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EMBL References


Cochrane G.R. and Galperin M.Y. (2010)
The 2010 Nucleic Acids Research Database Issue and online Database Collection: a community of data resources.
Nucleic Acids Research 38: D1-D4.
abstract full-text PDF

Leinonen R., Akhtar R., Birney E, Bonfield J., Bower L., Corbett M., Cheng Y., Demiralp F., Faruque N., Goodgame N., Gibson R, Hoad G., Hunter C., Jang M., Leonard S., Lin Q., Lopez R., Maguire M., McWilliam H., Plaister S, Radhakrishnan R, Sobhany S, Slater G., Ten Hoopen P., Valentin F., Vaughan R., Zalunin V., Zerbino D., Cochrane G. (2010)
Improvements to services at the European Nucleotide Archive.
Nucleic Acids Research 38: D39-D45.
abstract full-text PDF

Shumway M., Cochrane G., Sugawara H. (2010)
Archiving next generation sequencing data.
Nucleic Acids Research 38: D870-D871.
abstract full-text PDF

Cochrane G., Akhtar R., Bonfield J., Bower L., Demiralp F., Faruque N., Gibson R., Hoad G., Hubbard T., Hunter C., Jang M., Juhos S., Leinonen R., Leonard S., Lin Q., Lopez R., Lorenc D., McWilliam H., Mukherjee G., Plaister S., Radhakrishnan R., Robinson S., Sobhany S., Hoopen P.T., Vaughan R., Zalunin V., Birney E. (2009)
Petabyte-scale innovations at the European Nucleotide Archive.
Nucleic Acids Research 37: D19-D25.
abstract full-text PDF

Galperin M.Y., Cochrane G.R. (2009)
Nucleic Acids Research annual Database Issue and the NAR online Molecular Biology Database Collection in 2009.
Nucleic Acids Research 37: D1-D4.
abstract full-text PDF

Angiuoli S.V., Gussman A., Klimke W., Cochrane G., Field D., Garrity G., Kodira C.D., Kyrpides N., Madupu R., Markowitz V., Tatusova T., Thomson N., White O. (2008)
Toward an Online Repository of Standard Operating Procedures (SOPs) for (Meta)genomic Annotation.
OMICS 12(2): 137-141.
abstract full-text PDF

Cochrane G., Akhtar R., Aldebert P., Althorpe N., Baldwin A., Bates K., Bhattacharyya S., Bonfield J., Bower L., Browne P., Castro M., Cox A., Demiralp F., Eberhardt R., Faruque N., Hoad G., Jang M., Kulikova T., Labarga A., Leinonen R., Leonard S., Lin Q., Lopez R., Lorenc D., McWilliam H., Mukherjee G., Nardone F., Plaister S., Robinson S., Sobhany S., Vaughan R., Wu D., Zhu W., Apweiler R., Hubbard T., Birney E. (2008)
Priorities for nucleotide trace, sequence and annotation data capture at the Ensembl Trace Archive and the EMBL Nucleotide Sequence Database
Nucleic Acids Research 36: D5-D12.
abstract full-text PDF

Field D., Garrity G., Gray T., Morrison N., Selengut J., Sterk P., Tatusova T., Thomson N., Allen M.J., Angiuoli S.V., Ashburner M., Axelrod N., Baldauf S., Ballard S., Boore J., Cochrane G., Cole J., Dawyndt P., De Vos P., DePamphilis C., Edwards R., Faruque N., Feldman R., Gilbert J., Gilna P., Glöckner F.O., Goldstein P., Guralnick R., Haft D., Hancock D., Hermjakob H., Hertz-Fowler C., Hugenholtz P., Joint I., Kagan L., Kane M., Kennedy J., Kowalchuk G., Kottmann R., Kolker E., Kravitz S., Kyrpides N., Leebens-Mack J., Lewis S.E., Li K., Lister A.L., Lord P., Maltsev N., Markowitz V., Martiny J., Methe B., Mizrachi I., Moxon R., Nelson K., Parkhill J., Proctor L., White O., Sansone S.A., Spiers A., Stevens R., Swift P., Taylor C., Tateno Y., Tett A., Turner S., Ussery D., Vaughan B., Ward N., Whetzel T., San Gil I., Wilson G., Wipat A. (2008)
The minimum information about a genome sequence (MIGS) specification.
Nature Biotechnology 26(5): 541-547.
abstract full-text PDF

