59 Zheng X, Chen J, Zhang Y, Hu S, Bi C, Singla
RK, Kamal MA, Horimoto K, Shen B. Translational Informatics Driven Drug
Repositioning for Neurodegenerative Disease. Curr Neuropharmacol. 2025
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58 Liu X, Yang Y, Zong H, Zhang K, Jiang M, Yu
C, Chen Y, Bao T, Li D, Wang J, Tang T, Ren S, Ruso JM, Shen B. Core
reference ontology for individualized exercise prescription. Sci Data.
2024 Dec 18;11(1):1349. doi: 10.1038/s41597-024-04217-9. PMID: 39695140;
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57 Zhang K, Ren S, Bao T, Wu R, Wu E, Liu X,
Zhan C, Wei J, Shen L, Li D, Shen B. PAHFKB: A knowledge base to support
personalized exercise prescription recommendations in prevention and
intervention of heart failure. Digit Health. 2024 Nov
20;10:20552076241299083. doi: 10.1177/20552076241299083. PMID: 39569397;
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56 Wu R, Zong H, Feng W, Zhang K, Li J, Wu E,
Tang T, Zhan C, Liu X, Zhou Y, Zhang C, Zhang Y, He M, Ren S, Shen B.
OligoM-Cancer: A multidimensional information platform for deep
phenotyping of heterogenous oligometastatic cancer. Comput Struct
Biotechnol J. 2024 Aug 17;24:561-570. doi: 10.1016/j.csbj.2024.08.015.
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55 Li JK, Tang T, Zong H, Wu EM, Zhao J, Wu RR,
Zheng XN, Zhang H, Li YF, Zhou XH, Zhang CC, Zhang ZL, Zhang YH, Feng
WZ, Zhou Y, Wang J, Zhu QY, Deng Q, Zheng JM, Yang L, Wei Q, Shen BR.
Intelligent medicine in focus: the 5 stages of evolution in
robot-assisted surgery for prostate cancer in the past 20 years and
future implications. Mil Med Res. 2024 Aug 21;11(1):58. doi:
10.1186/s40779-024-00566-z. PMID: 39164787; PMCID: PMC11337898.
54 Batool Z, Kamal MA, Shen B. Advancements in
triple-negative breast cancer sub-typing, diagnosis and treatment with
assistance of artificial intelligence : a focused review. J Cancer Res
Clin Oncol. 2024 Aug 6;150(8):383. doi: 10.1007/s00432-024-05903-2.
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53 Duan J, Li P, Shao A, Hao X, Zhou R, Bi C,
Liu X, Li W, Zhu H, Chen G, Shen B, Zhu T. PPCRKB: a risk factor
knowledge base of postoperative pulmonary complications. Database
(Oxford). 2024 Jul 19;2024:baae054. doi: 10.1093/database/baae054. PMID:
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52 Ren S, Yang L, Du J, He M, Shen B. DRGKB: a
knowledgebase of worldwide diagnosis-related groups' practices for
comparison, evaluation and knowledge-guided application. Database
(Oxford). 2024 Jun 6;2024:baae046. doi: 10.1093/database/baae046. PMID:
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51 Zheng M, Kumar A, Sharma V, Behl T, Sehgal A,
Wal P, Shinde NV, Kawaduji BS, Kapoor A, Anwer MK, Gulati M, Shen B,
Singla RK, Bungau SG. Revolutionizing pediatric neuroblastoma treatment:
unraveling new molecular targets for precision interventions. Front
Cell Dev Biol. 2024 Mar 27;12:1353860. doi: 10.3389/fcell.2024.1353860.
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50 Yu C, Zong H, Chen Y, Zhou Y, Liu X, Lin Y,
Li J, Zheng X, Min H, Shen B. PCAO2: an ontology for integration of
prostate cancer associated genotypic, phenotypic and lifestyle data.
Brief Bioinform. 2024 Mar 27;25(3):bbae136. doi: 10.1093/bib/bbae136.
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49 Li J, Tang T, Wu E, Zhao J, Zong H, Wu R,
Feng W, Zhang K, Wang D, Qin Y, Shen Z, Qin Y, Ren S, Zhan C, Yang L,
Wei Q, Shen B. RARPKB: A knowledge-guide decision support platform for
personalized robot-assisted surgery in prostate cancer. Int J Surg. 2024
Mar 18. doi: 10.1097/JS9.0000000000001290. Epub ahead of print. PMID:
38498357.
