Jiangning Song

Biochemistry, Genetics and Molecular BiologyComputer Science

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 100%percentile

0Author DataRank

Indexed papers

0in pilot corpus

datarank_citation_only_1hop_v6· scope data_onlyMethodology

Papers

Driven by 43 papers. Top paper: “Procleave: Predicting Protease-Specific Substrate Cleavage Sites by Combining Sequence and Structural Information”.

Procleave: Predicting Protease-Specific Substrate Cleavage Sites by Combining Sequence and Structural Information

Genomics Proteomics & Bioinformatics(2020)10.1016/j.gpb.2019.08.002

N/A

0DataRank · unranked

151 citations

André Leier, Quanzhong Liu, Yanan Wang, Dongxu Xiang, Tatsuya Akutsu +6 more

DeepTorrent: a deep learning-based approach for predicting DNA N4-methylcytosine sites

Briefings in Bioinformatics(2020)10.1093/bib/bbaa124

N/A

0DataRank · unranked

131 citations

Jin-Xiang Chen, Yanze Wang, Shuqin Li, Cangzhi Jia, Jiangning Song +2 more

Large-scale comparative review and assessment of computational methods for anti-cancer peptide identification

Briefings in Bioinformatics(2020)10.1093/bib/bbaa312

N/A

0DataRank · unranked

105 citations

Fuyi Li, Jin-Xiang Chen, Jun‐Long Li, Hao Wu, Shuqin Li +3 more

DeepVF: a deep learning-based hybrid framework for identifying virulence factors using the stacking strategy

Briefings in Bioinformatics(2020)10.1093/bib/bbaa125

N/A

0DataRank · unranked

86 citations

Jiahui Li, Jiawei Wang, Wei Dai, André Leier, Tatiana T. Marquez‐Lago +5 more

A Deep Learning-Based Method for Identification of Bacteriophage-Host Interaction

IEEE/ACM Transactions on Computational Biology and Bioinformatics(2020)10.1109/tcbb.2020.3017386

N/A

0DataRank · unranked

74 citations

Yanan Wang, Fuyi Li, Yun Zhao, Mengya Liu, Sijia Zhang +7 more

Computational identification of eukaryotic promoters based on cascaded deep capsule neural networks

Briefings in Bioinformatics(2020)10.1093/bib/bbaa299

N/A

0DataRank · unranked

62 citations

Fuyi Li, Dongxu Xiang, Tatsuya Akutsu, Jiangning Song, Cangzhi Jia +1 more

Inspector: a lysine succinylation predictor based on edited nearest-neighbor undersampling and adaptive synthetic oversampling

Analytical Biochemistry(2020)10.1016/j.ab.2020.113592

N/A

0DataRank · unranked

61 citations

Cangzhi Jia, Fuyi Li, Jiangning Song, Yan Zhu

Pan-transcriptomic analysis identified common differentially expressed genes of Acinetobacter baumannii in response to polymyxin treatments

Molecular Omics(2020)10.1039/d0mo00015a

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0DataRank · unranked

19 citations

Su Mon Aye, Maizbha Uddin Ahmed, Mei‐Ling Han, Chen Li, Jiangning Song +7 more

DeepBL: a deep learning-based approach for in silico discovery of beta-lactamases

Briefings in Bioinformatics(2020)10.1093/bib/bbaa301

N/A

0DataRank · unranked

13 citations

Fuyi Li, Manasa Bharathwaj, Natalia C. Rosas, André Leier, Tatsuya Akutsu +6 more

ColistinDose, a Mobile App for Determining Intravenous Dosage Regimens of Colistimethate in Critically Ill Adult Patients: Clinician-Centered Design and Development Study

JMIR mhealth and uhealth(2020)10.2196/20525

N/A

0DataRank · unranked

5 citations

Chen Li, Jason M. Pogue, Varun Sharma, Ilias Karaiskos, Keith S. Kaye +6 more

Global metabolic analyses identify key differences in metabolite levels between polymyxin-susceptible and polymyxin-resistant Acinetobacter baumannii

UNC Libraries(2020)10.17615/ckx5-4h52

N/A

0DataRank · unranked

0 citations

Darren J. Creek, Jiangning Song, Jian Li, Anthony W. Purcell, Matthew D. Johnson +9 more

iLearnPlus:a comprehensive and automated machine-learning platform for nucleic acid and protein sequence analysis, prediction and visualization

Nucleic Acids Research(2021)10.1093/nar/gkab122

N/A

0DataRank · unranked

284 citations

Pei Zhao, Chen Li, Fuyi Li, Dongxu Xiang, Yongzi Chen +7 more

Comprehensive assessment of machine learning-based methods for predicting antimicrobial peptides

Briefings in Bioinformatics(2021)10.1093/bib/bbab083

N/A

0DataRank · unranked

160 citations

Fuyi Li, André Leier, Dongxu Xiang, Hsin‐Hui Shen, Tatiana T Marquez Lago +4 more

Leveraging the attention mechanism to improve the identification of DNA N6-methyladenine sites

