Dong Xu

Chinese Academy of Tropical Agricultural Sciences

Earth and Planetary SciencesPhysics and AstronomyEngineeringDecision Sciences

Pilot corpus only

This score is computed over theSindex pilot corpus and does not cover the full scientific literature. Scores are relative to papers we have ingested — papers, authors, and institutions outside the pilot are not represented. Methodology.

Top 3%percentile

1.3Author DataRank

Indexed papers

4in pilot corpus

datarank_citation_only_1hop_v6· scope data_onlyMethodology

Why this DataRank?

An author's DataRank is the sum of the DataRanks of all 4 indexed papers attributed to them. A prolific author with many moderate-impact papers can outrank one with a single high-impact paper.

Author scores recompute whenever paper DataRanks are refreshed, so this number lags the underlying paper scores by at most one batch run.

Read the full methodology →

The highest-impact dataset this researcher has shared, ranked by DataRank — the single contribution doing the most to lift their data-sharing standing.

DescribePROT in 2023: more, higher-quality and experimental annotations and improved data download options

Nucleic Acids Research(2023)10.1093/nar/gkad985

Top 41%

0.469DataRank

Top 41%14 citations

Bi Zhao, Bálint Biró, Eshel Faraggi, Jörg Gsponer, Gang Hu +11 more

Papers

Driven by 85 papers — median percentile 55. Top paper: “Single-cell biological network inference using a heterogeneous graph transformer”.

Single-cell biological network inference using a heterogeneous graph transformer

Nature Communications(2023)10.1038/s41467-023-36559-0

N/A

3.5DataRank · unranked

186 citations

Xiaoying Wang, Jingxian Li, Cankun Wang, Tong Xiao, Yuntao Liu +15 more

Deep learning shapes single-cell data analysis

Nature Reviews Molecular Cell Biology(2022)10.1038/s41580-022-00466-x

N/A

2.8DataRank · unranked

124 citations

Dong Xu, Qin Ma

Leveraging Systematic Functional Analysis to Benchmark an In Silico Framework Distinguishes Driver from Passenger MEK Mutants in Cancer

Cancer Research(2020)10.1158/0008-5472.can-20-0865

N/A

1.3DataRank · unranked

31 citations

Brooke E. Sylvester, Matthew T. Chang, Arijh Elzein, Jianjiong Gao, Weiwei Han +24 more

Interdisciplinary Inquiry via PanelGPT: Application to Explore Chatbot Application in Sports Rehabilitation

medRxiv(2023)10.1101/2023.07.23.23292452

N/A

0.820DataRank · unranked

16 citations

Daniel Y Han, Li Liu, Leah Ma, Donald Adjeroh, Dong Xu +2 more

A self-attention based message passing neural network for predicting molecular lipophilicity and aqueous solubility

Journal of Cheminformatics(2020)10.1186/s13321-020-0414-z

N/A

0.780DataRank · unranked

180 citations

Skyler T. Kramer, Meijuan Fang, Ying‐Kun Qiu, Zhenhua Wu, Dong Xu +1 more

Define and visualize pathological architectures of human tissues from spatially resolved transcriptomics using deep learning

Computational and Structural Biotechnology Journal(2022)10.1016/j.csbj.2022.08.029

N/A

0.598DataRank · unranked

53 citations

Fei He, Juexin Wang, Shuo Chen, Jingyi Li, Jixin Liu +14 more

DeePaN: deep patient graph convolutional network integrating clinico-genomic evidence to stratify lung cancers for immunotherapy

npj Digital Medicine(2021)10.1038/s41746-021-00381-z

N/A

0.587DataRank · unranked

49 citations

Dong Xu, Jing Su, Jonathan R. Dry, Bolan Linghu, Chao Fang

G2PDeep: a web-based deep-learning framework for quantitative phenotype prediction and discovery of genomic markers

Nucleic Acids Research(2021)10.1093/nar/gkab407

N/A

0.561DataRank · unranked

41 citations

Ziting Mao, Yijie Ren, Duolin Wang, Dong Xu, Trupti Joshi +1 more

Computational methods for protein localization prediction

Computational and Structural Biotechnology Journal(2021)10.1016/j.csbj.2021.10.023