48 Xue L, Singla RK, He S, Arrasate S,
González-Díaz H, Miao L, Shen B. Warfarin-A natural anticoagulant: A
review of research trends for precision medication. Phytomedicine. 2024
Jun;128:155479. doi: 10.1016/j.phymed.2024.155479. Epub 2024 Feb 23.
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47 Wang S, Shen B, Guo L, Shang M, Liu J, Sun Q,
Shen B. scFed: federated learning for cell type classification with
scRNA-seq. Brief Bioinform. 2023 Nov 22;25(1):bbad507. doi:
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46 Zong H, Li J, Wu E, Wu R, Lu J, Shen B.
Performance of ChatGPT on Chinese national medical licensing
examinations: a five-year examination evaluation study for physicians,
pharmacists and nurses. BMC Med Educ. 2024 Feb 14;24(1):143. doi:
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45 Gautam RK, Tripathi SM, Akash S, Sharma S,
Sharma K, Goyal S, Behzad S, Gundamaraju R, Mishra DK, Zhang Y, Shen B,
Sundriyal S, Singla RK. Unlocking the Immunomodulatory Potential of
Rosmarinic Acid Isolated from Punica granatum L. Using
Bioactivity-Guided Approach: In Silico, In Vitro, and In Vivo
Approaches. Curr Med Chem. 2024 Mar 5. doi:
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44 Mishra PC, Alanazi AM, Panda SP, Alam A,
Dubey A, Jha SK, Kamal MA. Computational exploration of Zika virus
RNA-dependent RNA polymerase inhibitors: a promising antiviral drug
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43 Yu J, Li Y, Zhang K, Yang R, Yang X, Gong M,
Long C, Fu W. The accuracy of multiple regression models for predicting
the individual risk of recurrent lateral patellar dislocation. BMC
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42 Li J, Xing H, Chen J, Lu H, Tao Z, Tao Y, Sun
Y, Su T, Li X, Chang H, Chen S, Chen Z, Yang H, Cheng J, Zhu H, Lu X. A
Versatile Platform to Generate Prodrugs with Rapid and Precise Albumin
Hitchhiking and High Cargo Loading for Tumor-Targeted Chemotherapy.
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41 Wu E, Fan X, Tang T, Li J, Wang J, Liu X, Zungar
Z, Ren J, Wu C, Shen B. Biomarkers discovery for endometrial cancer: A
graph convolutional sample network method. Comput Biol Med. 2022
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40 Li J, Fan X, Tang T, Wu E, Wang D, Zong H, Zhou
X, Li Y, Zhang C, Zhang Y, Wu R, Wu C, Yang L, Shen B. An artificial
intelligence method for predicting postoperative urinary incontinence
based on multiple anatomic parameters of MRI. Heliyon. 2023 Sep
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39 Li J, Zhang Z, Zhang C, Zhu Q, Zhao J, Zong H,
Deng Q, Zheng J, Wu E, Wu R, Tang T, Zhang Y, Dong Q, Li Y, Wang J, Yang
L, Qiu S, Shen B, Wei Q. Association Between Urinary Bisphenols and
Body Composition Among American Adults: Cross-Sectional National Health
and Nutrition Examination Survey Study. JMIR Public Health Surveill.
2023 Sep 19;9:e49652. doi: 10.2196/49652. PMID: 37615638; PMCID:
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38 Zhang C, Zhang X, Sun Z, Liu X, Shen B.
MetaSepsisBase: a biomarker database for systems biological analysis and
personalized diagnosis of heterogeneous human sepsis. Intensive Care
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37 Zhan C, Liu K, Zhang Y, Zhang Y, He M, Wu R, Bi
C, Shen B. Myocardial infarction unveiled: Key miRNA players screened by
a novel lncRNA-miRNA-mRNA network model. Comput Biol Med. 2023 Apr
28;160:106987. doi: 10.1016/j.compbiomed.2023.106987. Epub ahead of
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36 Shen K, Din AU, Sinha B, Zhou Y, Qian F, Shen B.
Translational informatics for human microbiota: data resources, models
and applications. Brief Bioinform. 2023 May 4:bbad168. doi:
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35 Singla RK, Joon S, Sinha B, Kamal MA,
Simal-Gandara J, Xiao J, Shen B. Current trends in natural products for
the treatment and management of dementia: Computational to clinical
studies. Neurosci Biobehav Rev. 2023 Apr;147:105106. doi:
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34 Xue L, Ding Y, Qin Q, Liu L, Ding X, Zhou Y, Liu
K, Singla RK, Shen K, Din AU, Zhang Y, Shen Z, Shen B, Miao L.
