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April 2013 Issue (Apl. 25, 2013)

Suspension of some parts of DDBJ activities during Japanese holidays / Enhancement in DDBJ BLAST / Release of sequence data from DDBJ (Apr. 2013) / New COMMENT format for Japan Patent Office (JPO) data / “FAQ of DDBJ Nucleotide Sequence Submission System” –Vol.2

March 2013 Issue (Mar. 1, 2013)

(Mar.8-11)DDBJ network services will be unavailable for power outage / Apologies for defects in WGS data from EMBL-Bank / DAD Rel. 61.1 released / Release of GSS data of African clawed frog (Xenopus laevis) / "FAQ of DDBJ Nucleotide Sequence Submission System" –Vol.1

No.75 & 76 (Dec. 25, 2012)

Suspension of the DDBJ activity during the New Year Holidays / Aplogy for the DDBJ service down due to the lightgning strikes of Nov. 22 / DDBJ Rel. 91.0, DAD (DDBJ amino acid database) Rel. 61.0 Completed / DDBJ/EMBL/GenBank Feature Table Definition revised / Report for DDBJ activities in NAR / Release of WGS data of diamondback moth (Plutella xylostella)

No.73 & 74 (Oct. 23, 2012)

New DDBJ Nucleotide Sequence Submission System / DDBJ Rel. 90.1，DAD Rel. 60.1 released / The Report for the 25th International Collaborators Meeting / Additional new lines on COMMENT for Japan Paten Office (JPO) data / "DDBJ Original version" was added to the ClustalW / Release of sequence data from DDBJ (Aug. - Oct. 2012)

No.71 & 72 (Jul. 26, 2012)

DDBJ Rel. 89.0, DAD (DDBJ amino acid database) Rel. 59.1 Completed/ DDBJ/EMBL/GenBank Feature Table Definition revised/ Resumed DDBJ Read Annotation Pipeline/ MiGap renewal from DDBJ/Release of whole genome sequence data of Solanum lycopersicum/ Release of sequence data from DDBJ (May - Jul. 2012)/ 4.Flat File structure for Japan Patent Office (JPO) -Second part-

No.68, 69 & 70 (Apr. 25, 2012)

Operation Status of DDBJ services after replacement of NIG computer system (as of Apr. 20)/ Suspension of some parts of DDBJ activities during Japanese holidays/ DRA and BioProject systems will be unavailable partly/ Release of sequence data from DDBJ (Mar. - Apr. 2012) /

No.66 & 67 (Jan. 23, 2012)

DDBJ Rel. 88.0, DAD (DDBJ amino acid database) Rel. 58.0 Completed/ DDBJ/EMBL/GenBank Feature Table Definition revised/ Report for DDBJ activities in NAR/ Release of sequence data from DDBJ (Nov. 2011 - Jan. 2012)/ Patent column from DDBJ/

No.64 & 65 (Nov. 2, 2011)

(11/11-14) DDBJ network services are unavailable for power outage of the NIG/ DDBJ starts BioProject services/ The Report for the 24th International Collaborators Meeting/ DDBJ Rel. 87.0, DAD Rel. 57.0 Completed/ Resumed GIB/ Release of sequence data from DDBJ (Sep.- Oct. 2011)/ Patent column from DDBJ/

No.62 & 63 (Sep. 2, 2011)

DDBJ HP renewal/ DDBJ will launch a new resource "BioProject"/ The fax number changed to "Mandatory" of SAKURA/ Directory and file names for quality scores was changed/ Release of sequence data from DDBJ (Jul. - Aug. 2011)/ Patent column from DDBJ/

No.60 & 61 (Jun. 27, 2011)

DDBJ Rel. 86.0, DAD Rel. 56.0 completed/ Release of JPO patent nucleotide sequence for 1,591,911 entries/ International Collaborators Meeting 2011(ICM2011) was held at Osaka/ EMBL-EBI, DBCLS, DDBJ and NBDC will hold The Bioinformatics Roadshow/ Release of sequence data from DDBJ (Apr. - Jun. 2011)/ ARSA database search temporary unavailable/

No.58 & 59 (Apr. 14, 2011)

DDBJ Rel. 85.0, DAD (DDBJ amino acid database) Rel. 55.0 Completed/ Adding patent number and sequence number on DEFINITION line/ Suspension of a part of the DDBJ services for electricity conservation/ Temporary delay of a part of the DDBJ services for consecutive holidays/ Release of sequence data from DDBJ (Feb. - Apr. 2011)/

