Author

Jingyu Li

Babraham InstituteORCID 0000-0001-9677-7532Unclaimed ORCID profile · follow to get notified of new preprints

Additional preprints under this name without ORCID

Jingyu Li1 paper · Yunnan Agricultural University

Biology Disciplines

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Bioinformatics· 2 Cell Biology· 1 Developmental Biology· 1

Signature Assays, Organisms & Methods

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Approach:statistical model· 4 Research Focus:gene regulatory network inference· 3 Organism:mouse· 3 Research Focus:database / resource· 2 Approach:experimental assay· 2 Assay:ATAC-seq· 1 Approach:benchmark study· 1 Research Focus:benchmarking· 1

Frequent Co-Authors

Asif NakhudaiD· 1 shared Camille DioniD· 1 shared Chad Whilding· 1 shared Deborah Drage· 1 shared Fei HuangiD· 1 shared Felix KruegeriD· 1 shared Irina Balaguer BalsellsiD· 1 shared Jiadong CheniD· 1 shared

Activity by Year

2022-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 9 mutual co-author links

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1 shared paperDevelopmental Biology

Asif NakhudaORCID

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4 papers

Recent·Most cited

BioinformaticsbioRxivPreprintAug 31, 2026

S2F-Agent: Harnessing sequence-to-function models for verifiable genome interpretation

Jiaqi Li, Ti Qin, Jingyu Li, Zhiwei Bao

S2F-Agent improves genome interpretation by orchestrating sequence-to-function models with verifiable execution and interpretation.

DOI 10.64898/2026.05.13.724757

humanwhole-genome sequencing

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Cell BiologyNature Structural & Molecular BiologyPeer-reviewedFeb 20, 2026

Global re-organisation of genome architecture at the transition to gametogenesis

Tien-Chi Huang, Maria Rigau, Valeriya Malysheva…·Petra Hájková

This study reveals a unique 3D genome architecture in premeiotic gonadal germ cells, linked to epigenetic reprogramming and loss of TADs, alongside DNA demethylation.

3 citationstop 4%

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BioinformaticsbioRxivPreprintApr 8, 2023

scART: recognizing cell clusters and constructing trajectory from single-cell epigenomic data

Jingxin Guo, Jingyu Li, Fei Huang…·Li Shen

scART is a tool for analyzing scATAC-seq data that identifies cell clusters and constructs developmental trajectories, demonstrating effectiveness in mouse embryonic forebrain data.

DOI 10.1101/2023.04.08.536108

mousescATAC-seq

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Developmental BiologybioRxivPreprintJun 15, 2022

✦ In-depth digest

Decoding gene regulation in the mouse embryo using single-cell multi-omics

Ricard Argelaguet, Tim Lohoff, Jingyu Li…·Wolf Reik

A mouse embryo multiome atlas (E7.5 to E8.75) and an unsupervised transcription factor binding predictor; a Brachyury knockout supports its network predictions in neuromesodermal progenitors.

69 citations

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