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Qian-Jin Zhang

TitleAssistant Professor
InstitutionXavier University of Louisiana
Address1 Drexel Drive
Biology Department
New Orleans LA 70125
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    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Faculty can login to make corrections and additions.
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    PMC Citations indicate the number of times the publication was cited by articles in PubMed Central, and the Altmetric score represents citations in news articles and social media. (Note that publications are often cited in additional ways that are not shown here.) Fields are based on how the National Library of Medicine (NLM) classifies the publication's journal and might not represent the specific topic of the publication. Translation tags are based on the publication type and the MeSH terms NLM assigns to the publication. Some publications (especially newer ones and publications not in PubMed) might not yet be assigned Field or Translation tags.) Click a Field or Translation tag to filter the publications.
    1. Xu K, Liu N, Xu J, Guo C, Zhao L, Wang HW, Zhang QC. VRmol: an Integrative Web-Based Virtual Reality System to Explore Macromolecular Structure. Bioinformatics. 2020 Aug 03. PMID: 32745209.
    2. Ju X, Xiang G, Gong M, Yang R, Qin J, Li Y, Nan Y, Yang Y, Zhang QC, Ding Q. Identification of functional cis-acting RNA elements in the hepatitis E virus genome required for viral replication. PLoS Pathog. 2020 05; 16(5):e1008488. PMID: 32433693.
      Citations:    Fields:    Translation:HumansAnimalsCells
    3. Shi B, Zhang J, Heng J, Gong J, Zhang T, Li P, Sun BF, Yang Y, Zhang N, Zhao YL, Wang HL, Liu F, Zhang QC, Yang YG. RNA structural dynamics regulate early embryogenesis through controlling transcriptome fate and function. Genome Biol. 2020 May 18; 21(1):120. PMID: 32423473.
      Citations:    Fields:    
    4. Li X, Liang QX, Lin JR, Peng J, Yang JH, Yi C, Yu Y, Zhang QC, Zhou KR. Epitranscriptomic technologies and analyses. Sci China Life Sci. 2020 Apr; 63(4):501-515. PMID: 32170629.
      Citations:    Fields:    Translation:Cells
    5. Yin Y, Lu JY, Zhang X, Shao W, Xu Y, Li P, Hong Y, Cui L, Shan G, Tian B, Zhang QC, Shen X. U1 snRNP regulates chromatin retention of noncoding RNAs. Nature. 2020 04; 580(7801):147-150. PMID: 32238924.
      Citations: 4     Fields:    Translation:HumansAnimalsCells
    6. Weng X, Gong J, Chen Y, Wu T, Wang F, Yang S, Yuan Y, Luo G, Chen K, Hu L, Ma H, Wang P, Zhang QC, Zhou X, He C. Keth-seq for transcriptome-wide RNA structure mapping. Nat Chem Biol. 2020 05; 16(5):489-492. PMID: 32015521.
      Citations: 3     Fields:    Translation:HumansAnimalsCells
    7. Liu X, Wang X, Li J, Hu S, Deng Y, Yin H, Bao X, Zhang QC, Wang G, Wang B, Shi Q, Shan G. Identification of mecciRNAs and their roles in the mitochondrial entry of proteins. Sci China Life Sci. 2020 Jan 21. PMID: 32048164.
      Citations:    Fields:    
    8. Kim HK, Xu J, Chu K, Park H, Jang H, Li P, Valdmanis PN, Zhang QC, Kay MA. A tRNA-Derived Small RNA Regulates Ribosomal Protein S28 Protein Levels after Translation Initiation in Humans and Mice. Cell Rep. 2019 12 17; 29(12):3816-3824.e4. PMID: 31851915.
      Citations:    Fields:    
    9. Li P, Shi R, Zhang QC. icSHAPE-pipe: A comprehensive toolkit for icSHAPE data analysis and evaluation. Methods. 2020 Jun 01; 178:96-103. PMID: 31606387.