N/A

0.553DataRank · unranked

39 citations

Duolin Wang, Weiwei Wang, Dong Xu, Yuexu Jiang

Parameter-efficient fine-tuning on large protein language models improves signal peptide prediction

Genome Research(2024)10.1101/gr.279132.124

N/A

0.520DataRank · unranked

31 citations

Duolin Wang, Lei Jiang, Dong Xu, Shuai Zeng

Parameter-Efficient Fine-Tuning Enhances Adaptation of Single Cell Large Language Model for Cell Type Identification

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.01.27.577455

N/A

0.512DataRank · unranked

8 citations

Ruixin Fei, Mingyue Gao, Li Su, Xinyu Zhang, Dong Xu +1 more

Graph Fourier transform for spatial omics representation and analyses of complex organs

Nature Communications(2024)10.1038/s41467-024-51590-5

N/A

0.510DataRank · unranked

29 citations

Jixin Liu, Yi Jiang, Anjun Ma, Yao Yu Yeo, Qi Guo +11 more

DescribePROT in 2023: more, higher-quality and experimental annotations and improved data download options

Nucleic Acids Research(2023)10.1093/nar/gkad985

Top 41%

0.469DataRank

Top 41%14 citations

Bi Zhao, Bálint Biró, Eshel Faraggi, Jörg Gsponer, Gang Hu +11 more

Prediction of protein stability changes upon single-point variant using 3D structure profile

Computational and Structural Biotechnology Journal(2022)10.1016/j.csbj.2022.12.008

N/A

0.457DataRank · unranked

20 citations

Juexin Wang, Xizeng Zong, Zhiqiang Ma, Dong Xu, Jianting Gong

MU-PseUDeep: A deep learning method for prediction of pseudouridine sites

Computational and Structural Biotechnology Journal(2020)10.1016/j.csbj.2020.07.010

N/A

0.442DataRank · unranked

18 citations

Fei He, Duolin Wang, Yongbing Chen, Dong Xu, Saad M. Khan

Large-Scale Integrative Analysis of Soybean Transcriptome Using an Unsupervised Autoencoder Model

Frontiers in Plant Science(2022)10.3389/fpls.2022.831204

Top 45%

0.414DataRank

Top 45%7 citations

Chunhui Xu, Shuai Zeng, Li Su, Trupti Joshi, Gary Stacey +2 more

ChatGPT opens a new door for bioinformatics

Quantitative Biology(2023)10.15302/j-qb-023-0328

N/A

0.406DataRank · unranked

14 citations

Dong Xu

pathCLIP: Detection of Genes and Gene Relations From Biological Pathway Figures Through Image-Text Contrastive Learning

IEEE Journal of Biomedical and Health Informatics(2024)10.1109/jbhi.2024.3383610

Top 46%

0.399DataRank

Top 46%8 citations

Kai Liu, Zhiyuan Yang, Yibo Chen, Richard Hammer, Dong Xu +2 more

Spatial omics representation and functional tissue module inference using graph Fourier transform

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.12.10.519929

N/A

0.379DataRank · unranked

4 citations

Jixin Liu, Anjun Ma, Sizun Jiang, Jordan E. Krull, Yao Yu Yeo +10 more

Graph Fourier transform for spatial omics representation and analyses of complex organs

Research Square(2024)10.21203/rs.3.rs-3952048/v1

N/A

0.352DataRank · unranked

4 citations

Jixin Liu, Yi Jiang, Anjun Ma, Yao Yu Yeo, Qi Guo +11 more

Dimension-agnostic and granularity-based spatially variable gene identification

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.03.21.533713

N/A

0.337DataRank · unranked

4 citations

Jinpu Li, Skyler T. Kramer, Li Su, Yuzhou Chang, Chunhui Xu +3 more

Adapting Segment Anything Model (SAM) through Prompt-based Learning for Enhanced Protein Identification in Cryo-EM Micrographs

