Applications of deep learning in understanding gene regulation
Gene regulation is a central topic in cell biology. Advances in omics technologies and the
accumulation of omics data have provided better opportunities for gene regulation studies …
accumulation of omics data have provided better opportunities for gene regulation studies …
A small-molecule TNIK inhibitor targets fibrosis in preclinical and clinical models
Idiopathic pulmonary fibrosis (IPF) is an aggressive interstitial lung disease with a high
mortality rate. Putative drug targets in IPF have failed to translate into effective therapies at …
mortality rate. Putative drug targets in IPF have failed to translate into effective therapies at …
Machine learning and deep learning in synthetic biology: Key architectures, applications, and challenges
MK Goshisht - ACS omega, 2024 - ACS Publications
Machine learning (ML), particularly deep learning (DL), has made rapid and substantial
progress in synthetic biology in recent years. Biotechnological applications of biosystems …
progress in synthetic biology in recent years. Biotechnological applications of biosystems …
Gene knockout inference with variational graph autoencoder learning single-cell gene regulatory networks
In this paper, we introduce Gene Knockout Inference (GenKI), a virtual knockout (KO) tool for
gene function prediction using single-cell RNA sequencing (scRNA-seq) data in the …
gene function prediction using single-cell RNA sequencing (scRNA-seq) data in the …
Controlled noise: evidence of epigenetic regulation of single-cell expression variability
Motivation Understanding single-cell expression variability (scEV) or gene expression noise
among cells of the same type and state is crucial for delineating population-level cellular …
among cells of the same type and state is crucial for delineating population-level cellular …
Sox11 is enriched in myogenic progenitors but dispensable for development and regeneration of the skeletal muscle
Transcription factors (TFs) play key roles in regulating differentiation and function of stem
cells, including muscle satellite cells (MuSCs), a resident stem cell population responsible …
cells, including muscle satellite cells (MuSCs), a resident stem cell population responsible …
[HTML][HTML] Identification of Cell Type-Specific Effects of DNMT3A Mutations on Relapse in Acute Myeloid Leukemia
SG Bae, HJ Kim, MY Kim, DDH Kim, SI Shin, JS Ahn… - Molecules and …, 2023 - Elsevier
Acute myeloid leukemia (AML) is a heterogeneous disease caused by distinctive mutations
in individual patients; therefore, each patient may display different cell-type compositions …
in individual patients; therefore, each patient may display different cell-type compositions …
Population-level comparisons of gene regulatory networks modeled on high-throughput single-cell transcriptomics data
Single-cell technologies enable high-resolution studies of phenotype-defining molecular
mechanisms. However, data sparsity and cellular heterogeneity make modeling biological …
mechanisms. However, data sparsity and cellular heterogeneity make modeling biological …
CTHRC1+ fibroblasts and SPP1+ macrophages synergistically contribute to pro-tumorigenic tumor microenvironment in pancreatic ductal adenocarcinoma
E Li, HC Cheung, S Ma - Scientific Reports, 2024 - nature.com
Pancreatic ductal adenocarcinoma (PDAC) is an extremely lethal cancer that accounts for
over 90% of all pancreatic cancer cases. With a 5-year survival rate of only 13%, PDAC has …
over 90% of all pancreatic cancer cases. With a 5-year survival rate of only 13%, PDAC has …
Niclosamide targets the dynamic progression of macrophages for the resolution of endometriosis in a mouse model
Due to the vital roles of macrophages in the pathogenesis of endometriosis, targeting
macrophages could be a promising therapeutic direction. Here, we investigated the efficacy …
macrophages could be a promising therapeutic direction. Here, we investigated the efficacy …