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Alexander Rose

SchoolVc-academic Affairs
Address9500 Gilman Drive #
La Jolla CA 92093
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    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help. to make corrections and additions.
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    Altmetrics Details 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. High-performance macromolecular data delivery and visualization for the web. Corrigendum. Acta Crystallogr D Struct Biol. 2021 Jan 01; 77(Pt 1):126. Sehnal D, Svobodová R, Berka K, Rose AS, Burley SK, Velankar S, Koca J. PMID: 33404533.
      View in: PubMed   Mentions:
    2. Real-time structural motif searching in proteins using an inverted index strategy. PLoS Comput Biol. 2020 Dec; 16(12):e1008502. Bittrich S, Burley SK, Rose AS. PMID: 33284792.
      View in: PubMed   Mentions: 1     Fields:    
    3. High-performance macromolecular data delivery and visualization for the web. Acta Crystallogr D Struct Biol. 2020 Dec 01; 76(Pt 12):1167-1173. Sehnal D, Svobodová R, Berka K, Rose AS, Burley SK, Velankar S, Koca J. PMID: 33263322.
      View in: PubMed   Mentions:
    4. RCSB Protein Data Bank: powerful new tools for exploring 3D structures of biological macromolecules for basic and applied research and education in fundamental biology, biomedicine, biotechnology, bioengineering and energy sciences. Nucleic Acids Res. 2020 Nov 19. Burley SK, Bhikadiya C, Bi C, Bittrich S, Chen L, Crichlow GV, Christie CH, Dalenberg K, Di Costanzo L, Duarte JM, Dutta S, Feng Z, Ganesan S, Goodsell DS, Ghosh S, Green RK, Guranovic V, Guzenko D, Hudson BP, Lawson CL, Liang Y, Lowe R, Namkoong H, Peisach E, Persikova I, Randle C, Rose A, Rose Y, Sali A, Segura J, Sekharan M, Shao C, Tao YP, Voigt M, Westbrook JD, Young JY, Zardecki C, Zhuravleva M. PMID: 33211854.
      View in: PubMed   Mentions: 1     Fields:    
    5. RCSB Protein Data Bank: Architectural Advances Towards Integrated Searching and Efficient Access to Macromolecular Structure Data from the PDB Archive. J Mol Biol. 2020 Nov 10. Rose Y, Duarte JM, Lowe R, Segura J, Bi C, Bhikadiya C, Chen L, Rose AS, Bittrich S, Burley SK, Westbrook JD. PMID: 33186584.
      View in: PubMed   Mentions:    Fields:    
    6. BinaryCIF and CIFTools-Lightweight, efficient and extensible macromolecular data management. PLoS Comput Biol. 2020 10; 16(10):e1008247. Sehnal D, Bittrich S, Velankar S, Koca J, Svobodová R, Burley SK, Rose AS. PMID: 33075050.
      View in: PubMed   Mentions: 1     Fields:    
    7. RCSB Protein Data Bank: biological macromolecular structures enabling research and education in fundamental biology, biomedicine, biotechnology and energy. Nucleic Acids Res. 2019 01 08; 47(D1):D464-D474. Burley SK, Berman HM, Bhikadiya C, Bi C, Chen L, Di Costanzo L, Christie C, Dalenberg K, Duarte JM, Dutta S, Feng Z, Ghosh S, Goodsell DS, Green RK, Guranovic V, Guzenko D, Hudson BP, Kalro T, Liang Y, Lowe R, Namkoong H, Peisach E, Periskova I, Prlic A, Randle C, Rose A, Rose P, Sala R, Sekharan M, Shao C, Tan L, Tao YP, Valasatava Y, Voigt M, Westbrook J, Woo J, Yang H, Young J, Zhuravleva M, Zardecki C. PMID: 30357411.
      View in: PubMed   Mentions: 124     Fields:    Translation:Cells
    8. NGL viewer: web-based molecular graphics for large complexes. Bioinformatics. 2018 11 01; 34(21):3755-3758. Rose AS, Bradley AR, Valasatava Y, Duarte JM, Prlic A, Rose PW. PMID: 29850778.