      Citations:    Fields:    
    10. Xiong L, Xu K, Tian K, Shao Y, Tang L, Gao G, Zhang M, Jiang T, Zhang QC. SCALE method for single-cell ATAC-seq analysis via latent feature extraction. Nat Commun. 2019 10 08; 10(1):4576. PMID: 31594952.
      Citations: 1     Fields:    Translation:HumansAnimalsCells
    11. Gao Y, Pei G, Li D, Li R, Shao Y, Zhang QC, Li P. Multivalent m6A motifs promote phase separation of YTHDF proteins. Cell Res. 2019 09; 29(9):767-769. PMID: 31388144.
      Citations: 4     Fields:    Translation:Cells
    12. Sun L, Fazal FM, Li P, Broughton JP, Lee B, Tang L, Huang W, Kool ET, Chang HY, Zhang QC. RNA structure maps across mammalian cellular compartments. Nat Struct Mol Biol. 2019 04; 26(4):322-330. PMID: 30886404.
      Citations: 6     Fields:    Translation:HumansAnimalsCells
    13. Zhao J, Qian X, Yeung PY, Zhang QC, Kwok CK. Mapping In Vivo RNA Structures and Interactions. Trends Biochem Sci. 2019 06; 44(6):555-556. PMID: 30853244.
      Citations:    Fields:    Translation:Cells
    14. Li P, Wei Y, Mei M, Tang L, Sun L, Huang W, Zhou J, Zou C, Zhang S, Qin CF, Jiang T, Dai J, Tan X, Zhang QC. Integrative Analysis of Zika Virus Genome RNA Structure Reveals Critical Determinants of Viral Infectivity. Cell Host Microbe. 2018 12 12; 24(6):875-886.e5. PMID: 30472207.
      Citations: 2     Fields:    Translation:HumansAnimalsCells
    15. Qian X, Zhao J, Yeung PY, Zhang QC, Kwok CK. Revealing lncRNA Structures and Interactions by Sequencing-Based Approaches. Trends Biochem Sci. 2019 01; 44(1):33-52. PMID: 30459069.
      Citations: 6     Fields:    Translation:HumansCells
    16. Ju Y, Gong J, Yang YT, Zhang QC. Investigation of RNA-RNA Interactions Using the RISE Database. Curr Protoc Bioinformatics. 2018 12; 64(1):e58. PMID: 30408350.
      Citations:    Fields:    
    17. Liu Z, Wang J, Cheng H, Ke X, Sun L, Zhang QC, Wang HW. Cryo-EM Structure of Human Dicer and Its Complexes with a Pre-miRNA Substrate. Cell. 2018 05 31; 173(6):1549-1550. PMID: 29856959.
      Citations: 2     Fields:    
    18. Liu Z, Wang J, Cheng H, Ke X, Sun L, Zhang QC, Wang HW. Cryo-EM Structure of Human Dicer and Its Complexes with a Pre-miRNA Substrate. Cell. 2018 05 17; 173(5):1191-1203.e12. PMID: 29706542.
      Citations: 5     Fields:    Translation:HumansCells
    19. Gong J, Shao D, Xu K, Lu Z, Lu ZJ, Yang YT, Zhang QC. RISE: a database of RNA interactome from sequencing experiments. Nucleic Acids Res. 2018 01 04; 46(D1):D194-D201. PMID: 29040625.
      Citations: 7     Fields:    Translation:HumansAnimalsCells
    20. Lu Z, Gong J, Zhang QC. PARIS: Psoralen Analysis of RNA Interactions and Structures with High Throughput and Resolution. Methods Mol Biol. 2018; 1649:59-84. PMID: 29130190.
      Citations: 5     Fields:    Translation:Cells
    21. Kim HK, Fuchs G, Wang S, Wei W, Zhang Y, Park H, Roy-Chaudhuri B, Li P, Xu J, Chu K, Zhang F, Chua MS, So S, Zhang QC, Sarnow P, Kay MA. A transfer-RNA-derived small RNA regulates ribosome biogenesis. Nature. 2017 12 07; 552(7683):57-62. PMID: 29186115.