Assessment of the impact of intravenous antibiotics treatment on gut
microbiota in patients: Clinical data from pre-and post-cardiac surgery.
Front Cell Infect Microbiol. 2023 Jan 19;12:1043971. doi:
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33 Liu K, Zhang Y, Martin C, Ma X, Shen B.
Translational Bioinformatics for Human Reproductive Biology Research:
Examples, Opportunities and Challenges for a Future Reproductive
Medicine. Int J Mol Sci. 2022 Dec 20;24(1):4. doi: 10.3390/ijms24010004.
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32 Sohrab SS, Kamal MA. Screening, Docking, and
Molecular Dynamics Study of Natural Compounds as an Anti-HER2 for the
Management of Breast Cancer. Life (Basel). 2022 Oct 28;12(11):1729. doi:
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31 Singla RK, De R, Efferth T, Mezzetti B, Sahab
Uddin M, Sanusi, Ntie-Kang F, Wang D, Schultz F, Kharat KR, Devkota HP,
Battino M, Sur D, Lordan R, Patnaik SS, Tsagkaris C, Sai CS, Tripathi
SK, Găman MA, Ahmed MEO, González-Burgos E, Babiaka SB, Paswan SK,
Odimegwu JI, Akram F, Simal-Gandara J, Urquiza MS, Tikhonov A, Mondal H,
Singla S, Lonardo SD, Mulholland EJ, Cenanovic M, Maigoro AY, Giampieri
F, Lee S, Tzvetkov NT, Louka AM, Verma P, Chopra H, Olea SP, Khan J,
Alvarez Suarez JM, Zheng X, Tomczyk M, Sabnani MK, Medina CDV, Khalid
GM, Boyina HK, Georgiev MI, Supuran CT, Sobarzo-Sánchez E, Fan TP,
Pittala V, Sureda A, Braidy N, Russo GL, Vacca RA, Banach M, Lizard G,
Zarrouk A, Hammami S, Orhan IE, Aggarwal BB, Perry G, Miller MJ,
Heinrich M, Bishayee A, Kijjoa A, Arkells N, Bredt D, Wink M, Fiebich
BL, Kiran G, Yeung AWK, Gupta GK, Santini A, Lucarini M, Durazzo A,
El-Demerdash A, Dinkova-Kostova AT, Cifuentes A, Souto EB, Zubair MAM,
Badhe P, Echeverría J, Horbańczuk JO, Horbanczuk OK, Sheridan H, Sheshe
SM, Witkowska AM, Abu-Reidah IM, Riaz M, Ullah H, Oladipupo AR, Lopez V,
Sethiya NK, Shrestha BG, Ravanan P, Gupta SC, Alzahrani QE, Dama
Sreedhar P, Xiao J, Moosavi MA, Subramani PA, Singh AK, Chettupalli AK,
Patra JK, Singh G, Karpiński TM, Al-Rimawi F, Abiri R, Ahmed AF, Barreca
D, Vats S, Amrani S, Fimognari C, Mocan A, Hritcu L, Semwal P, Shiblur
Rahaman M, Emerald M, Akinrinde AS, Singh A, Joshi A, Joshi T, Khan SY,
Balla GOA, Lu A, Pai SR, Ghzaiel I, Acar N, Es-Safi NE, Zengin G,
Kureshi AA, Sharma AK, Baral B, Rani N, Jeandet P, Gulati M, Kapoor B,
Mohanta YK, Emam-Djomeh Z, Onuku R, Depew JR, Atrooz OM, Goh BH, Andrade
JC, Konwar B, Shine VJ, Ferreira JMLD, Ahmad J, Chaturvedi VK,
Skalicka-Woźniak K, Sharma R, Gautam RK, Granica S, Parisi S, Kumar R,
Atanasov AG, Shen B. The International Natural Product Sciences
Taskforce (INPST) and the power of Twitter networking exemplified
through #INPST hashtag analysis. Phytomedicine. 2022 Oct 22;108:154520.
doi: 10.1016/j.phymed.2022.154520. Epub ahead of print. PMID: 36334386.
30 Tang T, Liu X, Wu R, Shen L, Ren S, Shen B.
CTRR-ncRNA: A Knowledgebase for Cancer Therapy Resistance and Recurrence
Associated Non-coding RNAs. Genomics Proteomics Bioinformatics. 2022
Oct 17:S1672-0229(22)00131-0. doi: 10.1016/j.gpb.2022.10.003. Epub ahead
of print. PMID: 36265769.
