A call for public archives for biological image data

被引:80
作者
Ellenberg, Jan [1 ]
Swedlow, Jason R. [2 ]
Barlow, Mary [3 ]
Cook, Charles E. [3 ]
Sarkans, Ugis [3 ]
Patwardhan, Ardan [3 ]
Brazma, Alvis [3 ]
Birney, Ewan [3 ]
机构
[1] European Mol Biol Lab, Heidelberg, Germany
[2] Univ Dundee, Sch Life Sci, Div Computat Biol, Dundee, Scotland
[3] European Bioinformat Inst, European Mol Biol Lab, Wellcome Genome Campus, Cambridge, England
基金
英国生物技术与生命科学研究理事会; 英国惠康基金;
关键词
MICROSCOPY DATA; DATA RESOURCE; EXPRESSION; CHALLENGE; ACCESS; GENE; DNA;
D O I
10.1038/s41592-018-0195-8
中图分类号
Q5 [生物化学];
学科分类号
071010 ; 081704 ;
摘要
Public data archives are the backbone of modern biological research. Biomolecular archives are well established, but bioimaging resources lag behind them. The technology required for imaging archives is now available, thus enabling the creation of the first public bioimage datasets. We present the rationale for the construction of bioimage archives and their associated databases to underpin the next revolution in bioinformatics discovery.
引用
收藏
页码:849 / 854
页数:6
相关论文
共 33 条
[1]   PhenoImageShare: an image annotation and query infrastructure [J].
Adebayo, Solomon ;
McLeod, Kenneth ;
Tudose, Ilinca ;
Osumi-Sutherland, David ;
Burdett, Tony ;
Baldock, Richard ;
Burger, Albert ;
Parkinson, Helen .
JOURNAL OF BIOMEDICAL SEMANTICS, 2016, 7
[2]   Ensembl 2017 [J].
Aken, Bronwen L. ;
Achuthan, Premanand ;
Akanni, Wasiu ;
Amode, M. Ridwan ;
Bernsdorff, Friederike ;
Bhai, Jyothish ;
Billis, Konstantinos ;
Carvalho-Silva, Denise ;
Cummins, Carla ;
Clapham, Peter ;
Gil, Laurent ;
Giron, Carlos Garcia ;
Gordon, Leo ;
Hourlier, Thibaut ;
Hunt, Sarah E. ;
Janacek, Sophie H. ;
Juettemann, Thomas ;
Keenan, Stephen ;
Laird, Matthew R. ;
Lavidas, Ilias ;
Maurel, Thomas ;
McLaren, William ;
Moore, Benjamin ;
Murphy, Daniel N. ;
Nag, Rishi ;
Newman, Victoria ;
Nuhn, Michael ;
Ong, Chuang Kee ;
Parker, Anne ;
Patricio, Mateus ;
Riat, Harpreet Singh ;
Sheppard, Daniel ;
Sparrow, Helen ;
Taylor, Kieron ;
Thormann, Anja ;
Vullo, Alessandro ;
Walts, Brandon ;
Wilder, Steven P. ;
Zadissa, Amonida ;
Kostadima, Myrto ;
Martin, Fergal J. ;
Muffato, Matthieu ;
Perry, Emily ;
Ruffier, Magali ;
Staines, Daniel M. ;
Trevanion, Stephen J. ;
Cunningham, Fiona ;
Yates, Andrew ;
Zerbino, Daniel R. ;
Flicek, Paul .
NUCLEIC ACIDS RESEARCH, 2017, 45 (D1) :D635-D642
[3]   UK Biobank Data: Come and Get It [J].
Allen, Naomi E. ;
Sudlow, Cathie ;
Peakman, Tim ;
Collins, Rory .
SCIENCE TRANSLATIONAL MEDICINE, 2014, 6 (224)
[4]   Efficient processing and analysis of large-scale light-sheet microscopy data [J].
Amat, Fernando ;
Hoeckendorf, Burkhard ;
Wan, Yinan ;
Lemon, William C. ;
McDole, Katie ;
Keller, Philipp J. .
NATURE PROTOCOLS, 2015, 10 (11) :1679-1696
[5]  
Beagrie N., 2016, VALUE IMPACT EUROPEA
[6]   The nuclear pore complex: understanding its function through structural insight [J].
Beck, Martin ;
Hurt, Ed .
NATURE REVIEWS MOLECULAR CELL BIOLOGY, 2017, 18 (02) :73-89
[7]  
Beghin A, 2017, NAT METHODS, V14, P1184, DOI [10.1038/NMETH.4486, 10.1038/nmeth.4486]
[8]   The archiving and dissemination of biological structure data [J].
Berman, Helen M. ;
Burley, Stephen K. ;
Kleywegt, Gerard J. ;
Markley, John L. ;
Nakamura, Haruki ;
Velankar, Sameer .
CURRENT OPINION IN STRUCTURAL BIOLOGY, 2016, 40 :17-22
[9]  
Clough E, 2016, METHODS MOL BIOL, V1418, P93, DOI 10.1007/978-1-4939-3578-9_5
[10]   The International Nucleotide Sequence Database Collaboration [J].
Cochrane, Guy ;
Karsch-Mizrachi, Ilene ;
Takagi, Toshihisa .
NUCLEIC ACIDS RESEARCH, 2016, 44 (D1) :D48-D50