截至 2021-03-01

63 Li Y, Shen L, Huang C, Li X, Chen J, Li SC, Shen B. Altered nitric oxide induced by gut microbiota reveals the connection between central precocious puberty and obesity. Clin Transl Med. 2021 Feb;11(2):e299. doi: 10.1002/ctm2.299. PMID: 33634977; PMCID: PMC7842634.

62 Qian F, Wang J, Wang Y, Gao Q, Yan W, Lin Y, Shen L, Xie Y, Jiang X, Shen B. MiR-378a-3p as a putative biomarker for hepatocellular carcinoma diagnosis and prognosis: Computational screening with experimental validation. Clin Transl Med. 2021 Feb;11(2):e307. doi: 10.1002/ctm2.307. PMID: 33634974; PMCID: PMC7882078.

61 Moehario LH, Tjoa E, Putranata H, Joon S, Edbert D, Robertus T. Performance of TDR-300B and VITEK®2 for the identification of Pseudomonas aeruginosa in comparison with VITEK®-MS. J Int Med Res. 2021 Feb;49(2):300060521989893. doi: 10.1177/0300060521989893. PMID: 33626939.

60 de Araújo GF, Moioli RC, de Souza SJ. The Shared Use of Extended Phenotypes Increases the Fitness of Simulated Populations. Front Genet. 2021 Feb 3;12:617915. doi: 10.3389/fgene.2021.617915. PMID: 33613639; PMCID: PMC7886806.

59 Zhang Y, Zhao W, Mao Y, Chen Y, Wang S, Zhong Y, Su T, Gong M, Du D, Lu X, Cheng J, Yang H. Site-specific N-glycosylation Characterization of Recombinant SARS-CoV-2 Spike Proteins. Mol Cell Proteomics. 2021 Feb 10:100058. doi: 10.1074/mcp.RA120.002295. Epub ahead of print. PMID: 33581318.

58 Liu F, Yang W, Hu M, Zhang Y, Sun B, Yang H, Brosius J, Deng C. Constitutive activity of GPR26 regulated by ubiquitin-dependent degradation and its anti-tumor role. FEBS J. 2021 Feb 12. doi: 10.1111/febs.15763. Epub ahead of print. PMID: 33577134.

57 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: 10.2174/1381612827666210125121954. Epub ahead of print. PMID: 33550966.

56 Lin Y, Miao Z, Zhang X, Wei X, Hou J, Huang Y, Shen B. Identification of Key MicroRNAs and Mechanisms in Prostate Cancer Evolution Based on Biomarker Prioritization Model and Carcinogenic Survey. Front Genet. 2021 Jan 15;11:596826. doi: 10.3389/fgene.2020.596826. PMID: 33519899; PMCID: PMC7844321.

55 Singla RK, Guimarães AG, Zengin G. Editorial: Application of Plant Secondary Metabolites to Pain Neuromodulation. Front Pharmacol. 2021 Jan 14;11:623399. doi: 10.3389/fphar.2020.623399. PMID: 33519489; PMCID: PMC7841409.

54 Wu CJ, Fu FD, Qin F, Ma M, Li T, Wei SZ, Yu BT, Yang XZ, Yuan JH. Vacuum therapy ameliorates erectile dysfunction in bilateral cavernous nerve crush rats by inhibiting apoptosis and activating autophagy. Asian J Androl. 2021 Jan 15. doi: 10.4103/aja.aja_79_20. Epub ahead of print. PMID: 33473012.

53 Shen B, Singla RK. Secondary Metabolites as Treatment of Choice for Metabolic Disorders and Infectious Diseases & their Metabolic Profiling-Part 2. Curr Drug Metab. 2020;21(14):1070-1071. doi: 10.2174/138920022114201230142204. PMID: 33413055.

52 Yan W, Yu C, Chen J, Zhou J, Shen B. ANCA: A Web Server for Amino Acid Networks Construction and Analysis. Front Mol Biosci. 2020 Nov 19;7:582702. doi: 10.3389/fmolb.2020.582702. PMID: 33330622; PMCID: PMC7711068.

51 Islam MA, Alam SS, Kundu S, Hossan T, Kamal MA, Cavestro C. Prevalence of Headache in Patients With Coronavirus Disease 2019 (COVID-19): A Systematic Review and Meta-Analysis of 14,275 Patients. Front Neurol. 2020 Nov 27;11:562634. doi: 10.3389/fneur.2020.562634. PMID: 33329305; PMCID: PMC7728918.

50 Kamal MA, Khan MA. Viral Diseases and Natural Products: Prospects in COVID-19 Treatment (Part-I). Curr Pharm Des. 2020;26(41):5221-5223. doi: 10.2174/138161282641201126124050. PMID: 33327907.

