Jiekai Chen

This study identifies SP2 as a barrier to the pluripotency-to-totipotency transition in mouse embryonic stem cells, showing its role in promoting alternative developmental programs.

The paper functionally characterizes enhancers in totipotent-like cells using reporter assays and integrates with epigenomic and transcriptomic data to show their role in ZGA gene transcription.

The paper uses intracranial recordings to analyze functional coupling in brain networks during working memory tasks, identifying frontotemporal hubs as key in coordinating neural states.

The paper identifies LPR-3 and WRT-10 as functional partners in the C. elegans pre-cuticle apical extracellular matrix, showing their interaction patterns and roles in matrix organization.

GEOAgent retrieves and preprocesses GEO datasets using AI and automation, achieving high precision and accuracy in dataset retrieval and assay classification.

This study creates a single-cell RNA sequencing atlas of mouse nasal development, identifying cell clusters and subtypes, and revealing regulators of lineage specification.

The paper shows that embryonic stem cells use asymmetric division in a two-cell-like state to rejuvenate and maintain lineage immortality by segregating DNA damage.

This study resolves the structural mechanism of ncBAF-nucleosome interaction, showing BCL7B's role in chromatin remodeling and its connection to nuclear actin networks.

SCARF is a foundation model for integrating single-cell ATAC-seq and RNA-seq data, achieving state-of-the-art performance in cell representation and cross-omics tasks.

Zmap maps single-cell data to spatial coordinates efficiently, uncovering hidden gene expression patterns in brain sections with high accuracy.

This study creates a 3D spatial transcriptome atlas of mouse embryos at embryonic day 13.5, integrating with single-cell data to reveal molecular regulation of organ development.

The paper develops a single-cell TE analysis pipeline, scTE, and shows TEs are dynamically expressed in various cell states and can be used for cell type discrimination.

The paper investigates how relaxed 3D genome conformation during the pluripotent-to-totipotent transition in mouse ESCs facilitates totipotency acquisition through changes in chromatin structure and enhancer dynamics.

This study uses single-cell RNA sequencing to analyze immune responses in COVID-19 patients, identifying key immune cell changes and molecular pathways linked to disease severity.

This study shows that transposable elements contribute to the transcriptome of human pluripotent stem cells by being spliced into coding and non-coding transcripts, affecting gene expression and generating novel peptides.

The paper shows that AsCpf1 activity varies across vertebrate species due to temperature differences, as demonstrated by in vitro experiments.

Single cell RNA sequencing identifies two reprogramming branches in mouse fibroblasts, with Dppa5a marking pluripotent cells and IFN-gamma inhibiting the transition.