[PDF][PDF] edgeR v4: powerful differential analysis of sequencing data with expanded functionality and improved support for small counts and larger datasets
Abstract edgeR is an R/Bioconductor software package for differential analyses of
sequencing data in the form of read counts for genes or genomic features. Over the past 15 …
sequencing data in the form of read counts for genes or genomic features. Over the past 15 …
[HTML][HTML] limma powers differential expression analyses for RNA-sequencing and microarray studies
Abstract limma is an R/Bioconductor software package that provides an integrated solution
for analysing data from gene expression experiments. It contains rich features for handling …
for analysing data from gene expression experiments. It contains rich features for handling …
Cellular senescence is immunogenic and promotes antitumor immunity
I Marin, O Boix, A Garcia-Garijo, I Sirois… - Cancer …, 2023 - aacrjournals.org
Cellular senescence is a stress response that activates innate immune cells, but little is
known about its interplay with the adaptive immune system. Here, we show that senescent …
known about its interplay with the adaptive immune system. Here, we show that senescent …
Metastatic recurrence in colorectal cancer arises from residual EMP1+ cells
A Cañellas-Socias, C Cortina, X Hernando-Momblona… - Nature, 2022 - nature.com
Abstract Around 30–40% of patients with colorectal cancer (CRC) undergoing curative
resection of the primary tumour will develop metastases in the subsequent years. Therapies …
resection of the primary tumour will develop metastases in the subsequent years. Therapies …
The efficacy of chemotherapy is limited by intratumoral senescent cells expressing PD-L2
Chemotherapy often generates intratumoral senescent cancer cells that strongly modify the
tumor microenvironment, favoring immunosuppression and tumor growth. We discovered …
tumor microenvironment, favoring immunosuppression and tumor growth. We discovered …
[HTML][HTML] IL4I1 is a metabolic immune checkpoint that activates the AHR and promotes tumor progression
Aryl hydrocarbon receptor (AHR) activation by tryptophan (Trp) catabolites enhances tumor
malignancy and suppresses anti-tumor immunity. The context specificity of AHR target …
malignancy and suppresses anti-tumor immunity. The context specificity of AHR target …
Rapid non-uniform adaptation to conformation-specific KRAS (G12C) inhibition
JY Xue, Y Zhao, J Aronowitz, TT Mai, A Vides, B Qeriqi… - Nature, 2020 - nature.com
KRAS GTPases are activated in one-third of cancers, and KRAS (G12C) is one of the most
common activating alterations in lung adenocarcinoma,. KRAS (G12C) inhibitors, are in …
common activating alterations in lung adenocarcinoma,. KRAS (G12C) inhibitors, are in …
Caloric restriction disrupts the microbiota and colonization resistance
Diet is a major factor that shapes the gut microbiome, but the consequences of diet-induced
changes in the microbiome for host pathophysiology remain poorly understood. We …
changes in the microbiome for host pathophysiology remain poorly understood. We …
Single-cell profiling of breast cancer T cells reveals a tissue-resident memory subset associated with improved prognosis
The quantity of tumor-infiltrating lymphocytes (TILs) in breast cancer (BC) is a robust
prognostic factor for improved patient survival, particularly in triple-negative and HER2 …
prognostic factor for improved patient survival, particularly in triple-negative and HER2 …
Early precursor T cells establish and propagate T cell exhaustion in chronic infection
CD8+ T cells responding to chronic infections or tumors acquire an 'exhausted'state
associated with elevated expression of inhibitory receptors, including PD-1, and impaired …
associated with elevated expression of inhibitory receptors, including PD-1, and impaired …