Field D., Garrity G.M., Sansone S.A., Sterk P., Gray T., Kyrpides N., Hirschman L., Glöckner F.O., Kottmann R., Angiuoli S., White O., Dawyndt P., Thomson N., Gil I.S., Morrison N., Tatusova T., Mizrachi I., Vaughan R., Cochrane G., Kagan L., Murphy S., Schriml L., and the Genomic Standards Consortium (2008)
Meeting Report: The Fifth Genomic Standards Consortium (GSC) Workshop.
OMICS 12(2): 109-113.
abstract full-text PDF

Field D., Glöckner F.O., Garrity G.M., Gray T., Sterk P., Cochrane G., Vaughan R., Kolker E., Kottmann R., Kyrpides N., Angiuoli S., Dawyndt P., Guralnick R., Goldstein P., Hall N., Hirschman L., Kravitz S., Lister A.L., Markowitz V., Thomson N., Whetzel T. (2008)
Meeting Report: The Fourth Genomic Standards Consortium (GSC) Workshop.
OMICS 12(2): 101-108.
abstract full-text PDF

Kulikova T., Akhtar R., Aldebert P., Althorpe N., Andersson M., Baldwin A., Bates K., Bhattacharyya S., Bower L., Browne P., Castro M., Cochrane G., Duggan K., Eberhardt R., Faruque N., Hoad G., Kanz C., Lee C., Leinonen R., Lin Q., Lombard V., Lopez R., Lorenc D., McWilliam H., Mukherjee G., Nardone F., Garcia-Pastor M.P., Plaister S., Sobhany S., Stoehr P., Vaughan R., Wu D., Zhu W., Apweiler R. (2007)
EMBL Nucleotide Sequence Database in 2006.
Nucleic Acids Research 35: D16-D20.
abstract full-text PDF

Cochrane G., Bates K., Apweiler R., Tateno Y., Mashima J., Kosuge T., Mizrachi I.K., Schafer S., Fetchko M. (2006)
Evidence Standards in Experimental and Inferential INSDC Third Party Annotation Data.
OMICS 10(2): 105-113.
abstract full-text PDF

Cochrane G., Aldebert P., Althorpe N., Andersson M., Baker W., Baldwin A., Bates K., Bhattacharyya S., Browne P., van den Broek A., Castro M., Duggan K., Eberhardt R., Faruque N., Gamble J., Kanz C., Kulikova T., Lee C., Leinonen R., Lin Q., Lombard V., Lopez R., McHale M., McWilliam H., Mukherjee G., Nardone F., Pastor M.P., Sobhany S., Stoehr P., Tzouvara K., Vaughan R., Wu D., Zhu W., Apweiler R. (2006)
EMBL Nucleotide Sequence Database: developments in 2005.
Nucleic Acids Research 34: D10-D15.
abstract full-text HTML full-text PDF

Morrison N., Cochrane G., Faruque N., Tatusova T., Tateno Y., Hancock D., Field D. (2006)
Concept of Sample in OMICS Technology.
OMICS 10(2): 127-137.
abstract full-text PDF

Cochrane G.R. and Brooksbank C. (2005)
A Quick Guide to the EMBL-Bank Nucleotide Sequence Database.
OBBeC Life Science Computing and Bioinformatics Issue 2, pp. 34-35 July 2005.
more info

Kanz C., Aldebert P., Althorpe N., Baker W., Baldwin A., Bates K., Browne P., van den Broek A., Castro M., Cochrane G., Duggan K., Eberhardt R., Faruque N., Gamble J., Diez F.G., Harte N., Kulikova T, Lin Q, Lombard V, Lopez R, Mancuso R, McHale M, Nardone F, Silventoinen V, Sobhany S., Stoehr P., Tuli M.A., Tzouvara K., Vaughan R., Wu D., Zhu W. and Apweiler R. (2005)
The EMBL Nucleotide Sequence Database.
Nucleic Acids Research 33: D29-D33.
abstract full-text HTML full-text PDF

Kulikova T., Aldebert P., Althorpe N., Baker W., Bates K., Browne P., van den Broek A., Cochrane G., Duggan K., Eberhardt R., Faruque N., Garcia-Pastor M., Harte N., Kanz C., Leinonen R., Lin Q., Lombard V., Lopez R., Mancuso R., McHale M., Nardon F., Silventoinen V., Stoehr P., Stoesser G., Tuli M.A., Tzouvara K., Vaughan R., Wu D., Zhu W. and Apweiler R. (2004)
The EMBL Nucleotide Sequence Database.
Nucleic Acids Research 32: D27-D30.
abstract full-text HTML

