Effective electron-density map improvement and structure validation on a Linux multi-CPU web cluster: The TB Structural Genomics Consortium Bias Removal Web Service.

No abstract is available for this paper.

• Publication year

  2003

• Venue

  Acta Crystallographica Section D: Biological Crystallography

• Publication date

  2003-12-01

• Fields of study

  Chemistry, Medicine, Computer Science

• Identifiers
  DOI 10.1107/S0907444903020316PMID 14646078
• External record

  Open on Semantic Scholar

• Source metadata

  Semantic Scholar, PubMed

• No claims are published for this paper.

• No concepts are published for this paper.

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  2002cited by this paper
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  2001cited by this paper
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  1999cited by this paper
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  1999cited by this paper
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  1999cited by this paper
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  1999cited by this paper
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  1999cited by this paper
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  1998cited by this paper
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  1998cited by this paper
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  1997cited by this paper
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  1997cited by this paper
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  1997cited by this paper
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  1997cited by this paper
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  1997cited by this paper
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  1997cited by this paper
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  1997cited by this paper
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  1996cited by this paper
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  1994cited by this paper
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  1994cited by this paper
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  1993influential reference
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  1993cited by this paper
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  1992cited by this paper
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  1992cited by this paper
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  1992cited by this paper
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  1990cited by this paper
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  1990cited by this paper
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  1990cited by this paper
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  1986cited by this paper
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  1984cited by this paper
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  1963cited by this paper

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  2016cites this paper
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  2016cites this paper
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  2015cites this paper
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  2014cites this paper
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  2014cites this paper
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  2014influential citation
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  2012cites this paper
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  2011cites this paper
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  2011cites this paper
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  2011cites this paper
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  2010cites this paper
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  2010cites this paper
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  2010cites this paper
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  2009influential citation
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  2009cites this paper
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  2009cites this paper
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