Gene regulatory network inference in the era of single-cell multi-omics

P Badia-i-Mompel, L Wessels, S Müller-Dott… - Nature Reviews …, 2023 - nature.com
The interplay between chromatin, transcription factors and genes generates complex
regulatory circuits that can be represented as gene regulatory networks (GRNs). The study …

[HTML][HTML] High-content CRISPR screening

C Bock, P Datlinger, F Chardon, MA Coelho… - Nature Reviews …, 2022 - nature.com
CRISPR screens are a powerful source of biological discovery, enabling the unbiased
interrogation of gene function in a wide range of applications and species. In pooled …

g: Profiler—interoperable web service for functional enrichment analysis and gene identifier map** (2023 update)

L Kolberg, U Raudvere, I Kuzmin, P Adler… - Nucleic acids …, 2023 - academic.oup.com
Abstract g: Profiler is a reliable and up-to-date functional enrichment analysis tool that
supports various evidence types, identifier types and organisms. The toolset integrates many …

Safety, efficacy and determinants of response of allogeneic CD19-specific CAR-NK cells in CD19+ B cell tumors: a phase 1/2 trial

D Marin, Y Li, R Basar, H Rafei, M Daher, J Dou… - Nature medicine, 2024 - nature.com
There is a pressing need for allogeneic chimeric antigen receptor (CAR)-immune cell
therapies that are safe, effective and affordable. We conducted a phase 1/2 trial of cord …

Identification of a tumour immune barrier in the HCC microenvironment that determines the efficacy of immunotherapy

Y Liu, Z Xun, K Ma, S Liang, X Li, S Zhou, L Sun… - Journal of …, 2023 - Elsevier
Background & Aims The tumour microenvironment (TME) is a crucial mediator of cancer
progression and therapeutic outcome. The TME subtype correlates with patient response to …

Lactylome analysis suggests lactylation-dependent mechanisms of metabolic adaptation in hepatocellular carcinoma

Z Yang, C Yan, J Ma, P Peng, X Ren, S Cai, X Shen… - Nature …, 2023 - nature.com
Enhanced glycolysis and accumulation of lactate is a common feature in various types of
cancer. Intracellular lactate drives a recently described type of posttranslational modification …

Extending support for mouse data in the Molecular Signatures Database (MSigDB)

AS Castanza, JM Recla, D Eby, H Thorvaldsdóttir… - Nature …, 2023 - nature.com
The rise of full transcriptome acquisition technologies has fueled the rapid proliferation of
molecular-level biological data. These large datasets require interpretation beyond the …

Tracking early lung cancer metastatic dissemination in TRACERx using ctDNA

C Abbosh, AM Frankell, T Harrison, J Kisistok… - Nature, 2023 - nature.com
Circulating tumour DNA (ctDNA) can be used to detect and profile residual tumour cells
persisting after curative intent therapy. The study of large patient cohorts incorporating …

IL-1β+ macrophages fuel pathogenic inflammation in pancreatic cancer

N Caronni, F La Terza, FM Vittoria, G Barbiera… - Nature, 2023 - nature.com
Pancreatic ductal adenocarcinoma (PDAC) is a lethal disease with high resistance to
therapies. Inflammatory and immunomodulatory signals co-exist in the pancreatic tumour …

FOXO1 enhances CAR T cell stemness, metabolic fitness and efficacy

JD Chan, CM Scheffler, I Munoz, K Sek, JN Lee… - Nature, 2024 - nature.com
Chimeric antigen receptor (CAR) T cell therapy has transformed the treatment of
haematological malignancies such as acute lymphoblastic leukaemia, B cell lymphoma and …