Author

Dan Liu

Brown Foundation

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Same name, identified by ORCID

Biology Disciplines

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Bioinformatics· 2 Genomics· 2 Neuroscience· 2 Developmental Biology· 1 Genetics· 1 Molecular Biology· 1

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Approach:statistical model· 5 Organism:human· 4 Assay:bulk RNA-seq· 3 Research Focus:differential expression· 3 Approach:experimental assay· 3 Organism:mouse· 3 Research Focus:cell type annotation· 2 Research Focus:gene regulatory network inference· 2

Frequent Co-Authors

Aiguo YangiD· 1 shared Alex BoussioutasiD· 1 shared Ankur ChakravarthyiD· 1 shared Benjamin BeckeriD· 1 shared Benjamin Russell ArenkieliD· 1 shared Boyang LiuiD· 1 shared Caineng Zhao· 1 shared Carmen LiiD· 1 shared

Activity by Year

2017-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 3 mutual co-author links

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1 shared paperGenetics

Aiguo YangORCID

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9 papers

Recent·Most cited

Identification of a neural basis orchestrating anorexia nervosa-like phenotypes

Cunjin Su, Yuanzhong Xu, Maojie Yang, Dan Liu, Yuhan Cao, Runzhou Yang, Caroline Regnauld, Emma C. Wheeler, Benjamin Russell Arenkiel, Qingchun Tong

This study identifies a neural mechanism in mice where aberrant glutamatergic signaling from MBH SF1/ER neurons induces AN-like behaviors, suggesting BDNF as a therapeutic target.

bioRxiv · Sep 11, 2026 · PreprintNeuroscience

Complex genetic architecture underlying the plasticity of tobacco leaf width provides insight into across-environment genomic prediction

Li Liu, Yu Han, Wei Liu, Yanjun Zan, Dong Wang, Yan Ji, Yiwen Sun, Xin Liu, Ran Hao, Wenjia Zhang, Linjie Guo, Jiarui Zhao, Zhimei Song, Dan Liu, Aiguo Yang, , Huan Si

This study identifies QTLs associated with leaf width and its plasticity in tobacco and develops a GEAI model for cross-environment prediction, improving accuracy by 8.7%.

Journal of Experimental Botany · Jul 11, 2026Peer-reviewedGenetics

Real-time functional connectivity-based neurofeedback of the DLPFC-amygdala pathway during threat-exposure attenuates anxiety

Wenyi Dong, Stefania Ferraro, Dan Liu, Yuan Zhang, Meng Han, Yiqi Mi, Junjie Wang, Kun Fu, Zixiao Zhao, Keith Maurice Kendrick, Dezhong Yao, Shuxia Yao, Benjamin Becker

This study uses real-time fMRI neurofeedback to train individuals to regulate DLPFC-amygdala connectivity during threat exposure, reducing anxiety.

bioRxiv · Dec 24, 2025 · PreprintNeuroscience

NSUN5 is essential for proper Hippo signaling in mouse preimplantation development

Dan Liu, Takuto Yamamoto, Naojiro Minami, Shinnosuke Honda, Shuntaro Ikeda

The paper shows that NSUN5 is critical for mouse preimplantation development by regulating Hippo signaling, cell proliferation, and lineage segregation.

bioRxiv · Sep 8, 2023 · PreprintDevelopmental Biology

Population genomics reveals extensive inbreeding and purging of mutational load in wild Amur tigers

Tianming Lan, Haimeng Li, Le Zhang, Minhui Shi, Boyang Liu, Liangyu Cui, Nicolás Dussex, Qing Wang, Yue Ma, Dan Liu, Weiyao Kong, Jiangang Wang, Haorong Lu, Shaofang Zhang, Jieyao Yu, , Yanchun Xu

This study finds higher inbreeding and purging of mutational load in wild Amur tigers compared to captive individuals, suggesting purifying selection reduces deleterious alleles in wild populations.

bioRxiv · May 9, 2023 · PreprintGenomics

Targeting circPTPN12/1 miR-21-5p/ΔNp63α pathway as a therapeutic strategy for human endometrial fibrosis

Minmin Song, Guangfeng Zhao, Haixiang Sun, Simin Yao, Zhenhua Zhou, Peipei Jiang, Qianwen Wu, Hui Zhu, Huiyan Wang, Chenyan Dai, Jingmei Wang, Ruotian Li, Yun Cao, Haining Lv, Dan Liu, , Yali Hu

The paper identifies circPTPN12 as a regulator of miR-21-5p and ΔNp63α in endometrial fibrosis, suggesting it as a therapeutic target.

bioRxiv · Apr 15, 2021 · PreprintMolecular Biology

Molecular and cellular heterogeneity of gastric cancer explained by methylation-driven key regulators

Seungyeul Yoo, Quan Chen, Li Wang, Wenhui Wang, Ankur Chakravarthy, Rita A. Busuttil, Alex Boussioutas, Dan Liu, Junjun She, Tim R. Fenton, Jiangwen Zhang, Xiaodan Fan, Suet-Yi Leung, Jun Zhu

The paper identifies 11 methylation-driven key regulators in gastric cancer and shows they contribute to tumor heterogeneity and clinical outcomes.

bioRxiv · Jan 27, 2020 · PreprintGenomics

TAL1-mediated epigenetic modifications down-regulate the expression of GIMAP family in non-small cell lung cancer

Zhongxiang Tang, Lili Wang, Pei Dai, Pinglang Ruan, Dan Liu, Yurong Tan

The paper investigates the role of GIMAP family in NSCLC and finds that TAL1-mediated epigenetic modifications down-regulate their expression, correlating with poor prognosis.

bioRxiv · Aug 20, 2019 · PreprintBioinformatics

Fast and simple analysis of MiSeq amplicon sequencing data with MetaAmp

Xiaoli Dong, Manuel Kleiner, Christine E. Sharp, Erin Thorson, Carmen Li, Dan Liu, Marc Strous

MetaAmp is a pipeline for analyzing amplicon sequencing data, offering quality control, clustering, and diversity metrics using UPARSE, Mothur, and SILVA, with web and command line interfaces.

Frontiers in Microbiology · Aug 2, 2017Peer-reviewedBioinformatics