Briefings in Bioinformatics(2021)10.1093/bib/bbab351

N/A

0DataRank · unranked

74 citations

Yan Liu, Jian Xu, Xiaoyu Wang, Xinxin Peng, Jiangning Song +2 more

Porpoise: a new approach for accurate prediction of RNA pseudouridine sites

Briefings in Bioinformatics(2021)10.1093/bib/bbab245

N/A

0DataRank · unranked

59 citations

Xudong Guo, Peipei Jin, Jin-Xiang Chen, Dongxu Xiang, Jiangning Song +2 more

SAResNet: self-attention residual network for predicting DNA-protein binding

Briefings in Bioinformatics(2021)10.1093/bib/bbab101

N/A

0DataRank · unranked

55 citations

Yan Liu, Jiangning Song, Dong‐Jun Yu, Long-Chen Shen

nhKcr: a new bioinformatics tool for predicting crotonylation sites on human nonhistone proteins based on deep learning

Briefings in Bioinformatics(2021)10.1093/bib/bbab146

N/A

0DataRank · unranked

51 citations

Zhuozhi Wang, Yanan Wang, Guoguang Ying, Zhen Chen, Jiangning Song +1 more

PScL-HDeep: image-based prediction of protein subcellular location in human tissue using ensemble learning of handcrafted and deep learned features with two-layer feature selection

Briefings in Bioinformatics(2021)10.1093/bib/bbab278

N/A

0DataRank · unranked

44 citations

Ke Han, Fazal Hadi, Jian Xu, Jiangning Song, Dong‐Jun Yu +1 more

Prediction of disease-associated nsSNPs by integrating multi-scale ResNet models with deep feature fusion

Briefings in Bioinformatics(2021)10.1093/bib/bbab530

N/A

0DataRank · unranked

33 citations

Ying Zhang, Jian Xu, Muhammad Arif, Jiangning Song, Dong‐Jun Yu +1 more

Critical assessment of computational tools for prokaryotic and eukaryotic promoter prediction

Briefings in Bioinformatics(2021)10.1093/bib/bbab551

N/A

0DataRank · unranked

33 citations

Cangzhi Jia, Fuyi Li, Chen Li, Yan Zhu, Tatsuya Akutsu +5 more

Improving protein fold recognition using triplet network and ensemble deep learning

Briefings in Bioinformatics(2021)10.1093/bib/bbab248

N/A

0DataRank · unranked

17 citations

Ke Han, Yiheng Zhu, Ying Zhang, Long-Chen Shen, Jiangning Song +2 more

MAResNet: predicting transcription factor binding sites by combining multi-scale bottom-up and top-down attention and residual network

Briefings in Bioinformatics(2021)10.1093/bib/bbab445

N/A

0DataRank · unranked

15 citations

Long-Chen Shen, Yiheng Zhu, Jian Xu, Jiangning Song, Dong‐Jun Yu +1 more

Why can deep convolutional neural networks improve protein fold recognition? A visual explanation by interpretation

Briefings in Bioinformatics(2021)10.1093/bib/bbab001

N/A

0DataRank · unranked

15 citations

Yiheng Zhu, Xiaoning Song, Jiangning Song, Dong‐Jun Yu, Yan Liu

iFeatureOmega:an integrative platform for engineering, visualization and analysis of features from molecular sequences, structural and ligand data sets

Nucleic Acids Research(2022)10.1093/nar/gkac351

N/A

0DataRank · unranked

97 citations

Xuhan Liu, Pei Zhao, Chen Li, Yanan Wang, Fuyi Li +9 more

Clarion is a multi-label problem transformation method for identifying mRNA subcellular localizations

Briefings in Bioinformatics(2022)10.1093/bib/bbac467

N/A

0DataRank · unranked

38 citations

Fuyi Li, Xudong Guo, Zhikang Wang, Tong Pan, Yuming Guo +5 more

RBP-TSTL is a two-stage transfer learning framework for genome-scale prediction of RNA-binding proteins

Briefings in Bioinformatics(2022)10.1093/bib/bbac215

N/A

0DataRank · unranked

26 citations

Xiaoyu Wang, Yuming Guo, Zongyuan Ge, Fuyi Li, Xin Gao +2 more

csORF-finder: an effective ensemble learning framework for accurate identification of multi-species coding short open reading frames

Briefings in Bioinformatics(2022)10.1093/bib/bbac392

N/A

0DataRank · unranked

31 citations

Jian Zhao, Chen Li, Fang Ge, Jing Wu, Bin Jiang +3 more

ASPIRER: a new computational approach for identifying non-classical secreted proteins based on deep learning

Briefings in Bioinformatics(2022)10.1093/bib/bbac031

N/A

0DataRank · unranked

27 citations

Fuyi Li, Jing Xu, Jia Rong, Geoffrey I. Webb, Zongyuan Ge +3 more

VPatho: a deep learning-based two-stage approach for accurate prediction of gain-of-function and loss-of-function variants