      View in: PubMed   Mentions: 77     Fields:    
    9. FragFit: a web-application for interactive modeling of protein segments into cryo-EM density maps. Nucleic Acids Res. 2018 07 02; 46(W1):W310-W314. Tiemann JK, Rose AS, Ismer J, Darvish MD, Hilal T, Spahn CM, Hildebrand PW. PMID: 29788317.
      View in: PubMed   Mentions:    Fields:    Translation:Cells
    10. MDsrv: viewing and sharing molecular dynamics simulations on the web. Nat Methods. 2017 11 30; 14(12):1123-1124. Tiemann JKS, Guixà-González R, Hildebrand PW, Rose AS. PMID: 29190271.
      View in: PubMed   Mentions: 6     Fields:    Translation:Cells
    11. A fragment based method for modeling of protein segments into cryo-EM density maps. BMC Bioinformatics. 2017 Nov 13; 18(1):475. Ismer J, Rose AS, Tiemann JKS, Hildebrand PW. PMID: 29132296.
      View in: PubMed   Mentions: 1     Fields:    Translation:Cells
    12. MMTF-An efficient file format for the transmission, visualization, and analysis of macromolecular structures. PLoS Comput Biol. 2017 Jun; 13(6):e1005575. Bradley AR, Rose AS, Pavelka A, Valasatava Y, Duarte JM, Prlic A, Rose PW. PMID: 28574982.
      View in: PubMed   Mentions: 11     Fields:    Translation:Cells
    13. Towards an efficient compression of 3D coordinates of macromolecular structures. PLoS One. 2017; 12(3):e0174846. Valasatava Y, Bradley AR, Rose AS, Duarte JM, Prlic A, Rose PW. PMID: 28362865.
      View in: PubMed   Mentions: 6     Fields:    Translation:Cells
    14. The RCSB protein data bank: integrative view of protein, gene and 3D structural information. Nucleic Acids Res. 2017 01 04; 45(D1):D271-D281. Rose PW, Prlic A, Altunkaya A, Bi C, Bradley AR, Christie CH, Costanzo LD, Duarte JM, Dutta S, Feng Z, Green RK, Goodsell DS, Hudson B, Kalro T, Lowe R, Peisach E, Randle C, Rose AS, Shao C, Tao YP, Valasatava Y, Voigt M, Westbrook JD, Woo J, Yang H, Young JY, Zardecki C, Berman HM, Burley SK. PMID: 27794042.
      View in: PubMed   Mentions: 159     Fields:    Translation:Cells
    15. SL2: an interactive webtool for modeling of missing segments in proteins. Nucleic Acids Res. 2016 07 08; 44(W1):W390-4. Ismer J, Rose AS, Tiemann JK, Goede A, Preissner R, Hildebrand PW. PMID: 27105847.
      View in: PubMed   Mentions: 8     Fields:    Translation:Cells
    16. NGL Viewer: a web application for molecular visualization. Nucleic Acids Res. 2015 Jul 01; 43(W1):W576-9. Rose AS, Hildebrand PW. PMID: 25925569.
      View in: PubMed   Mentions: 92     Fields:    Translation:Cells
    17. MP:PD--a data base of internal packing densities, internal packing defects and internal waters of helical membrane proteins. Nucleic Acids Res. 2014 Jan; 42(Database issue):D347-51. Rose A, Theune D, Goede A, Hildebrand PW. PMID: 24194596.
      View in: PubMed   Mentions: 6     Fields:    Translation:Cells
    18. Voronoia4RNA--a database of atomic packing densities of RNA structures and their complexes. Nucleic Acids Res. 2013 Jan; 41(Database issue):D280-4. Ismer J, Rose AS, Tiemann JK, Goede A, Rother K, Hildebrand PW. PMID: 23161674.
      View in: PubMed   Mentions: 3     Fields:    Translation:Cells
    19. MPlot--a server to analyze and visualize tertiary structure contacts and geometrical features of helical membrane proteins. Nucleic Acids Res. 2010 Jul; 38(Web Server issue):W602-8. Rose A, Goede A, Hildebrand PW. PMID: 20484376.
      View in: PubMed   Mentions: 3     Fields:    Translation:Cells
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