Leinonen R., Nardone F., Oyewole O., Redaschi N., Stoehr P. (2003)
The EMBL sequence version archive
Bioinformatics 19: 1861-1862.
abstract full-text PDF

Stoesser G., Baker W., van den Broek A., Garcia-Pastor M., Kanz C., Kulikova T., Leinonen R., Lin Q., Lombard V., Lopez R., Mancuso R., Nardone F., Stoehr P., Tuli M., Tzouvara K. and Vaughan R. (2003)
The EMBL Nucleotide Sequence Database: major new developments.
Nucleic Acids Research 31(1): 17-22.
abstract full-text HTML

Lombard V., Camon E.B., Parkinson H.E., Hingamp P., Stoesser G., Redaschi N. (2002)
EMBL-Align: a new public nucleotide and amino acid multiple sequence alignment database.
Bioinformatics 18: 763-764.
abstract full-text HTML

Stoesser G., Baker W., van den Broek A., Camon E., Garcia-Pastor M., Kanz C., Kulikova T., Leinonen R., Lin Q., Lombard V., Lopez R., Redaschi N., Stoehr P., Tuli MA., Tzouvara K., Vaughan R. (2002)
The EMBL Nucleotide Sequence Database.
Nucleic Acids Research 30(1): 21-26.
abstract full-text HTML

Stoesser G., Baker W., van den Broek A., Camon E., Garcia-Pastor M., Kanz C., Kulikova T., Lombard V., Lopez R., Parkinson H., Redaschi N., Sterk P., Stoehr P., Tuli MA. (2001)
The EMBL Nucleotide Sequence Database.
Nucleic Acids Research 29(1): 17-21.
full-text HTML full-text PDF

Baker W., van den Broek A., Camon E., Hingamp P., Sterk P., Stoesser G., Tuli M.A. (2000)
The EMBL Nucleotide Sequence Database.
Nucleic Acids Research 28(1): 19-23.
full-text HTML full-text PDF

Stoesser G., Moseley M.A., Lopez R. and Sterk P. (1999)
The EMBL Nucleotide Sequence Database.
Nucleic Acids Research 27(1): 18-24.
abstract

Hingamp P., van den Broek A.E., Stoesser G. and Baker W. (1999)
The EMBL nucleotide sequence database: contributing and accessing data
Molecular Biotechnology 12(3): 255-268.
abstract

Stoesser G., Moseley, M.A., Sleep J., McGowran M., Garcia-Pastor M., Sterk P. (1998)
The EMBL Nucleotide Sequence Database.
Nucleic Acids Research 26(1): 8-15.
abstract

Kruszewska K., Stoesser G. (1997)
New Sequence submission systems at the European Bioinformatics Institute.
EMBNET NEWS 4(2).
full-text HTML

Stoesser G. (1997)
Current developments in the EMBL Nucleotide Sequence Database
The Bioinformer 2.
full-text HTML

Stoesser G. (1997)
Europe's primary nucleotide sequence resource at the EBI.
Biotechnology Knowledge Resources 10(6): 3-5).

Stoesser G. (1997)
Accessing new sequence data at the EBI.
Genome Digest 4(2).


Stoesser G., Sterk P., Tuli M.A., Stoehr P.J., Cameron G. N. (1997)
The EMBL Nucleotide Sequence Database.
Nucleic Acids Research 25(1): 7-13.
abstract

Apweiler R., Junker V., Gateau A., O'Donovan C., Lang F., Mitaritonna N. (1996)
The EBIs Nucleotide and Protein Sequence Databases and services: Current Developments.
In: Perspectives on Protein Engineering 3, CD-ROM edition, Geisow M.J. (eds.), BIODIGM Ltd, Nottingham, UK (1996).

Tuli M.A., Flores T.P. and Cameron G.N. (1996)
Submisssion of Nucleotide Sequence Data to EMBL/GenBank/DDBJ.
Molecular Biotechnology 6: 47-51.
abstract

Apweiler R. (1995)
European Protein and DNA Data Library Resources.
In: Perspectives on Protein Engineering and complementary technologies, Geisow M.J. and Epton R. (eds.), BIODIGM Ltd, Mayflower World-Wide, Birmingham, UK (1995).

Emmert D.B., Stoehr P.J., Stoesser G., Cameron G.N. (1994)
The European Bioinformatics Institute (EBI) databases.
Nucleic Acids Research 26(1): 3445-3449.
abstract



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