Concepedia

Gap Penalties

Gap Penalties is a scoring mechanism in sequence alignment that assigns a negative value to the introduction or extension of gaps in order to penalize insertions or deletions during the comparison of biological sequences.

200

Publications

141.3K

Citations

442

Authors

253

Institutions

Publications per year

2017–2026

15

Parents

Children

Publications

200

CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice

Julie Thompson, Desmond G. Higgins, Toby J. Gibson · Nucleic Acids Research · 1994 · 64.9K citations · Full text

, , +14

Fast gapped-read alignment with Bowtie 2

Ben Langmead, Steven L. Salzberg · Nature Methods · 2012 · 61.1K citations

, , +11

Optimal alignments in linear space

Eugene W. Myers, Webb Miller · Computer applications in the biosciences · 1988 · 1.2K citations

, , +13

FUGUE: sequence-structure homology recognition using environment-specific substitution tables and structure-dependent gap penalties11Edited by B. Honig

Jiye Shi, Tom L. Blundell, Kenji Mizuguchi · Journal of Molecular Biology · 2001 · 1.2K citations

, , +11

An algorithm for progressive multiple alignment of sequences with insertions

Ari Löytynoja, Nick Goldman · Proceedings of the National Academy of Sciences · 2005 · 969 citations · Full text

, , +14

1–5 of 200

Authors

442

  1. OG
    Osamu Gotoh

    Saitama Cancer Center, Japan

    7 publications · 481 citations

    7

    h-index

  2. JK
    John Kececioglu

    University of Arizona, United States

    5 publications · 114 citations

    5

    h-index

  3. SF
    Stephen F. Altschul

    National Institutes of Health, United States

    5 publications · 529 citations

    5

    h-index

  4. XW
    Xindong Wu

    Hefei University of Technology, China

    4 publications · 161 citations

    4

    h-index

  5. YW
    Youxi Wu

    Hebei University of Technology, China

    4 publications · 161 citations

    4

    h-index

1–5 of 442

Institutions

253

  1. University of Arizona

    Tucson, United States

    8 h-index

    18 publications

    1.6K citations

  2. University of California San Diego

    San Diego, United States

    5 h-index

    6 publications

    216 citations

  3. National Institutes of Health

    Bethesda, United States

    5 h-index

    6 publications

    151 citations

  4. Georgia Institute of Technology

    Atlanta, United States

    4 h-index

    10 publications

    254 citations

  5. National Center for Biotechnology Information

    Bethesda, United States

    4 h-index

    4 publications

    149 citations

  6. Hebei University of Technology

    Tianjin, China

    4 h-index

    10 publications

    368 citations

  7. Saitama Cancer Center

    Saitama, Japan

    4 h-index

    4 publications

    336 citations

  8. Centre National de la Recherche Scientifique

    Paris, France

    4 h-index

    8 publications

    251 citations

1–8 of 253

Venues

  1. Journal of Computational Biology

    18 publications · 600 citations

    14

    h-index

  2. BMC Bioinformatics

    13 publications · 880 citations

    13

    h-index

  3. Bioinformatics

    13 publications · 1.3K citations

    13

    h-index

  4. Bulletin of Mathematical Biology

    11 publications · 988 citations

    11

    h-index

  5. Computer applications in the biosciences

    CABIOS · 7 publications · 1.7K citations

    7

    h-index

1–5