Briefings in Bioinformatics(2022)10.1093/bib/bbac535

N/A

0DataRank · unranked

27 citations

Chen Li, Shahid Iqbal, Muhammad Arif, Fuyi Li, Maha A. Thafar +6 more

PreAcrs: a machine learning framework for identifying anti-CRISPR proteins

BMC Bioinformatics(2022)10.1186/s12859-022-04986-3

N/A

0DataRank · unranked

17 citations

Xiaoyu Wang, Fuyi Li, Jiangning Song, Lin Zhu

PScL-DDCFPred: an ensemble deep learning-based approach for characterizing multiclass subcellular localization of human proteins from bioimage data

Bioinformatics(2022)10.1093/bioinformatics/btac432

N/A

0DataRank · unranked

15 citations

Fazal Hadi, Jiangning Song, Dong‐Jun Yu, Matee Ullah

Improving the prediction of DNA-protein binding by integrating multi-scale dense convolutional network with fault-tolerant coding

Analytical Biochemistry(2022)10.1016/j.ab.2022.114878

N/A

0DataRank · unranked

8 citations

Long-Chen Shen, Yuan-Hao Jiang, Shang Gao, Jiangning Song, Dong‐Jun Yu +1 more

Polymyxin Induces Significant Transcriptomic Perturbations of Cellular Signalling Networks in Human Lung Epithelial Cells

Antibiotics(2022)10.3390/antibiotics11030307

N/A

0DataRank · unranked

2 citations

Mohammad Abul Kalam Azad, Maizbha Uddin Ahmed, Yan Zhu, Jiangning Song, Fanfan Zhou +5 more

PScL-2LSAESM: bioimage-based prediction of protein subcellular localization by integrating heterogeneous features with the two-level SAE-SM and mean ensemble method

Bioinformatics(2022)10.1093/bioinformatics/btac727

N/A

0DataRank · unranked

5 citations

Fazal Hadi, Jiangning Song, Dong‐Jun Yu, Matee Ullah

Performing protein fold recognition by exploiting a stack convolutional neural network with the attention mechanism

Analytical Biochemistry(2022)10.1016/j.ab.2022.114695

N/A

0DataRank · unranked

3 citations

Yan Liu, Jian Xu, Jiangning Song, Dong‐Jun Yu, Ke Han

BigFiRSt: A Software Program Using Big Data Technique for Mining Simple Sequence Repeats From Large-Scale Sequencing Data

Frontiers in Big Data(2022)10.3389/fdata.2021.727216

N/A

0DataRank · unranked

4 citations

Fuyi Li, Miao Wang, Jun‐Long Li, Tatiana T. Marquez‐Lago, André Leier +5 more

iAMPCN: a deep-learning approach for identifying antimicrobial peptides and their functional activities

Briefings in Bioinformatics(2023)10.1093/bib/bbad240

N/A

0DataRank · unranked

108 citations

Fuyi Li, Chen Li, Xudong Guo, Cornelia B. Landersdorfer, Hsin‐Hui Shen +7 more

Interpretable prediction models for widespread m6A RNA modification across cell lines and tissues

Bioinformatics(2023)10.1093/bioinformatics/btad709

N/A

0DataRank · unranked

24 citations

Zhikang Wang, Yiwen Zhang, Shanshan Li, Yuming Guo, Jiangning Song +2 more

PmxPred: A data-driven approach for the identification of active polymyxin analogues against gram-negative bacteria

Computers in Biology and Medicine(2023)10.1016/j.compbiomed.2023.107681

N/A

0DataRank · unranked

12 citations

Nitin A. Patil, Fuyi Li, Zhikang Wang, Haolan Zhan, Daniel F. Schmidt +8 more

Prediction of Multiple Types of RNA Modifications via Biological Language Model

IEEE/ACM Transactions on Computational Biology and Bioinformatics(2023)10.1109/tcbb.2023.3283985

N/A

0DataRank · unranked

23 citations

Fang Ge, Fuyi Li, Xibei Yang, Jiangning Song, Dong‐Jun Yu +1 more

TripletCell: a deep metric learning framework for accurate annotation of cell types at the single-cell level

Briefings in Bioinformatics(2023)10.1093/bib/bbad132

N/A

0DataRank · unranked

17 citations

Wei Guo, Chen Li, Long-Chen Shen, Robin B. Gasser, Jiangning Song +3 more

Development of a novel angiotensin converting enzyme 2 stimulator with broad implications in SARS-CoV2 infection and type 1 diabetes

Research Square(2023)10.21203/rs.3.rs-2642181/v1

N/A

0DataRank · unranked

0 citations

Melanie Wu, Jiangning Song, Andrew Hung, Shirley Tran, Hang TA +31 more

PhageGE: an interactive web platform for exploratory analysis and visualization of bacteriophage genomes

GigaScience(2024)10.1093/gigascience/giae074

N/A

0DataRank · unranked

8 citations

Jiru Han, Yu‐Wei Lin, Yan Zhu, Michael Aichem, Dimitar Garkov +9 more