[HTML][HTML] LPS-induced systemic inflammation caused mPOA-FSH/LH disturbance and impaired testicular function

P Shen, S Ji, X Li, Q Yang, B Xu, CKC Wong… - Frontiers in …, 2022 - frontiersin.org
Male reproductive function is key to the continuation of species and is under sophisticated
regulation, challenged by various stressors including inflammation. In the lipopolysaccharide (…

Cell-cycle-gated feedback control mediates desensitization to interferon stimulation

A Mudla, Y Jiang, K Arimoto, B Xu, A Rajesh, AP Ryan… - Elife, 2020 - elifesciences.org
Cells use molecular circuits to interpret and respond to extracellular cues, such as hormones
and cytokines, which are often released in a temporally varying fashion. In this study, we …

A dynamical systems treatment of transcriptomic trajectories in hematopoiesis

SL Freedman, B Xu, S Goyal, M Mani - Development, 2023 - journals.biologists.com
Inspired by Waddington's illustration of an epigenetic landscape, cell-fate transitions have
been envisioned as bifurcating dynamical systems, wherein exogenous signaling dynamics …

[PDF][PDF] Fluorescence correlation spectroscopy and photon counting histograms in finite, bounded domains

Y Jiang, B Xu, A Melnykov, GM Genin, EL Elson - Biophysical Journal, 2020 - cell.com
Abstract Analysis of fluctuations arising as fluorescent particles pass through a focused
laser beam has enabled quantitative characterization of a broad range of molecular kinetic …

[PDF][PDF] Revealing cell-fate bifurcations from transcriptomic trajectories of hematopoiesis

SL Freedman, B Xu, G Goyald, M Mani - bioRxiv, 2021 - scholar.archive.org
Inspired by Waddington’s illustration of an epigenetic landscape, cell-fate transitions have
been envisioned as bifurcating dynamical systems, wherein the dynamics of an exogenous …

Constructing interpretable principal curve using Neural ODEs

G Zhang, B Xu - arXiv preprint arXiv:2311.09274, 2023 - arxiv.org
The study of high dimensional data sets often rely on their low dimensional projections that
preserve the local geometry of the original space. While numerous methods have been …

[HTML][HTML] Temperature-driven coordination of circadian transcriptome regulation

B Xu, DS Hwangbo, S Saurabh, C Rosensweig… - bioRxiv, 2023 - ncbi.nlm.nih.gov
The circadian rhythm is an evolutionarily-conserved molecular oscillator that enables species
to anticipate rhythmic changes in their environment. At a molecular level, the core clock …

Detecting Rhythmic Gene Expression in Single Cell Transcriptomics

B Xu, R Braun - bioRxiv, 2023 - biorxiv.org
An autonomous, environmentally-synchronizable circadian rhythm is a ubiquitous feature of
life on Earth. In multicellular organisms, this rhythm is generated by a transcription--…

Robust parametric UMAP for the analysis of single-cell data

B Xu, G Zhang - bioRxiv, 2023 - biorxiv.org
The increasing throughput of single-cell technologies and the pace of data generation are
enhancing the resolution at which we observe cell state transitions. The characterization and …

Spatial and temporal evolution of urban land use change in Nanchang by CA-Markov model

S Fu, B Xu, R Zhong, H Wang - 2023 - researchsquare.com
With the Rapid urban expansion and development, the contradiction between human and
land has gradually emerged, and how to scientifically and rationally use land is an …