No.56 & 57 (Mar. 3, 2011)

DDBJ Rel. 84.1 and DAD (DDBJ amino acid database) Rel. 54.1 Released/ DDBJ/EMBL/GenBank Feature Table Definition revised/ Report for DDBJ activities in NAR/ DDBJ will continue Sequence Raw Data Archiving/ DRA directory composition of FTP was changed/ Release of sequence data from DDBJ (Dec. 2010 - Feb. 2011)/

No.54 & 55 (Dec. 20, 2010)

Suspension of the DDBJ activity during the New Year Holidays/ DDBJ will terminate accepting submission by 'Sequin'/ First Japanese whole genome sequencing data are released from the DDBJ Sequence Read Archive/ DDBJ Sequence Read Archive has released the data search system/ BLAST Web API against RefSeq database was opened to the public from WABI/ Organism information on SAKURA was changed/

No.52 & 53 (Oct. 26, 2010)

Trace data determined by "Human full-length cDNA sequencing projects" are available/ SAKURA specification changed/
The Report for the 23rd International Collaborators Meeting/ DDBJ Rel. 83 and DAD Rel. 53 Completed/ DDBJ,DAD Release/daily-update FASTA format change/ Apologies for the trouble of FASTA file in DAD release/ Release of sequence data from DDBJ (Sep. - Oct. 2010)/

No.51 (Aug. 31, 2010)

"Patent" was added to the BLAST protein search/ The NCBI RefSeq data was released in the mirror/ DRA has started to distribute public data of DRA/ERA/SRA/ DDBJ Rel. 82 and DAD Rel. 52 Completed/ Termination of DDBJ-XML output format/ Release of sequence data from DDBJ (June - July, 2010)/

No.50 (Jun. 30, 2010)

Modification of way of getting the large size search result by getentry/ Started Twitter/ DDBJ/EMBL/GenBank Feature Table Definition revised/ DAD (DDBJ amino acid database) Rel. 51.0 Released/ Release of sequence data from DDBJ (April - May, 2010)/

No.49 (Apr. 22, 2010)

Release of the raw and assembled sequence data set from ngs/ Change of UniProt release numbers and release cycle/ DDBJ Rel. 81 completed/ JPO and KIPO amino acid sequence data are available by anonymous FTP/ Release of sequence data from DDBJ (January - March, 2010)/ Termination of a part of DDBJ services/

No.47 & 48 (Mar. 10, 2010)

NIG and DDBJ network services temporary down/ Termination of a part of DDBJ services/ Release of sequence data from DDBJ/ Report for DDBJ activities in NAR/ DDBJ Rel. 80 Completed/ DDBJ/EMBL/GenBank Feature Table Definition revised/

No.46 (Dec. 18, 2009)

at MBSJ2009/ Suspension of the DDBJ activity during the New Year Holidays/ Release of sequence data from DDBJ/ Genome Information Broker (GIB) meets the Targeted Proteins Research Program (TPRP)/ Closing H-Inv DB mirror site/

No.44 & 45 (Nov. 12, 2009)

New DDBJ Staffs started DDBJ activiti/ "DDBJ Read Archive (DRA)" and "DDBJ Trace Archive (DTA)" websites open!/ The Report for the 22nd International Collaborators Meeting/ Change of directory structure of anonymous FTP site: Made a new directory "tpa" and "dra", renamed "trace" to "dta"/ Release of sequence data from DDBJ/ DDBJ Rel. 79.0 and DAD Rel. 49.0 released/ A new alignment service (MAFFT API) was opened to the public from WABI/ Enhancement of GIB-V by adding host information/ The paper about WABI was published in NAR Web server issue/

No.42 & 43 (May. 29, 2009)

Release of Swine Influenza A (H1N1) Virus by DDBJ/EMBL/GenBank Database/ New release and update of human and mouse MGA data used for a gene network analysis/ Release of sequence data from DDBJ/ Update: a database of re-annotated microbial genomes/ 8th Japan-Korea-China Bioinformatics Training Course was held in Kyoto/

No.41 (Jan. 30, 2009)

SRS (Sequence Retrieval System) service terminated/ Release of sequence data from DDBJ/ DDBJ Rel. 76.0 and DAD Rel. 46.0 released/ Temporary suspension of DDBJ services for the system enhancement/ 