29 Bi C, Zhou S, Liu X, Zhu Y, Yu J, Zhang X, Shi
M, Wu R, He H, Zhan C, Lin Y, Shen B. NDDRF: A risk factor knowledgebase
for personalized prevention of neurodegenerative diseases. J Adv Res.
2022 Sep;40:223-231. doi: 10.1016/j.jare.2021.06.015. Epub 2021 Jun 20.
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28 Singla RK, Joon S, Shen L, Shen B. Translational
Informatics for Natural Products as Antidepressant Agents. Front Cell
Dev Biol. 2022 Jan 20;9:738838. doi: 10.3389/fcell.2021.738838. PMID:
35127696; PMCID: PMC8811306.
27 Ren S, Jin Y, Chen Y, Shen B. CRPMKB: a
knowledge base of cancer risk prediction models for systematic
comparison and personalized applications. Bioinformatics. 2021 Dec
20:btab850. doi: 10.1093/bioinformatics/btab850. Epub ahead of print.
PMID: 34927675.
26 Okoh MP, Singla RK, Madu C, Soremekun O, Adejoh
J, Alli LA, Shen B. Phytomedicine in Disease Management: In-Silico
Analysis of the Binding Affinity of Artesunate and Azadirachtin for
Malaria Treatment. Front Pharmacol. 2021 Nov 30;12:751032. doi:
10.3389/fphar.2021.751032. PMID: 34916935; PMCID: PMC8669099.
25 Zhan C, Zhang Y, Liu X, Wu R, Zhang K, Shi W,
Shen L, Shen K, Fan X, Ye F, Shen B. MIKB: A manually curated and
comprehensive knowledge base for myocardial infarction. Comput Struct
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24 Yang L, Liu X, Chen Y, Shen B. An update on the
CHDGKB for the systematic understanding of risk factors associated with
non-syndromic congenital heart disease. Comput Struct Biotechnol J. 2021
Oct 13;19:5741-5751. doi: 10.1016/j.csbj.2021.10.017. PMID: 34765091;
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23 Singla RK, Sharma P, Dubey AK, Gundamaraju R,
Kumar D, Kumar S, Madaan R, Shri R, Tsagkaris C, Parisi S, Joon S,
Singla S, Kamal MA, Shen B. Natural Product-Based Studies for the
Management of Castration-Resistant Prostate Cancer: Computational to
Clinical Studies. Front Pharmacol. 2021 Oct 19;12:732266. doi:
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22 Singla RK, Gupta R, Joon S, Gupta AK, Shen B.
Isolation, Docking and In silico ADME-T Studies of Acacianol: Novel
Antibacterial Isoflavone Analogue Isolated from Acacia leucophloea Bark.
Curr Drug Metab. 2021 Oct 4. doi: 10.2174/1389200222666211005091417.
Epub ahead of print. PMID: 34636294.
21 Miao Z, Bai J, Shen L, Singla RK. The
Combination of Tradition and Future: Data-Driven Natural-Product-Based
Treatments for Parkinson's Disease. Evid Based Complement Alternat Med.
2021 Jul 14;2021:9990020. doi: 10.1155/2021/9990020. PMID: 34335855;
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20 Wang S, Zhong Y, Cheng J, Yang H. EnrichVisBox: A
Versatile and Powerful Web Toolbox for Visualizing Complex Functional
Enrichment Results of Omics Data. J Comput Biol. 2021 Jul 16. doi:
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19 He H, Shi M, Lin Y, Zhan C, Wu R, Bi C, Liu X,
Ren S, Shen B. HFBD: a biomarker knowledge database for heart failure
heterogeneity and personalized applications. Bioinformatics. 2021 Jun
23:btab470. doi: 10.1093/bioinformatics/btab470. Epub ahead of print.
