• Tabu search

  • Referenced in 1059 articles [sw08556]
  • useful aspects of tabu search is the ability to adapt a rudimentary prototype implementation ... types of constraints and objective functions. Similarly, the method itself can be evolved to varying ... illustrate the strategic concerns of tabu search, and to show how they may be exploited...
  • BLAST

  • Referenced in 249 articles [sw17334]
  • Basic Local Alignment Search Tool. BLAST finds regions of similarity between biological sequences. The program...
  • PSI-BLAST

  • Referenced in 233 articles [sw17324]
  • used tools for searching protein and DNA databases for sequence similarities. For protein comparisons ... substantially while enhancing their sensitivity to weak similarities. A new criterion for triggering the extension ... into a position-specific score matrix, and searching the database using this matrix. The resulting ... sensitive to weak but biologically relevant sequence similarities. PSI-BLAST is used to uncover several...
  • SVMlight

  • Referenced in 263 articles [sw04076]
  • search. A detailed description of the algorithm can be found in [Joachims, 1999c]. A similar...
  • NeTra

  • Referenced in 63 articles [sw14887]
  • segmented image regions to search and retrieve similar regions from the database. A distinguishing aspect ... algorithm that allows object- or region-based search. Image segmentation significantly improves the quality...
  • HMMER

  • Referenced in 19 articles [sw10514]
  • HMMER web server: interactive sequence similarity searching. HMMER is a software suite for protein sequence ... similarity searches using probabilistic methods. Previously, HMMER has mainly been available only as a computationally...
  • AFGen

  • Referenced in 17 articles [sw06325]
  • different tasks in cheminformatics including similarity search, virtual screening, and library design. These descriptors...
  • AFP-Pred

  • Referenced in 24 articles [sw22441]
  • sequences and structures. Therefore, sequence similarity based search methods often fails to predict AFPs from ... from sequence information, irrespective of their sequence similarity...
  • SIMPLIcity

  • Referenced in 87 articles [sw14893]
  • down the searching range in a database. A measure for the overall similarity between images...
  • ExPASy

  • Referenced in 14 articles [sw34228]
  • specific tasks relevant to proteomics, similarity searches, pattern and profile searches, post-translational modification prediction...
  • FASTA3

  • Referenced in 7 articles [sw15724]
  • Flexible sequence similarity searching with the FASTA3 program package. Since the publication of the first ... databases become more complete, a sequence similarity search is more likely to reveal a database...
  • CLIP

  • Referenced in 7 articles [sw14373]
  • CLIP: similarity searching of 3D databases using clique detection. This paper describes a program ... similarity searching, called CLIP (for Candidate Ligand Identification Program), that uses the Bron-Kerbosch clique ... geometric arrangement of pharmacophore points and the similarity between two structures calculated using modifications...
  • P-FCM

  • Referenced in 16 articles [sw02421]
  • metaphors. One of these is the searching of “similar” pages, as offered by Google, Yahoo ... means (P-FCM) incorporating a measure of similarity or dissimilarity as user’s feedback ... according with the user interaction with the search engine...
  • SFA

  • Referenced in 5 articles [sw32513]
  • symbolic fourier approximation and index for similarity search in high dimensional datasets. Time series analysis ... climate research, bio-medicine or marketing. Similarity search in data with increasing dimensionality results ... leads to an exponential growth of the search space. Therefore, index- ing an approximation with ... respect- ively 2–11 for exact similarity search using real world and synthetic data...
  • FALCONN

  • Referenced in 8 articles [sw26631]
  • library with a Python wrapper for similarity search over high-dimensional data. It supports cosine...
  • Rdkit

  • Referenced in 8 articles [sw22741]
  • database and retrieved via substructure and similarity searches...
  • GenBank

  • Referenced in 8 articles [sw28961]
  • literature via PubMed. BLAST provides sequence similarity searches of GenBank and other sequence databases. Complete...
  • MatrixMarket

  • Referenced in 164 articles [sw04020]
  • browsing through the collection or for searching for matrices with special properties are included. Each ... several text file formats. Similarly, each matrix generator has a home page describing its properties...
  • STAMP

  • Referenced in 6 articles [sw17264]
  • highest-scoring matches are returned. Such similarity-search functionality is expected to facilitate the identification ... builds multiple alignments, familial binding profiles and similarity trees when more than one motif...
  • Blast2GO

  • Referenced in 6 articles [sw29668]
  • application GO annotation based on similarity searches with statistical analysis and highlighted visualization on directed...