No.40 (Nov. 10, 2008)

New function is added to ARSA/ Release of sequence data from DDBJ/ Exhibit the DDBJ booth in BMB 2008/ Termination of providing SRS (Sequence Retrieval System) services [Re-announcement]/ DDBJ Rel.75.0 and DAD Rel.45.0 released/ Update of databases related to the H-Invitational/ Exhibit the DDBJ booth in BioJapan 2008/

No.39 (Sep. 4, 2008)

Late-summer greeting/ The Report for the 21st International Collaborators Meeting/ DDBJ starts accepting Trace Archive data/ DDBJ starts providing Trace Archive data by FTP/ Termination of a part of DDBJ services/ DDBJ Rel. 74 Completed / Release of sequence data from DDBJ/ BLAST and PSI-BLAST upgraded / Apology for the defective results of CON entries in getentry/ Apology for the defect of some search results in getentry/

No.38 (Jun. 27, 2008)

The number of nucleotides released from INSD has reached 200 G bases/ The 21st International Collaborators Meeting at Mishima/ Release of sequence data from DDBJ/ Genome Standards Consortium created a new genome description guideline/ Apology for the defect of some search results in getentry/ Removal of some databases from ARSA/ Report of the 7th Japan-Korea-China Bioinformatics training course/

No.37 (Apr. 13, 2008)

The public open day/ DDBJ Released Korean Patent Data/ Change the DDBJ anonymous FTP/ Dr. Hideaki Sugawara received the WFCC award/ Release of sequence data from DDBJ/ DDBJ Rel. 73 Completed/ Update of the H-Invitationa related the databases/ The 7th Japan-Korea-China Bioinformatics seminer was held in Korea/ Retirement and leaving of DDBJ staff/ Errata for DDBJ Entries/

No.36 (Mar. 4, 2008)

Mt. Fuji / How to release millions of entries from DDBJ / DDBJ started RSS delivery service/ Release of new MASS sequence data by DDBJ / DDBJ Rel. 72 Completed / Report for DDBJ activicies in NAR/

No. 35 (Dec. 27, 2007)

Thank you for using DDBJ in 2007/ Revision of DDBJ flat file format: Deletion of E-mail address, phone and fax numbers/ ARSA 2nd Enhancement/ Change of the sequence search system linked with TXSearch/ Suspension of the DDBJ activity during the New Year Holidays ( 2008 )/ The 7th Japan-Korea-China Bioinformatics Training Course ( March, 2008 )/ Apology for releasing of defective files of human gut metagenome WGS data from anonymous FTP/

No. 34 (Sep. 12, 2007)

We have serial excitements/ DDBJ HP Renewal/ Release of new human gut metagenome WGS data, 353,805 entries/ DDBJ Rel.71 Completed/ DDBJ started new WEB service REST/ The distribution massive entries/ The Web page of "XML Central of DDBJ" is getting cool / 

No. 33 (Nov. 13, 2007)

Beautiful season/ Great increase of the number of CON entries in DDBJ Rel.70:huge scale metagenome/ 

No. 32 (Aug. 16, 2007)

Watermelons' season/ Revision of DDBJ flat file format: Deletion of E-mail address, phone and fax numbers/ ARSA renewal !!/
The 19th International Collaborative Meeting were held at EBI/ Homology Search Services Upgraded/ The distribution of massive entries/ Japan-Korea-China Bioinformatics Training Course/ The Medaka genome article was carried in Nature/ DDBJ release 70.0 was revised as 70.1 at July 24, 2007/ The 20th anniversary of DDBJ release/ 

No. 31 (May. 22, 2007)

The summer day/ New system/ The announcement of DDBJing short training course/ The distribution of massive entries/ Full-length cDNA sequening of brain-expressed gene of cynomolgus monkey in PLOS Biology/ The 6th Japan-Korea-China Bioinformatics Training Course/ Staff transfer/ System error/ 

No. 30 (Mar. 23, 2007)

unsettled season/ URL change in DDBJ WWW services/ The release of GIB-V and GTPS/ Report for DDBJ activities/ ClustalW DOTSINOUTPUT option is available/ "16S rRNA" is newly added to DDBJ homology search databases/ BLAST and PSI-BLAST upgraded/ Distribution of massive sequence data/ DDBJ Rel. 68 Completed/ About the statistics of "Journal Ranking" 