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18 Ismail F, Farag A, Haq S, Kamal MA. Clinical
Characteristics of the First 100 Patients of COVID-19 in Tobruk, Libya: A
Brief Report from Low-Resource Settings. Disaster Med Public Health
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17 de Araújo GF, Moioli RC, de Souza SJ. The Shared
Use of Extended Phenotypes Increases the Fitness of Simulated
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16 Anwar F, Altayb HN, Al-Abbasi FA, Kumar V, Kamal
MA. The computational intervention of macrolide antibiotics in the
treatment of COVID-19. Curr Pharm Des. 2021 Jan 25. doi:
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15 Yan W, Yu C, Chen J, Zhou J, Shen B. ANCA: A Web
Server for Amino Acid Networks Construction and Analysis. Front Mol
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14 Chen Y, Yu C, Liu X, Xi T, Xu G, Sun Y, Zhu F,
Shen B. PCLiON: An Ontology for Data Standardization and Sharing of
Prostate Cancer Associated Lifestyles. Int J Med Inform. 2020 Nov
7;145:104332. doi: 10.1016/j.ijmedinf.2020.104332. Epub ahead of print.
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13 Liu X, Zhang X, Chen J, Ye B, Ren S, Lin Y, Sun
XF, Zhang H, Shen B. CRC-EBD: Epigenetic Biomarker Database for
Colorectal Cancer. Front Genet. 2020 Oct 6;11:907. doi:
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12 Yang L, Yang Y, Liu X, Chen Y, Chen Y, Lin Y,
Sun Y, Shen B. CHDGKB: a knowledgebase for systematic understanding of
genetic variations associated with non-syndromic congenital heart
disease. Database (Oxford). 2020 Jan 1;2020:baaa048. doi:
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11 Pei Z, Shi M, Guo J, Shen B. Heart Rate
Variability Based Prediction of Personalized Drug Therapeutic Response:
The Present Status and the Perspectives. Curr Top Med Chem.
2020;20(18):1640-1650. doi: 10.2174/1568026620666200603105002. PMID:
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10 Shi M, He H, Geng W, Wu R, Zhan C, Jin Y, Zhu F,
Ren S, Shen B. Early Detection of Sudden Cardiac Death by Using
Ensemble Empirical Mode Decomposition-Based Entropy and Classical Linear
Features From Heart Rate Variability Signals. Front Physiol. 2020 Feb
25;11:118. doi: 10.3389/fphys.2020.00118. PMID: 32158399; PMCID:
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9 Lin Y, Zhao X, Miao Z, Ling Z, Wei X, Pu J, Hou
J, Shen B. Data-driven translational prostate cancer research: from
biomarker discovery to clinical decision. J Transl Med. 2020 Mar
7;18(1):119. doi: 10.1186/s12967-020-02281-4. PMID: 32143723; PMCID:
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8 Coelho ACMF, Fonseca AL, Martins DL, Lins PBR,
da Cunha LM, de Souza SJ. neoANT-HILL: an integrated tool for
identification of potential neoantigens. BMC Med Genomics. 2020 Feb
22;13(1):30. doi: 10.1186/s12920-020-0694-1. PMID: 32087727; PMCID:
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7 Chen Y, Liu X, Yu Y, Yu C, Yang L, Lin Y, Xi T,
Ye Z, Feng Z, Shen B. PCaLiStDB: a lifestyle database for precision
prevention of prostate cancer. Database (Oxford). 2020 Jan
1;2020:baz154. doi: 10.1093/database/baz154. PMID: 31950190; PMCID:
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6 Shen B, Lin Y, Bi C, Zhou S, Bai Z, Zheng G,
Zhou J. Translational Informatics for Parkinson's Disease: from Big
Biomedical Data to Small Actionable Alterations. Genomics
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5 Zhan C, Shi M, Wu R, He H, Liu X, Shen B. MIRKB:
a myocardial infarction risk knowledge base. Database
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4 Shi M, Zhan C, He H, Jin Y, Wu R, Sun Y, Shen B.
Renyi Distribution Entropy Analysis of Short-Term Heart Rate
Variability Signals and Its Application in Coronary Artery Disease
Detection. Front Physiol. 2019 Jun 26;10:809. doi:
10.3389/fphys.2019.00809. PMID: 31293457; PMCID: PMC6606792.
3 Zhu F, Ye F, Fu Y, Liu Q, Shen B.
Electrocardiogram generation with a bidirectional LSTM-CNN generative
adversarial network. Sci Rep. 2019 May 1;9(1):6734.
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2 Lin Y, Wu W, Sun Z, Shen L, Shen B. MiRNA-BD: an
evidence-based bioinformatics model and software tool for microRNA
biomarker discovery. RNA Biol. 2018;15(8):1093-1105.
doi: 10.1080/15476286.2018.1502590. Epub 2018 Sep 17. PMID: 30081733;
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1 Qian F, Guo J, Jiang Z, Shen B. Translational
Bioinformatics for Cholangiocarcinoma: Opportunities and Challenges.
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