A multiscale model via single-cell transcriptomics reveals robust patterning mechanisms during early mammalian embryo development

Z Cang, Y Wang, Q Wang, KWY Cho… - PLoS computational …, 2021 - journals.plos.org
During early mammalian embryo development, a small number of cells make robust fate
decisions at particular spatial locations in a tight time window to form inner cell mass (ICM) …

Bayesian negative binomial regression for differential expression with confounding factors

SZ Dadaneh, M Zhou, X Qian - Bioinformatics, 2018 - academic.oup.com
Motivation Rapid adoption of high-throughput sequencing technologies has enabled better
understanding of genome-wide molecular profile changes associated with phenotypic …

A Monte Carlo method to estimate cell population heterogeneity from cell snapshot data

B Lambert, DJ Gavaghan, SJ Tavener - Journal of Theoretical Biology, 2021 - Elsevier
Variation is characteristic of all living systems. Laboratory techniques such as flow cytometry
can probe individual cells, and, after decades of experimentation, it is clear that even …

Differential expression analysis of dynamical sequencing count data with a gamma markov chain

E Hajiramezanali, SZ Dadaneh… - arXiv preprint arXiv …, 2018 - arxiv.org
Next-generation sequencing (NGS) to profile temporal changes in living systems is gaining
more attention for deriving better insights into the underlying biological mechanisms …

Data-driven multiscale modeling reveals the role of metabolic coupling for the spatio-temporal growth dynamics of yeast colonies

J Intosalmi, AC Scott, M Hays, N Flann… - BMC molecular and cell …, 2019 - Springer
Background Multicellular entities like mammalian tissues or microbial biofilms typically
exhibit complex spatial arrangements that are adapted to their specific functions or …

Bayesian Learning with Heterogeneous Data for Life Sciences

ME Hajiramezanali - 2021 - oaktrust.library.tamu.edu
We propose a suite of Bayesian learning methods to address challenges arising from task
and data heterogeneity in life science applications. First, we develop a novel multi-domain …

[图书][B] Multi-scale modeling for cell fate specification during regeneration and development

Y Wang - 2020 - search.proquest.com
Tissue regeneration and development involves activities in multiple scales: gene, growth
factor, cell, and tissue. As an example for regeneration, in wound healing process, the tissue …

Bayesian Analysis of High-Throughput Sequencing Data

SZ Dadaneh - 2019 - search.proquest.com
We develop a Bayesian framework for the analysis of high-throughput sequencing count
data under a variety of settings, removing sophisticated ad-hoc pre-processing steps …

[PDF][PDF] An efficient strategy to infer biochemical networks by means of statistical calibration of mechanistic models

J Timonen - 2017 - aaltodoc.aalto.fi
Various fields of science employ systems of ordinary differential equations (ODEs) to model
the behaviour of dynamical systems, such as gene regulatory networks. However, the …

Papel do receptor atípico de quimiocinas ACKR2 na inflamação crônica pulmonar induzida por sílica em camundongos

DF Dias - 2017 - arca.fiocruz.br
A silicose é uma doença ocupacional, sem cura ou tratamento eficaz, que se caracteriza por
inflamação, fibrose e formação de granulomas, onde as quimiocinas têm papel importante …