Characterizing cis-regulatory elements using single-cell epigenomics

S Preissl, KJ Gaulton, B Ren - Nature Reviews Genetics, 2023 - nature.com
Cell type-specific gene expression patterns and dynamics during development or in disease
are controlled by cis-regulatory elements (CREs), such as promoters and enhancers …

[HTML][HTML] Recent advances in T-cell receptor repertoire analysis: bridging the gap with multimodal single-cell RNA sequencing

S Valkiers, N de Vrij, S Gielis, S Verbandt, B Ogunjimi… - ImmunoInformatics, 2022 - Elsevier
T cells exercise a multitude of functions such as cytotoxicity, secretion of immunomodulating
cytokines or regulation of tolerance, collectively resulting in an effective control of immune …

[HTML][HTML] From Louvain to Leiden: guaranteeing well-connected communities

VA Traag, L Waltman, NJ Van Eck - Scientific reports, 2019 - nature.com
Community detection is often used to understand the structure of large and complex
networks. One of the most popular algorithms for uncovering community structure is the so …

The microbiota regulate neuronal function and fear extinction learning

C Chu, MH Murdock, D Jing, TH Won, H Chung… - Nature, 2019 - nature.com
Multicellular organisms have co-evolved with complex consortia of viruses, bacteria, fungi
and parasites, collectively referred to as the microbiota. In mammals, changes in the …

Statistical analysis of the regional air quality index of Yangtze River Delta based on complex network theory

JB Liu, YQ Zheng, CC Lee - Applied Energy, 2024 - Elsevier
Air pollution is an urgent global issue with significant implications for the environment and
public health. This study focuses on the daily Air Quality Index (AQI) data from 27 major …

Realistic in silico generation and augmentation of single-cell RNA-seq data using generative adversarial networks

M Marouf, P Machart, V Bansal, C Kilian… - Nature …, 2020 - nature.com
A fundamental problem in biomedical research is the low number of observations available,
mostly due to a lack of available biosamples, prohibitive costs, or ethical reasons …

Birds of a feather get recommended together: Algorithmic homophily in YouTube's channel recommendations in the United States and Germany

J Kaiser, A Rauchfleisch - Social Media+ Society, 2020 - journals.sagepub.com
Algorithms and especially recommendation algorithms play an important role online, most
notably on YouTube. Yet, little is known about the network communities that these …

Nuclei multiplexing with barcoded antibodies for single-nucleus genomics

JT Gaublomme, B Li, C McCabe, A Knecht… - Nature …, 2019 - nature.com
Single-nucleus RNA-seq (snRNA-seq) enables the interrogation of cellular states in
complex tissues that are challenging to dissociate or are frozen, and opens the way to …

The German far-right on YouTube: An analysis of user overlap and user comments

A Rauchfleisch, J Kaiser - Journal of Broadcasting & Electronic …, 2020 - Taylor & Francis
This study focuses on the formation of far-right online communities on YouTube and whether
the rise of three new actors (Pegida, Identitarian movement, AfD) can also be observed with …

Deplatforming the far-right: An analysis of YouTube and BitChute

A Rauchfleisch, J Kaiser - Available at SSRN 3867818, 2021 - papers.ssrn.com
The content moderation practice of deplatforming, ie the removal of undesired actors, has
become common on social media platforms such as YouTube. Little research has gone into …