49 Mao Y, Zhao Y, Zhang Y, Yang H. In-depth characterization and comparison of the N-glycosylated proteome of two-dimensional- and three-dimensional-cultured breast cancer cells and xenografted tumors. PLoS One. 2020 Dec 10;15(12):e0243789. doi: 10.1371/journal.pone.0243789. PMID: 33301522.

48 Abu-Izneid T, AlHajri N, Mohammed Ibrahim A, Noushad Javed M, Mustafa Salem K, Hyder Pottoo F, Amjad Kamal M. Micro-RNAs in the regulation of immune response against SARS COV-2 and other viral infections. J Adv Res. 2020 Dec 2. doi: 10.1016/j.jare.2020.11.013. Epub ahead of print. PMID: 33282419; PMCID: PMC7708232.

47 Sultana A, Singla RK, He X, Sun Y, Alam MS, Shen B. Topical Capsaicin for the Treatment of Neuropathic Pain. Curr Drug Metab. 2020 Nov 16. doi: 10.2174/1389200221999201116143701. Epub ahead of print. PMID: 33198614.

46 Qi X, Lin Y, Liu X, Chen J, Shen B. Biomarker Discovery for the Carcinogenic Heterogeneity Between Colon and Rectal Cancers Based on lncRNA-Associated ceRNA Network Analysis. Front Oncol. 2020 Oct 30;10:535985. doi: 10.3389/fonc.2020.535985. PMID: 33194594; PMCID: PMC7662689.

45 Singla RK, Sultana A, Alam MS, Shen B. Regulation of Pain Genes-Capsaicin vs Resiniferatoxin: Reassessment of Transcriptomic Data. Front Pharmacol. 2020 Oct 29;11:551786. doi: 10.3389/fphar.2020.551786. PMID: 33192502; PMCID: PMC7658921.

44 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. PMID: 33186790.

43 Singla RK. Secondary Metabolites as Treatment of Choice for Metabolic Disorders and Infectious Diseases and their Metabolic Profiling: Part 1. Curr Drug Metab. 2020;21(7):480-481. doi: 10.2174/138920022107200925101631. PMID: 33172364.

42 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: 10.3389/fgene.2020.00907. PMID: 33133126; PMCID: PMC7573234.

41 Wang Y, Zhao M, Liu S, Guo J, Lu Y, Cheng J, Liu J. Macrophage-derived extracellular vesicles: diverse mediators of pathology and therapeutics in multiple diseases. Cell Death Dis. 2020 Oct 28;11(10):924. doi: 10.1038/s41419-020-03127-z. PMID: 33116121; PMCID: PMC7595091.

40 Yu C, Qi X, Lin Y, Li Y, Shen B. iODA: An Integrated Tool for Analysis of Cancer Pathway Consistency from Heterogeneous Multi-omics Data. J Biomed Inform. 2020 Oct 20:103605. doi: 10.1016/j.jbi.2020.103605. Epub ahead of print. PMID: 33096244.

39 Shen B, Singla RK, Agarwal T, Xuefei H. Herbal Resources to Combat a Progressive & Degenerative Nervous System Disorder - Parkinson's Disease. Curr Drug Targets. 2020 Oct 13. doi: 10.2174/1389450121999201013155202. Epub ahead of print. PMID: 33050857.

38 Zhang D, Zhang L, Zheng W, Wu F, Cheng J, Yang H, Gong M. Investigating biological effects of multidimensional carboxylated carbon-based nanomaterials on human lung A549 cells revealed via non-targeted metabolomics approach. Nanotechnology. 2021 Jan 1;32(1):015704. doi: 10.1088/1361-6528/abb55b. PMID: 33043904.

37 Wen Y, Han C, Liu T, Wang R, Cai W, Yang J, Liang G, Yao L, Shi N, Fu X, Deng L, Sutton R, Windsor JA, Hong J, Phillips AR, Du D, Huang W, Xia Q. Chaiqin chengqi decoction alleviates severity of acute pancreatitis via inhibition of TLR4 and NLRP3 inflammasome: Identification of bioactive ingredients via pharmacological sub-network analysis and experimental validation. Phytomedicine. 2020 Dec;79:153328. doi: 10.1016/j.phymed.2020.153328. Epub 2020 Sep 1. PMID: 33007730.

36 Shen L, Shen K, Bai J, Wang J, Singla RK, Shen B. Data-driven microbiota biomarker discovery for personalized drug therapy of cardiovascular disease. Pharmacol Res. 2020 Sep 29;161:105225. doi: 10.1016/j.phrs.2020.105225. Epub ahead of print. PMID: 33007417.

35 Mo D, Li X, Raabe CA, Rozhdestvensky TS, Skryabin BV, Brosius J. Circular RNA Encoded Amyloid Beta peptides-A Novel Putative Player in Alzheimer's Disease. Cells. 2020 Sep 29;9(10):E2196. doi: 10.3390/cells9102196. PMID: 33003364.