(2024)10.1109/medai62885.2024.00009

N/A

0.312DataRank · unranked

7 citations

Zhiyuan Yang, Mingyue Gao, Biplab Poudel, Newgin Sam Ebin Sam Dhas, Rajan Gyawali +4 more

Adapting Segment Anything Model (SAM) through Prompt-based Learning for Enhanced Protein Identification in Cryo-EM Micrographs

arXiv (Cornell University)(2023)10.48550/arxiv.2311.16140

N/A

0.241DataRank · unranked

4 citations

Zhiyuan Yang, Mingyue Gao, Biplab Poudel, Newgin Sam Ebin Sam Dhas, Rajan Gyawali +4 more

Detecting Cancer Survival Related Gene Markers Based on Rectified Factor Network

Frontiers in Bioengineering and Biotechnology(2020)10.3389/fbioe.2020.00349

N/A

0.241DataRank · unranked

4 citations

Guixia Liu, Juexin Wang, Jianjiong Gao, Dong Xu, Lingtao Su

Integrating Protein Language Model and Molecular Dynamics Simulations to Discover Antibiofouling Peptides

Langmuir(2024)10.1021/acs.langmuir.4c04140

N/A

0.241DataRank · unranked

4 citations

Sean Bailey, Duolin Wang, Shuai Zeng, Dong Xu, Qing Shao +1 more

Neural relational inference to learn allosteric long-range interactions in proteins from molecular dynamics simulations

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.01.20.427459

N/A

0.208DataRank · unranked

3 citations

Juexin Wang, Weiwei Han, Dong Xu, Jingxuan Zhu

Harnessing the Power of Single-Cell Large Language Models with Parameter Efficient Fine-Tuning using scPEFT

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.04.21.649754

N/A

0.165DataRank · unranked

2 citations

Ruixin Fei, Jordan E. Krull, Xinyu Zhang, Mingyue Gao, Li Wei Su +9 more

Integrating Protein Structure Prediction and Bayesian Optimization for Peptide Design

Research Square(2024)10.21203/rs.3.rs-4045284/v1

N/A

0.165DataRank · unranked

2 citations

Dong Xu

Kinase-substrate prediction using an autoregressive model

Computational and Structural Biotechnology Journal(2025)10.1016/j.csbj.2025.03.003

N/A

0.165DataRank · unranked

2 citations

Yongfang Qin, Duolin Wang, Dong Xu, Farzaneh Esmaili

Ad hoc, post hoc and intrinsic-hoc in bioinformatics

Nature Biotechnology(2025)10.1038/s41587-025-02852-0

N/A

0.104DataRank · unranked

1 citations

Hao Cheng, Yi Jiang, Anjun Ma, Dong Xu, Qin Ma

scGNN 2.0: a graph neural network tool for imputation and clustering of single-cell RNA-Seq data

Bioinformatics(2022)10.1093/bioinformatics/btac684

N/A

0DataRank · unranked

26 citations

Hao Cheng, Anjun Ma, Yang Li, Juexin Wang, Dong Xu +2 more

Deep transfer learning of cancer drug responses by integrating bulk and single-cell RNA-seq data

Nature Communications(2022)10.1038/s41467-022-34277-7

N/A

0DataRank · unranked

205 citations

Xiaoying Wang, Anjun Ma, Qi‐En Wang, BingQiang Liu, Lang Li +3 more

Neural relational inference to learn allosteric long-range interactions in proteins from molecular dynamics simulations

Research Square(2021)10.21203/rs.3.rs-219933/v1

N/A

0DataRank · unranked

1 citations

Juexin Wang, Weiwei Han, Dong Xu, Jingxuan Zhu

Sampling and ranking spatial transcriptomics data embeddings to identify tissue architecture

