cell zoo uncovers intracellular scaling of developmental tempo across mammals

J Lázaro, M Costanzo, M Sanaki-Matsumiya, C Girardot… - Cell Stem Cell, 2023 - cell.com
Differential speeds in biochemical reactions have been proposed to be responsible for the
differences in developmental tempo between mice and humans. However, the underlying …

Oral famotidine versus placebo in non-hospitalised patients with COVID-19: a randomised, double-blind, data-intense, phase 2 clinical trial

CM Brennan, S Nadella, X Zhao, RJ Dima… - Gut, 2022 - gut.bmj.com
Objective We assessed whether famotidine improved inflammation and symptomatic
recovery in outpatients with mild to moderate COVID-19. Design Randomised, double-blind …

Widespread hypertranscription in aggressive human cancers

M Zatzman, F Fuligni, R Ripsman, T Suwal… - Science …, 2022 - science.org
Cancers are often defined by the dysregulation of specific transcriptional programs;
however, the importance of global transcriptional changes is less understood …

Whole genome sequencing of metastatic colorectal cancer reveals prior treatment effects and specific metastasis features

PAJ Mendelaar, M Smid, J van Riet, L Angus… - Nature …, 2021 - nature.com
In contrast to primary colorectal cancer (CRC) little is known about the genomic landscape of
metastasized CRC. Here we present whole genome sequencing data of metastases of 429 …

Cancer germline antigens and tumor-agnostic CD8+ T cell evasion

D Kortleve, RML Coelho, D Hammerl, R Debets - Trends in Immunology, 2022 - cell.com
Cancer germline antigens (CGAs) are expressed in immune-privileged germline tissues,
while epigenetically silenced in somatic tissues. CGAs become re-expressed in tumors and …

[HTML][HTML] A meta-analysis of RNA-Seq studies to identify novel genes that regulate aging

MD Bairakdar, A Tewari, MC Truttmann - Experimental gerontology, 2023 - Elsevier
Aging is a ubiquitous biological process that limits the maximal lifespan of most organisms.
Significant efforts by many groups have identified mechanisms that, when triggered by …