34 Qi X, Lin Y, Chen J, Shen B. The landscape of emerging ceRNA crosstalks in colorectal cancer: Systems biological perspectives and translational applications. Clin Transl Med. 2020 Aug;10(4):e153. doi: 10.1002/ctm2.153. PMID: 32898321; PMCID: PMC7426901.

33 Singla RK, Shen B. In Silico ADME-T Evaluation of Natural DPP-IV Inhibitors for Rational Drug Design against Diabetes. Curr Drug Metab. 2020 Sep 1. doi: 10.2174/1389200221999200901202945. Epub ahead of print. PMID: 32875983.

32 Zhou J, Oldfield CJ, Yan W, Shen B, Dunker AK. Identification of Intrinsic Disorder in Complexes from the Protein Data Bank. ACS Omega. 2020 Jul 14;5(29):17883-17891. doi: 10.1021/acsomega.9b03927. PMID: 32743159; PMCID: PMC7391252.

31 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: 10.1093/database/baaa048. PMID: 32608479; PMCID: PMC7327432.

30 Yang N, Chen H, Hu M, Zhang G, Amanullah, Deng C. Evolution of a splice variant that acts as an endogenous antagonist of the original INSL3 in primates. Gene. 2020 Sep 5;754:144861. doi: 10.1016/j.gene.2020.144861. Epub 2020 Jun 9. PMID: 32531454.

29 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: 32493191.

28 Gong M, Liu L, Sun X, Yang Y, Wang S, Zhu H. Cloud-Based System for Effective Surveillance and Control of COVID-19: Useful Experiences From Hubei, China. J Med Internet Res. 2020 Apr 22;22(4):e18948. doi: 10.2196/18948. PMID: 32287040; PMCID: PMC7179239.

27 Hu H, He X, Zhang Y, Wu R, Chen J, Lin Y, Shen B. MicroRNA Alterations for Diagnosis, Prognosis, and Treatment of Osteoporosis: A Comprehensive Review and Computational Functional Survey. Front Genet. 2020 Mar 3;11:181. doi: 10.3389/fgene.2020.00181. PMID: 32194637; PMCID: PMC7063117.

26 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: PMC7052183.

25 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: PMC7060655.

24 Pande A, Makalowski W, Brosius J, Raabe CA. Enhancer occlusion transcripts regulate the activity of human enhancer domains via transcriptional interference: a computational perspective. Nucleic Acids Res. 2020 Apr 17;48(7):3435-3454. doi: 10.1093/nar/gkaa026. PMID: 32133533; PMCID: PMC7144904.

23 Skryabin BV, Kummerfeld DM, Gubar L, Seeger B, Kaiser H, Stegemann A, Roth J, Meuth SG, Pavenstädt H, Sherwood J, Pap T, Wedlich-Söldner R, Sunderkötter C, Schwartz YB, Brosius J, Rozhdestvensky TS. Pervasive head-to-tail insertions of DNA templates mask desired CRISPR-Cas9-mediated genome editing events. Sci Adv. 2020 Feb 12;6(7):eaax2941. doi: 10.1126/sciadv.aax2941. PMID: 32095517; PMCID: PMC7015686.

22 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: PMC7036241.

21 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: PMC6966110.

20 Wu R, Lin Y, Liu X, Zhan C, He H, Shi M, Jiang Z, Shen B. Phenotype-genotype network construction and characterization: a case study of cardiovascular diseases and associated non-coding RNAs. Database (Oxford). 2020 Jan 1;2020:baz147. doi: 10.1093/database/baz147. PMID: 31942979; PMCID: PMC6964217.

19 Zheng H, Wu X, Yin J, Wang S, Li Z, You C. Clinical applications of liquid biopsies for early lung cancer detection. Am J Cancer Res. 2019 Dec 1;9(12):2567-2579. PMID: 31911847; PMCID: PMC6943362.

18 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 Proteomics Bioinformatics. 2019 Aug;17(4):415-429. doi: 10.1016/j.gpb.2018.10.007. Epub 2019 Nov 28. PMID: 31786313; PMCID: PMC6943761.

17 Zhan C, Shi M, Wu R, He H, Liu X, Shen B. MIRKB: a myocardial infarction risk knowledge base. Database (Oxford). 2019 Jan 1;2019:baz125. doi: 10.1093/database/baz125. PMID: 31688939; PMCID: PMC6830040.

16 Qi X, Yu C, Wang Y, Lin Y, Shen B. Network vulnerability-based and knowledge-guided identification of microRNA biomarkers indicating platinum resistance in high-grade serous ovarian cancer. Clin Transl Med. 2019 Oct 29;8(1):28. doi: 10.1186/s40169-019-0245-6. PMID: 31664600.