Frontiers in Genetics(2022)10.3389/fgene.2022.912813

N/A

0DataRank · unranked

3 citations

Yan Wang, Yanchun Liang, Yang Yu, Jingyi Li, Qin Ma +3 more

Evolutionary dynamics of indels in SARS-CoV-2 spike glycoprotein

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.07.30.454557

N/A

0DataRank · unranked

2 citations

Nagib Ahsan, Chunhui Xu, Lingtao Su, Jacob Verburgt, Luca Fornelli +3 more

Secure Comparisons of Single NucleotidePolymorphisms Using Secure MultipartyComputation

Research Square(2022)10.21203/rs.3.rs-2160515/v1

N/A

0DataRank · unranked

0 citations

Skyler T. Kramer, Dong Xu, Wei Jiang, Andrew Woods

Deep Transfer Learning of Drug Responses by Integrating Bulk and Single-cell RNA-seq data

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.08.01.454654

N/A

0DataRank · unranked

4 citations

Zhenyu Wu, Ren Qi, Anjun Ma, Jing Zhao, Dong Xu +3 more

Dimension-agnostic and granularity-based spatially variable gene identification using BSP

Nature Communications(2023)10.1038/s41467-023-43256-5

N/A

0DataRank · unranked

31 citations

Jinpu Li, Skyler T. Kramer, Li Su, Yuzhou Chang, Chunhui Xu +5 more

Define and visualize pathological architectures of human tissues from spatially resolved transcriptomics using deep learning

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.07.08.451210

N/A

0DataRank · unranked

12 citations

Fei He, Juexin Wang, Shuo Chen, Jingyi Li, Jixin Liu +14 more

MUfoldQA_G: High-accuracy protein model QA via retraining and transformation

Computational and Structural Biotechnology Journal(2021)10.1016/j.csbj.2021.11.021

N/A

0DataRank · unranked

7 citations

Junlin Wang, Zhaoyu Li, Dong Xu, Yi Shang, Wenbo Wang

Prediction of Protein Ion–Ligand Binding Sites with ELECTRA

Molecules(2023)10.3390/molecules28196793

N/A

0DataRank · unranked

3 citations

Lei Jiang, Duolin Wang, Dong Xu, Clement Essien

S-PLM: Structure-aware Protein Language Model via Contrastive Learning between Sequence and Structure

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.08.06.552203

N/A

0DataRank · unranked

16 citations

Mahdi Pourmirzaei, Usman L. Abbas, Shuai Zeng, Negin Manshour, Farzaneh Esmaili +6 more

MULocDeep: A deep-learning framework for protein subcellular and suborganellar localization prediction with residue-level interpretation

Computational and Structural Biotechnology Journal(2021)10.1016/j.csbj.2021.08.027

N/A

0DataRank · unranked

117 citations

Duolin Wang, Yifu Yao, Holger Eubel, Patrick Künzler, Ian Max Møller +2 more

PEFT-SP: Parameter-Efficient Fine-Tuning on Large Protein Language Models Improves Signal Peptide Prediction

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.11.04.565642

N/A

0DataRank · unranked

13 citations

Duolin Wang, Dong Xu, Shuai Zeng

Iterative Prompt Refinement for Mining Gene Relationships from ChatGPT

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.12.23.573201

N/A

0DataRank · unranked

9 citations

Jeffrey Gao, Marius Petruc, Richard Hammer, Mihail Popescu, Dong Xu +1 more

MarsGT: Multi-omics analysis for rare population inference using single-cell graph transformer

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.08.15.553454

N/A

0DataRank · unranked

5 citations

Maoteng Duan, Jingxian Li, Anjun Ma, Dong Xu, Zihai Li +3 more

scGNN is a novel graph neural network framework for single-cell RNA-Seq analyses

Nature Communications(2021)10.1038/s41467-021-22197-x

N/A

0DataRank · unranked

464 citations

Anjun Ma, Yuzhou Chang, Jianting Gong, Yuexu Jiang, Ren Qi +5 more

Inductive Inference of Gene Regulatory Network Using Supervised and Semi-supervised Graph Neural Networks