No. 29 (Dec. 21, 2006)

The Variety of Camellia (Camellia japonica)/ The announcement of the 3rd DDBJing and PDBjing short training course/ Distribution of massive sequence data/ INSD-XML upgraded to ver 1.4/ Upgrading the computer system of the National Institute of Genetics(NIG)/ Illegal values were included in CONTIG lines within a part of ultra-contig and chromosome entries derived from Oryzias latipes (Japanese medaka) WGS data/ The report of the SPAM mail trouble/ Participation to / Suspension of the DDBJ activity during the New Year Holidays/ 

No. 28 (Oct. 16, 2006)

Good season!!!/ Completion of DDBJ Release 67/ Redistribution of whole rice genome data (O.sativa ssp.japonica) with RAP annotation/ Release of new Porcine full length cDNA 10,000 entries/ The Report for The 19th International Collaborators Meeting/ New function of getentry in CONTIG entries search/ Failure in part of search services in the WWW getentry/ 

No. 27 (Aug. 28, 2006)

The voice of the cicada/ Upgrade of Search and Analysis services/ ClustalW web screen lay-out change and new additional function / Distribution of massive sequence data / Change of searchable divisions in SRS / Termination of providing the Blast program on NIG supernig server / Conference on Information Biology / STAFF COLUMN / 

No. 26 (Jun. 22, 2006)

Do you enjoy the season? / Professor Gojobori was elected as one of the Foreign Honorary Members of AAAS / Whole genome data are available from GIB by FTP / Update of databases related to the H-Invitational / The distribution of massive entries / The 19th International Collaborative Meeting and International/ Advisors Meeting were held at NCBI / New Statistics; Journal Ranking Top 100 / DDBJ Rel. 65 Completed / Errata at DDBJ service / DDBJ staff Column: At the 20th Anniversary of DDBJ 

No. 25 (Apr. 18, 2006)

Life without flowers is just totally pointless. / The announcement of DDBJing short training course / New functions were added to "getentry" web server / Functional improvement of BLAST at web server / The distribution of massive entries / General Terms and Disclaimers for DDBJ users / The report of Japan-Korea-China Bioinformatics Training Course / Termination of the "S&W SEARCH" service / Termination of DDBJ/CIB Human Genomics Studio by DDBJ / ERRATA Page 

No. 24 (Mar. 3, 2006)

Full-blown Cherry Blossom will be coming soon !! / 14th DDBJing & 2nd PDBjing in Osaka / 5th Japan-Korea-China Bioinformatics Training Course / ARSA: Functional Improvement / Release of the complete genome sequence of Escherichia coli / K-12 strain W3110 / The current situation of microbe Genome submissions and update / DDBJ Rel. 64 completed and partition of large index files / Report for DDBJ activities in NAR / DDBJ new staff ! / "Flat file (EMBL)" was removed from getentry output format options / Errata at DDBJ services 

No. 23 (Dec. 19, 2005)

Notice for DDBJing in Osaka / INSD-XML formatted periodical release data available at FTP / A new "Graphical View" function was added to the web BLAST search program / Suspension of the DDBJ activity during the New Year Holidays / Incomplete release of WGS data at FTP / 28th Annual Meeting of the Molecular Biology Society of Japan 

No. 22 (Nov. 15, 2005)

Smiley sits on the mushroom / Public collections of DNA and RNA sequence reach 100 gigabases / Rice Genome analysis completed / Chimpanzee Genome sequencing completed / Release of transcript sequences derived from human and mouse with a huge scale / Macaca fascicularis cDNA database (QFbase) / New items are added to the DDBJ HP / Change the format of a Variable record of MGA data / DDBJ Rel. 63 Completed / The report of INSDC annual meeting / Termination of SF gate-WAIS and malign service 

No. 21 (Oct. 31, 2005)

Have you ever noticed the face on a USB flash drive? / Creation of the ENV division / Layout change !! -- getentry web version / DDBJ Rel. 62 Completed / International bioinformatics training course in Taiwan / DDBJ new staff / Close notification---SF gate-WAIS and malign / URL change: CAMUS Database and SSThread 

Note: To match the issue number with that of Japanese version, English version Mail Magazine starts from No.21. No.1 - No.20 are available only in Japanese.