15 Mo D, Li X, Raabe CA, Cui D, Vollmar JF, Rozhdestvensky TS, Skryabin BV, Brosius J. A universal approach to investigate circRNA protein coding function. Sci Rep. 2019 Aug 12;9(1):11684. doi: 10.1038/s41598-019-48224-y. PMID: 31406268; PMCID: PMC6690939.

14 Zhou J, Oldfield CJ, Yan W, Shen B, Dunker AK. Intrinsically disordered domains: Sequence ➔ disorder ➔ function relationships. Protein Sci. 2019 Sep;28(9):1652-1663. doi: 10.1002/pro.3680. Epub 2019 Aug 9. PMID: 31299122; PMCID: PMC6699093.

13 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.

12 Dong C, Zeng Z, Pu DK, Wen QF, Liu S, Du MZ, Sun Y, Gao YZ, Rao N, Huang J, Guo FB. CasLocusAnno: a web-based server for annotating cas loci and their corresponding (sub)types. FEBS Lett. 2019 Sep;593(18):2646-2654. doi: 10.1002/1873-3468.13519. Epub 2019 Jul 17. PMID: 31260103.

11 Hohoff C, Zhang M, Ambrée O, Kravchenko M, Buschert J, Kerkenberg N, Gorinski N, Abdel Galil D, Schettler C, Vom Werth KL, Wewer MF, Schneider I, Grotegerd D, Wachsmuth L, Faber C, Skryabin BV, Brosius J, Ponimaskin E, Zhang W. Deficiency of the palmitoyl acyltransferase ZDHHC7 impacts brain and behavior of mice in a sex-specific manner. Brain Struct Funct. 2019 Jul;224(6):2213-2230. doi: 10.1007/s00429-019-01898-6. Epub 2019 Jun 10. PMID: 31183559.

10 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. doi: 10.1038/s41598-019-42516-z. PMID: 31043666; PMCID: PMC6494992.

9 Yang Z, Li T, Cui Y, Li S, Cheng C, Shen B, Le W. Elevated Plasma microRNA-105-5p Level in Patients With Idiopathic Parkinson's Disease: A Potential Disease Biomarker. Front Neurosci. 2019 Mar 18;13:218. doi: 10.3389/fnins.2019.00218. PMID: 30936821; PMCID: PMC6431626.

8 Long M, Shen B. Evolution of genes and genomes: an emerging paradigm in life science. Sci China Life Sci. 2019 Apr;62(4):435-436. doi: 10.1007/s11427-018-9448-x. Epub 2019 Apr 16. PMID: 30929192.

7 Zhang W, Gao Y, Long M, Shen B. Origination and evolution of orphan genes and de novo genes in the genome of Caenorhabditis elegans. Sci China Life Sci. 2019 Apr;62(4):579-593. doi: 10.1007/s11427-019-9482-0. Epub 2019 Mar 21. PMID: 30919281.

6 Yang Z, Li T, Li S, Wei M, Qi H, Shen B, Chang RC, Le W, Piao F. Altered Expression Levels of MicroRNA-132 and Nurr1 in Peripheral Blood of Parkinson's Disease: Potential Disease Biomarkers. ACS Chem Neurosci. 2019 May 15;10(5):2243-2249. doi: 10.1021/acschemneuro.8b00460. Epub 2019 Apr 1. PMID: 30817108.

5 Qi X, Lin Y, Chen J, Shen B. Decoding competing endogenous RNA networks for cancer biomarker discovery. Brief Bioinform. 2019 Jan 30;10.1093/bib/bbz006. doi: 10.1093/bib/bbz006. [Epub ahead of print]. PMID: 30715152.

4 Li T, Yang Z, Li S, Cheng C, Shen B, Le W. Alterations of NURR1 and Cytokines in the Peripheral Blood Mononuclear Cells: Combined Biomarkers for Parkinson's Disease. Front Aging Neurosci. 2018 Nov 29;10:392. doi: 10.3389/fnagi.2018.00392. PMID: 30555319; PMCID: PMC6281882.

3 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; PMCID: PMC6161673.

2 Qian F, Guo J, Jiang Z, Shen B. Translational Bioinformatics for Cholangiocarcinoma: Opportunities and Challenges. Int J Biol Sci. 2018 May 22;14(8):920-929. doi: 10.7150/ijbs.24622. PMID: 29989102; PMCID: PMC6036745.

1 Lin Y, Chen F, Shen L, Tang X, Du C, Sun Z, Ding H, Chen J, Shen B. Biomarker microRNAs for prostate cancer metastasis: screened with a network vulnerability analysis model. J Transl Med. 2018 May 21;16(1):134. doi: 10.1186/s12967-018-1506-7. PMID: 29784056; PMCID: PMC5963164.

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