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.09.27.315382

N/A

0DataRank · unranked

2 citations

Anjun Ma, Qin Ma, Dong Xu, Trupti Joshi, Juexin Wang

Dimension-agnostic and granularity-based spatially variable gene identification

(2023)10.21203/rs.3.rs-2687726/v1

N/A

0DataRank · unranked

0 citations

Jinpu Li, Skyler T. Kramer, Li Su, Yuzhou Chang, Chunhui Xu +3 more

Secure Comparisons of Single Nucleotide Polymorphisms Using Secure Multiparty Computation: Method Development

JMIR Bioinformatics and Biotechnology(2023)10.2196/44700

N/A

0DataRank · unranked

0 citations

Skyler T. Kramer, Dong Xu, Wei Jiang, Andrew Woods

Prediction of Protein Ion-Ligand Binding Sites with ELECTRA

Preprints.org(2023)10.20944/preprints202308.1858.v1

N/A

0DataRank · unranked

0 citations

Lei Jiang, Duolin Wang, Dong Xu, Clement Essien

pathCLIP: Detection of Genes and Gene Relations from Biological Pathway Figures through Image-Text Contrastive Learning

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.10.31.564859

Top 100%

0DataRank

Top 100%0 citations

Kai Liu, Zhiyuan Yang, Yibo Chen, Richard Hammer, Dong Xu +2 more

Bioinformatics and biomedical informatics with ChatGPT: Year one review

Quantitative Biology(2024)10.1002/qub2.67

N/A

0DataRank · unranked

32 citations

Zien Cheng, Qiuming Yao, Li Liu, Dong Xu, Gangqing Hu +1 more

S‐PLM: Structure‐Aware Protein Language Model via Contrastive Learning Between Sequence and Structure

Advanced Science(2024)10.1002/advs.202404212

N/A

0DataRank · unranked

30 citations

Mahdi Pourmirzaei, Usman L. Abbas, Shuai Zeng, Negin Manshour, Farzaneh Esmaili +6 more

MULocDeep: A deep-learning framework for protein subcellular and suborganellar localization prediction with residue-level interpretation

Research Square(2020)10.21203/rs.3.rs-40744/v1

N/A

0DataRank · unranked

7 citations

Duolin Wang, Yifu Yao, Holger Eubel, Patrick Künzler, Ian Max Møller +2 more

On the Responsible Use of Chatbots in Bioinformatics

Genomics Proteomics & Bioinformatics(2024)10.1093/gpbjnl/qzae002

N/A

0DataRank · unranked

9 citations

Li Liu, Dong Xu, Gangqing Hu

Unveiling orphan receptor-like kinases in plants: novel client discovery using high-confidence library predictions in the Kinase–Client (KiC) assay

Frontiers in Plant Science(2024)10.3389/fpls.2024.1372361

N/A

0DataRank · unranked

4 citations

Daewon Kim, Chunhui Xu, Sung‐Hwan Cho, Lingtao Su, Dong Xu +4 more

Overlapping Community Detection Based on Membership Degree Propagation

Entropy(2020)10.3390/e23010015

N/A

0DataRank · unranked

12 citations

Shoufeng Li, Xiaohu Shi, Yanchun Liang, Dong Xu, Rui Gao

Proteomic and Bioinformatic Profiling of Transporters in Higher Plant Mitochondria

Biomolecules(2020)10.3390/biom10081190

N/A

0DataRank · unranked

12 citations

R. Shyama Prasad Rao, Yuexu Jiang, Jay J. Thelen, Dong Xu, Ian Max Møller

Iterative Prompt Refinement for Mining Gene Relationships from ChatGPT

International Journal of Artificial Intelligence and Robotics Research(2024)10.1142/s2972335324500054

N/A

0DataRank · unranked

6 citations

Jeffrey Gao, Marius Petruc, Richard Hammer, Mihail Popescu, Dong Xu +1 more

Endoplasmic reticulum retention and degradation of a mutation in SLC6A1 associated with epilepsy and autism

Molecular Brain(2020)10.1186/s13041-020-00612-6

N/A

0DataRank · unranked

48 citations

Sarah Poliquin, Felicia Mermer, Jaclyn M. Eissman, Eric Delpire, Juexin Wang +11 more

