Mapping the dynamic genetic regulatory architecture of HLA genes at single-cell resolution

JB Kang, AZ Shen, S Gurajala, A Nathan, L Rumker… - Nature …, 2023 - nature.com
The human leukocyte antigen (HLA) locus plays a critical role in complex traits spanning
autoimmune and infectious diseases, transplantation and cancer. While coding variation in …

Single-cell Transcriptomics for unlocking personalized cancer immunotherapy: toward targeting the origin of tumor development immunogenicity

S Khodayari, H Khodayari, E Saeedi… - Cancers, 2023 - mdpi.com
Simple Summary This study explains how the application of single-cell transcriptomics can
enhance personalized cancer immunotherapy. Tumors exhibit complex and heterogeneous …

Adopting Mechanistic Molecular Biology Approaches in Exposome Research for Causal Understanding

AL Foreman, B Warth, EVS Hessel… - Environmental …, 2024 - ACS Publications
Through investigating the combined impact of the environmental exposures experienced by
an individual throughout their lifetime, exposome research provides opportunities to …

scQTLbase: an integrated human single-cell eQTL database

R Ding, Q Wang, L Gong, T Zhang, X Zou… - Nucleic Acids …, 2024 - academic.oup.com
Genome-wide association studies (GWAS) have identified numerous genetic variants
associated with diseases and traits. However, the functional interpretation of these variants …

Single-cell eQTL mapping in yeast reveals a tradeoff between growth and reproduction

J Boocock, N Alexander, LA Tapia, L Walter-McNeill… - bioRxiv, 2023 - biorxiv.org
Expression quantitative trait loci (eQTLs) provide a key bridge between noncoding DNA
sequence variants and organismal traits. The effects of eQTLs can differ among tissues, cell …

[HTML][HTML] Mapping the landscape of lineage-specific dynamic regulation of gene expression using single-cell transcriptomics and application to genetics of complex …

H Abe, P Lin, D Zhou, DM Ruderfer, ER Gamazon - medRxiv, 2023 - ncbi.nlm.nih.gov
Single-cell transcriptome data can provide insights into how genetic variation influences
biological processes involved in human biology and disease. However, the identification of …

Opportunities and tradeoffs in single-cell transcriptomic technologies

MI Conte, A Fuentes-Trillo, CD Conde - Trends in Genetics, 2023 - cell.com
Recent technological and algorithmic advances enable single-cell transcriptomic analysis
with remarkable depth and breadth. Nonetheless, a persistent challenge is the compromise …

SingleQ: a comprehensive database of single-cell expression quantitative trait loci (sc-eQTLs) cross human tissues

Z Zhou, J Du, J Wang, L Liu, MG Gordon, CJ Ye… - Database, 2024 - academic.oup.com
Mapping of expression quantitative trait loci (eQTLs) and other molecular QTLs can help
characterize the modes of action of disease-associated genetic variants. However, current …

Integrating spatial transcriptomics count data with Crescendo improves visualization and detection of spatial gene patterns

N Millard, JH Chen, MG Palshikar, K Pelka, M Spurrell… - bioRxiv, 2024 - biorxiv.org
Spatial transcriptomics allows for the analysis of a cell's gene expression in the context of its
physical location. With spatial transcriptomics data, investigators often want to find genes of …

Modeling heterogeneity in single-cell perturbation states enhances detection of response eQTLs

S Raychaudhuri, C Valencia, A Nathan, JB Kang… - bioRxiv, 2024 - biorxiv.org
Identifying response expression quantitative trait loci (reQTLs) can help to elucidate
mechanisms of disease associations. Typically, such studies model the effect of perturbation …