The role of the oral microbiota in the causal effect of adjunctive antibiotics on clinical outcomes in stage III–IV periodontitis patients

S Kleine Bardenhorst, D Hagenfeld, J Matern, K Prior… - Microbiome, 2024 - Springer
Background Periodontitis, a prevalent chronic inflammatory disease, offers insights into the
broader landscape of chronic inflammatory conditions. The progression and treatment …

[HTML][HTML] Towards a joint semantic analysis in mobile forensics environments

J Xi, M Siegel, D Labudde, M Spranger - Forensic Science International …, 2025 - Elsevier
In recent years, mobile devices have become the dominant communication medium in our
daily lives. This trend is also evident in the planning, arranging, and committing of criminal …

Sub-communities of the vaginal microbiota in pregnant and non-pregnant women

L Symul, P Jeganathan, EK Costello… - … of the Royal …, 2023 - royalsocietypublishing.org
Diverse and non-Lactobacillus-dominated vaginal microbial communities are associated
with adverse health outcomes such as preterm birth and the acquisition of sexually …

Tensor Topic Modeling Via HOSVD

Y Liu, C Donnat - arXiv preprint arXiv:2501.00535, 2024 - arxiv.org
By representing documents as mixtures of topics, topic modeling has allowed the successful
analysis of datasets across a wide spectrum of applications ranging from ecology to …

Graph-Structured Topic Modeling for Documents with Spatial or Covariate Dependencies

YJ Jung, C Donnat - arXiv preprint arXiv:2412.14477, 2024 - arxiv.org
We address the challenge of incorporating document-level metadata into topic modeling to
improve topic mixture estimation. To overcome the computational complexity and lack of …

Sparse topic modeling via spectral decomposition and thresholding

H Tran, Y Liu, C Donnat - arXiv preprint arXiv:2310.06730, 2023 - arxiv.org
The probabilistic Latent Semantic Indexing model assumes that the expectation of the
corpus matrix is low-rank and can be written as the product of a topic-word matrix and a …

mbtransfer: Microbiome intervention analysis using transfer functions and mirror statistics

K Sankaran, P Jeganathan - PLOS Computational Biology, 2024 - journals.plos.org
Time series studies of microbiome interventions provide valuable data about microbial
ecosystem structure. Unfortunately, existing models of microbial community dynamics have …

Sub-communities of the vaginal ecosystem in pregnant and non-pregnant women

L Symul, P Jeganathan, EK Costello, M France… - bioRxiv, 2021 - biorxiv.org
Diverse and non-Lactobacillus-dominated vaginal microbial communities are associated
with adverse health outcomes such as preterm birth and acquisition of sexually transmitted …

Microbiome subcommunity learning with logistic-tree normal latent Dirichlet allocation

P LeBlanc, L Ma - Biometrics, 2023 - academic.oup.com
Mixed-membership (MM) models such as latent Dirichlet allocation (LDA) have been
applied to microbiome compositional data to identify latent subcommunities of microbial …

New Methodologies for High-Dimensional Data

HD Tran - 2024 - knowledge.uchicago.edu
High-dimensional statistics focuses on data whose ambient dimension is extremely large
relative to the number of data points. In such regimes, classical asymptotic theory and …