      Citations: 26     Fields:    Translation:HumansAnimalsCells
    22. Piao M, Sun L, Zhang QC. RNA Regulations and Functions Decoded by Transcriptome-wide RNA Structure Probing. Genomics Proteomics Bioinformatics. 2017 10; 15(5):267-278. PMID: 29031843.
      Citations: 1     Fields:    Translation:HumansAnimalsCells
    23. Yu KH, Hart SN, Goldfeder R, Zhang QC, Parker SCJ, Snyder M. HARNESSING BIG DATA FOR PRECISION MEDICINE: INFRASTRUCTURES AND APPLICATIONS. Pac Symp Biocomput. 2017; 22:635-639. PMID: 27897013.
      Citations:    Fields:    Translation:Humans
    24. Lu Z, Zhang QC, Lee B, Flynn RA, Smith MA, Robinson JT, Davidovich C, Gooding AR, Goodrich KJ, Mattick JS, Mesirov JP, Cech TR, Chang HY. RNA Duplex Map in Living Cells Reveals Higher-Order Transcriptome Structure. Cell. 2016 May 19; 165(5):1267-1279. PMID: 27180905.
      Citations: 89     Fields:    Translation:HumansAnimalsCells
    25. Du F, Li Y, Zhang W, Kale SP, McFerrin H, Davenport I, Wang G, Skripnikova E, Li XL, Bowen NJ, McDaniels LB, Meng YX, Polk P, Liu YY, Zhang QJ. Highly and moderately aggressive mouse ovarian cancer cell lines exhibit differential gene expression. Tumour Biol. 2016 Aug; 37(8):11147-11162. PMID: 26935058.
      Citations: 1     Fields:    Translation:AnimalsCells
    26. Quinn JJ, Zhang QC, Georgiev P, Ilik IA, Akhtar A, Chang HY. Rapid evolutionary turnover underlies conserved lncRNA-genome interactions. Genes Dev. 2016 Jan 15; 30(2):191-207. PMID: 26773003.
      Citations: 36     Fields:    Translation:AnimalsCells
    27. Flynn RA, Zhang QC, Spitale RC, Lee B, Mumbach MR, Chang HY. Transcriptome-wide interrogation of RNA secondary structure in living cells with icSHAPE. Nat Protoc. 2016 Feb; 11(2):273-90. PMID: 26766114.
      Citations: 23     Fields:    Translation:Cells
    28. Spitale RC, Flynn RA, Zhang QC, Crisalli P, Lee B, Jung JW, Kuchelmeister HY, Batista PJ, Torre EA, Kool ET, Chang HY. Erratum: Structural imprints in vivo decode RNA regulatory mechanisms. Nature. 2015 Nov 12; 527(7577):264. PMID: 26416736.
      Citations: 1     Fields:    
    29. Chu C, Zhang QC, da Rocha ST, Flynn RA, Bharadwaj M, Calabrese JM, Magnuson T, Heard E, Chang HY. Systematic discovery of Xist RNA binding proteins. Cell. 2015 Apr 09; 161(2):404-16. PMID: 25843628.
      Citations: 195     Fields:    Translation:HumansAnimalsCells
    30. Spitale RC, Flynn RA, Zhang QC, Crisalli P, Lee B, Jung JW, Kuchelmeister HY, Batista PJ, Torre EA, Kool ET, Chang HY. Structural imprints in vivo decode RNA regulatory mechanisms. Nature. 2015 Mar 26; 519(7544):486-90. PMID: 25799993.
      Citations: 159     Fields:    Translation:AnimalsCells
    31. Li XL, Sluijter M, Doorduijn EM, Kale SP, McFerrin H, Liu YY, Li Y, Mottamal M, Yao X, Du F, Gu B, Hoang K, Nguyen YH, Taylor N, Stephens CR, van Hall T, Zhang QJ. Limited density of an antigen presented by RMA-S cells requires B7-1/CD28 signaling to enhance T-cell immunity at the effector phase. PLoS One. 2014; 9(11):e108192. PMID: 25383875.