Inductive inference of gene regulatory network using supervised and semi-supervised graph neural networks

Computational and Structural Biotechnology Journal(2020)10.1016/j.csbj.2020.10.022

N/A

0DataRank · unranked

83 citations

Anjun Ma, Qin Ma, Dong Xu, Trupti Joshi, Juexin Wang

MusiteDeep: a deep-learning based webserver for protein post-translational modification site prediction and visualization

Nucleic Acids Research(2020)10.1093/nar/gkaa275

N/A

0DataRank · unranked

317 citations

Dongpeng Liu, Jiakang Yuchi, Fei He, Yuexu Jiang, Siteng Cai +3 more

Overcoming Wnt–β-catenin dependent anticancer therapy resistance in leukaemia stem cells

Nature Cell Biology(2020)10.1038/s41556-020-0507-y

N/A

0DataRank · unranked

139 citations

Tao Fang, Anuradha Roy, Tara L. Lin, Xi He, Shiyuan Chen +31 more

G2PDeep-v2: a web-based deep-learning framework for phenotype prediction and biomarker discovery using multi-omics data

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.09.10.612292

N/A

0DataRank · unranked

2 citations

Trinath Adusumilli, Sania Zafar Awan, Manish Sridhar Immadi, Dong Xu, Trupti Joshi +1 more

CrossMP: Enabling Cross-Modality Translation between Single-Cell RNA-Seq and Single-Cell ATAC-Seq through Web-Based Portal

Genes(2024)10.3390/genes15070882

N/A

0DataRank · unranked

0 citations

Sabin Dahal, Shuai Zeng, Juexin Wang, Dong Xu, Trupti Joshi +1 more

MTPrompt-PTM: A Multi-Task Method for Post-Translational Modification Prediction Using Prompt Tuning on a Structure-Aware Protein Language Model

Biomolecules(2025)10.3390/biom15060843

N/A

0DataRank · unranked

6 citations

Fei He, Qing Shao, Duolin Wang, Dong Xu, Ye Han

Identifying Receptor Kinase Substrates Using an 8000 Peptide Kinase Client Library Enriched for Conserved Phosphorylation Sites

Molecular & Cellular Proteomics(2025)10.1016/j.mcpro.2025.100926

N/A

0DataRank · unranked

5 citations

Gabriel Lemes Jorge, Chunhui Xu, Lingtao Su, Sung‐Hwan Cho, Nagib Ahsan +11 more

scBSP: a fast and accurate tool for identifying spatially variable features from high-resolution spatial omics data

Bioinformatics(2025)10.1093/bioinformatics/btaf554

N/A

0DataRank · unranked

2 citations

Mauminah Raina, Yiqing Wang, Chunhui Xu, Li Su, Qi Guo +6 more

G2PDeep-v2: A Web-Based Deep-Learning Framework for Phenotype Prediction and Biomarker Discovery for All Organisms Using Multi-Omics Data

Biomolecules(2025)10.3390/biom15121673

N/A

0DataRank · unranked

2 citations

Trinath Adusumilli, Sania Zafar Awan, Manish Sridhar Immadi, Dong Xu, Trupti Joshi +1 more

Leveraging Large Language Models for Infectious Disease Surveillance—Using a Web Service for Monitoring COVID-19 Patterns From Self-Reporting Tweets: Content Analysis

Journal of Medical Internet Research(2025)10.2196/63190

N/A

0DataRank · unranked

4 citations

Ziyang Zhang, Shuai Zeng, Joel Hilliard, Guanghui An, Xiaoting Tang +5 more

Relation equivariant graph neural networks to explore the mosaic-like tissue architecture of kidney diseases on spatially resolved transcriptomics

Bioinformatics(2025)10.1093/bioinformatics/btaf303

N/A

0DataRank · unranked

2 citations

Hao Cheng, Ricardo Melo Ferreira, Treyden Stansfield, Chandrima Modak, Ying-Hua Cheng +6 more

MULoc-target: Targeting peptide classification and detection using a protein language model

