Batch Citation Matcher

Batch Citation Matcher and Journal Lists
Last updated: August 22, 2005

• To retrieve PubMed or PMC UIs for fewer than 100 citations enter each citation on a separate line using the following input format:

    journal_title|year|volume|first_page|author_name|your_key|

• To retrieve more than 100 citations use the email function instead of the text box provided on the Batch Citation Matcher page:

1. Enter your email address. Citations will be sent via email if an address is provided.
2. Create a file using the citation input format and save it locally, then enter the filename or Browse to choose it from your system directory.
3. Email requests may take a few minutes to process and be sent to your email address.

If a match is not found the citation string will display one of the following:

• INVALID_JOURNAL - The journal name is not a valid. See the journal lists or the Journals database to find the correct journal abbreviation.
• NOT_FOUND - The journal name is valid but the complete citation did not find a match.
• AMBIGUOUS - The information provided matches more than one citation. Citation information with 3 or fewer matches include the PMIDs and more than 3 matches include the total PMID match count. Use the Single Citation Matcher or ESearch to retrieve all citations for searched fields.

• Select PMC from the database pull-down menu to change the default from PubMed.
• Enter author names without punctuation as smith jc. Initials are optional.
• Your key is any string you choose to tag the citation, it is returned unaltered.
• The journal title field may include the full journal title or the title abbreviation.
• Each citation field is searched starting with the journal title until a unique match is found.
• The journal title is a required field however you may omit other fields. If you omit fields you must retain the vertical bars in the citation string. For example, if you omit the volume number 88 from the first example below it should be entered as:

  proc natl acad sci u s a|1991||3248|mann bj|P32022-1|

  Example:

  proc natl acad sci u s a|1991|88|3248|mann bj|P32022-1|
  proc natl acad sci u s a|1992|89|3271|gould se|P26261-1|
  proc natl acad sci u s a|1999|89|3271|gould se|P26261-1|
  res microbiol|1992|143|467|ivey dm|P25966-1|
  science|1987|235|182|palmenberg ac|P12296-2|
  eschatology|1993|12|22|public jq|C12233-2|
  virology|1993|193|492|hardy me|Q02945-1|
  virus genes|1992|6|393||P27423-1|
  yeast|1992|8|253|sasnauskas k|P24813-1|

  Example output:

  proc natl acad sci u s a|1991|88|3248|mann bj|P32022-1|2014248
  proc natl acad sci u s a|1992|89|3271|gould se|P26261-1|1565618
  proc natl acad sci u s a|1999|89|3271||P26261-1|NOT_FOUND
  res microbiol|1992|143|467|ivey dm|P25966-1|1448623
  science|1987|235|182|palmenberg ac|P12296-2|3026048
  eschatology|1993|12|22||C12233-2|NOT_FOUND;INVALID_JOURNAL
  virology|1993|193|492|hardy me|Q02945-1|8382410
  virus genes|1992|6|393||P27423-1|1335631
  yeast|1992|8|253|sasnauskas k|P24813-1|1514324

Journal lists available by FTP:

• PubMed - journals included in PubMed.
• Molecular Biology - journals included in the Entrez molecular biology databases such as Nucleotide, Protein, and Genome.
• Entrez - journals in PubMed and the molecular biology databases.




PubMed	Molecular Biology	Entrez
Uncompressed	Uncompressed	Uncompressed
GNU zip	GNU zip	GNU zip
UNIX Compress	UNIX Compress	UNIX Compress
PKZIP	PKZIP	PKZIP

 

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