      Citations: 1     Fields:    Translation:AnimalsCells
    32. Deng L, Zhang QC, Chen Z, Meng Y, Guan J, Zhou S. PredHS: a web server for predicting protein-protein interaction hot spots by using structural neighborhood properties. Nucleic Acids Res. 2014 Jul; 42(Web Server issue):W290-5. PMID: 24852252.
      Citations: 11     Fields:    Translation:Cells
    33. Wan Y, Qu K, Zhang QC, Flynn RA, Manor O, Ouyang Z, Zhang J, Spitale RC, Snyder MP, Segal E, Chang HY. Landscape and variation of RNA secondary structure across the human transcriptome. Nature. 2014 Jan 30; 505(7485):706-9. PMID: 24476892.
      Citations: 164     Fields:    Translation:HumansCells
    34. Deng L, Guan J, Wei X, Yi Y, Zhang QC, Zhou S. Boosting prediction performance of protein-protein interaction hot spots by using structural neighborhood properties. J Comput Biol. 2013 Nov; 20(11):878-91. PMID: 24134392.
      Citations: 7     Fields:    Translation:Cells
    35. Kasowski M, Kyriazopoulou-Panagiotopoulou S, Grubert F, Zaugg JB, Kundaje A, Liu Y, Boyle AP, Zhang QC, Zakharia F, Spacek DV, Li J, Xie D, Olarerin-George A, Steinmetz LM, Hogenesch JB, Kellis M, Batzoglou S, Snyder M. Extensive variation in chromatin states across humans. Science. 2013 Nov 08; 342(6159):750-2. PMID: 24136358.
      Citations: 133     Fields:    Translation:HumansCells
    36. Zhang QC, Petrey D, Garzón JI, Deng L, Honig B. PrePPI: a structure-informed database of protein-protein interactions. Nucleic Acids Res. 2013 Jan; 41(Database issue):D828-33. PMID: 23193263.
      Citations: 55     Fields:    Translation:HumansCells
    37. Zhang QC, Petrey D, Deng L, Qiang L, Shi Y, Thu CA, Bisikirska B, Lefebvre C, Accili D, Hunter T, Maniatis T, Califano A, Honig B. Structure-based prediction of protein-protein interactions on a genome-wide scale. Nature. 2012 Oct 25; 490(7421):556-60. PMID: 23023127.
      Citations: 168     Fields:    Translation:HumansAnimalsCells
    38. Eletsky A, Petrey D, Zhang QC, Lee HW, Acton TB, Xiao R, Everett JK, Prestegard JH, Honig B, Montelione GT, Szyperski T. Solution NMR structures reveal unique homodimer formation by a winged helix-turn-helix motif and provide first structures for protein domain family PF10771. J Struct Funct Genomics. 2012 Mar; 13(1):1-7. PMID: 22223187.
      Citations: 1     Fields:    Translation:Cells
    39. Fischer M, Zhang QC, Dey F, Chen BY, Honig B, Petrey D. MarkUs: a server to navigate sequence-structure-function space. Nucleic Acids Res. 2011 Jul; 39(Web Server issue):W357-61. PMID: 21672961.
      Citations: 9     Fields:    Translation:Cells
    40. Zhang QC, Deng L, Fisher M, Guan J, Honig B, Petrey D. PredUs: a web server for predicting protein interfaces using structural neighbors. Nucleic Acids Res. 2011 Jul; 39(Web Server issue):W283-7. PMID: 21609948.
      Citations: 34     Fields:    Translation:Cells
    41. Zhang QC, Petrey D, Norel R, Honig BH. Protein interface conservation across structure space. Proc Natl Acad Sci U S A. 2010 Jun 15; 107(24):10896-901. PMID: 20534496.
      Citations: 60     Fields:    Translation:Cells
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