• APBS

  • Referenced in 76 articles [sw05766]
  • determine ligand-protein and protein-protein binding kinetics, implicit solvent molecular dynamics of biomolecules, solvation ... binding energy calculations to determine ligand-protein and protein-protein equilibrium binding constants...
  • CHARMM

  • Referenced in 106 articles [sw05953]
  • free energy calculations of mutations and drug binding as well as conformational folding of peptides...
  • Nominal Isabelle

  • Referenced in 62 articles [sw12055]
  • General bindings and alpha-equivalence in Nominal Isabelle. Nominal Isabelle is a definitional extension ... Nominal Isabelle for dealing with general bindings, that means term-constructors where multiple variables ... bound at once. Such general bindings are ubiquitous in programming language research and only very...
  • PARLOG

  • Referenced in 39 articles [sw23764]
  • communication channels for the passing of partial bindings. Only one solution to each call ... calls is evaluated without communication of partial bindings, but all the solutions may be found...
  • shiny

  • Referenced in 54 articles [sw13816]
  • interactive web applications with R. Automatic ”reactive” binding between inputs and outputs and extensive...
  • JASPAR

  • Referenced in 24 articles [sw18502]
  • open‐access database for eukaryotic transcription factor binding profiles. The analysis of regulatory regions ... detection of potential transcription factor binding sites. The preferred models for representation of transcription factor ... binding specificity have been termed position‐specific scoring matrices. JASPAR is an open‐access database ... annotated, high‐quality, matrix‐based transcription factor binding site profiles for multicellular eukaryotes. The profiles...
  • Freshml

  • Referenced in 44 articles [sw08992]
  • manipulating syntactical data involving statically scoped binding operations. User-declared FreshML datatypes involving binders...
  • MiniML

  • Referenced in 41 articles [sw29625]
  • functional language Mini-ML□, thus proving that binding-time correctness is equivalent to modal correctness...
  • SWIG

  • Referenced in 40 articles [sw04607]
  • modifications to existing code and can create bindings for eight different target languages including Python...
  • MIBPB

  • Referenced in 39 articles [sw08106]
  • analysis of salt effects on protein–protein binding energies, respectively. © 2010 Wiley Periodicals...
  • Abella

  • Referenced in 37 articles [sw09461]
  • tree syntax approach to treating binding in object languages. Amongst other things, Abella has been...
  • iDNA-Prot

  • Referenced in 15 articles [sw22410]
  • iDNA-Prot: identification of DNA binding proteins using random forest with grey model. DNA-binding ... tools for rapidly and effectively identifying DNA-binding proteins is one of the major challenges ... Prot, for identifying uncharacterized proteins as DNA-binding proteins or non-DNA binding proteins based ... tool for large-scale analysis of DNA-binding proteins. As a user-friendly web-server...
  • DrScheme

  • Referenced in 28 articles [sw01265]
  • draws arrows that point from bound to binding occurrences of identifiers. It also supports...
  • Regina

  • Referenced in 28 articles [sw04862]
  • includes a graphical user interface and Python bindings, and also supports angle structures, census enumeration...
  • Idris

  • Referenced in 28 articles [sw20011]
  • case expressions, pattern matching let and lambda bindings; Dependent records with projection and update; Interfaces...
  • rgdal

  • Referenced in 19 articles [sw15932]
  • package rgdal: Bindings for the Geospatial Data Abstraction Library. Provides bindings to Frank Warmerdam...
  • TRANSFAC

  • Referenced in 16 articles [sw17201]
  • database on transcription factors, their genomic binding sites and DNA-binding profiles (http://transfac.gbf.de/TRANSFAC/ ... scaffold/matrix attached regions (S/MARs) and the proteins binding to them. Additionally, the databases TRANSPATH, about...
  • Ott

  • Referenced in 25 articles [sw00663]
  • expressive but intuitive metalanguage for specifying binding structures; and (3) compilation to proof assistant code...
  • iPPBS-Opt

  • Referenced in 15 articles [sw22428]
  • Based Ensemble Classifier for Identifying Protein-Protein Binding Sites by Optimizing Imbalanced Training Datasets. Knowledge ... protein-protein interactions and their binding sites is indispensable for in-depth understanding ... timely fashion the protein-protein binding sites (PPBSs) based on the sequence information alone because...
  • mpi4py

  • Referenced in 24 articles [sw04608]
  • Python (mpi4py) provides bindings of the Message Passing Interface (MPI) standard for the Python programming...