Briefings in Bioinformatics(2025)10.1093/bib/bbaf436

N/A

0DataRank · unranked

1 citations

Duolin Wang, Shuai Zeng, Yichuan Zhang, Lei Jiang, Mahdi Pourmirzaei +6 more

Phloem-specific translational regulation of soybean nodulation: Insights from a phloem-targeted TRAP-seq approach

PLANT PHYSIOLOGY(2025)10.1093/plphys/kiaf570

N/A

0DataRank · unranked

1 citations

Shin‐ichiro Agake, Sayuri Tanabata, Yaya Cui, Li Su, Bruna Montes‐Luz +3 more

Enhancing Structure-aware Protein Language Models with Efficient Fine-tuning for Various Protein Prediction Tasks

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.04.23.650337

N/A

0DataRank · unranked

1 citations

Y. Qin, Mahdi Pourmirzaei, Qing Shao, Duolin Wang, Dong Xu +1 more

Global analysis of membrane protein S-acylation in the model plant Arabidopsis thaliana

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.07.01.658617

N/A

0DataRank · unranked

1 citations

Lingtao Su, Mowei Zhou, Marina A. Gritsenko, Jinrong Wan, Yan Ma +5 more

TrimNN: Characterizing cellular community motifs for studying multicellular topological organization in complex tissues

Research Square(2025)10.21203/rs.3.rs-5584635/v1

N/A

0DataRank · unranked

0 citations

Yang Yu, Shuang Wang, Jinpu Li, Meichen Yu, Kyle McCrocklin +5 more

Harnessing the Power of Single Cell Large Language Models with Parameter Efficient Fine-Tuning using scPEFT

Research Square(2025)10.21203/rs.3.rs-5926885/v1

N/A

0DataRank · unranked

0 citations

Fei He, Ruixin Fei, Jordan E. Krull, Xinyu Zhang, Mingyue Gao +9 more

Deep-learning-enabled multi-omics analyses for prediction of future metastasis in cancer

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.05.16.654579

N/A

0DataRank · unranked

0 citations

Maoteng Duan, Po‐Lan Su, Jianying Li, Jordan E. Krull, Jiacheng Jin +15 more

ProtLoc-GRPO: Cell line-specific subcellular localization prediction using a graph-based model and reinforcement learning

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.07.17.665451

N/A

0DataRank · unranked

0 citations

Weinan Zhang, Chaohan Li, Yuexu Jiang, Duolin Wang, Qing Shao +2 more

AI-Aided Design of Novel Targeted Covalent Inhibitors against SARS-CoV-2

Biomolecules(2022)10.3390/biom12060746

N/A

0DataRank · unranked

111 citations

Fengming He, Dongpeng Liu, Fei He, Tong Wu, Meijuan Fang +4 more

Reusability Report: Meta-Learning for Antigen-Specific T-Cell Receptor Binder Identification

Research Square(2025)10.21203/rs.3.rs-7456773/v1

N/A

0DataRank · unranked

0 citations

Fei He, Xianyu Wang, Dong Xu

Zinc is a master-regulator of sperm function associated with binding, motility, and metabolic modulation during porcine sperm capacitation

Communications Biology(2022)10.1038/s42003-022-03485-8

N/A

0DataRank · unranked

54 citations

Karl Kerns, Sidharth Sen, Clement Essien, Richard Oko, Dong Xu +2 more

Neural relational inference to learn long-range allosteric interactions in proteins from molecular dynamics simulations

Nature Communications(2022)10.1038/s41467-022-29331-3

N/A

0DataRank · unranked

130 citations

Juexin Wang, Weiwei Han, Dong Xu, Jingxuan Zhu

FASTAptameR 2.0: A web tool for combinatorial sequence selections

Molecular Therapy — Nucleic Acids(2022)10.1016/j.omtn.2022.08.030

N/A

0DataRank · unranked

37 citations

Paige R. Gruenke, Khalid K. Alam, Dong Xu, Donald H. Burke, Skyler T. Kramer

Dong Xu

Indexed papers

Top data-sharing exemplar

Papers