• iPPI-Esml

  • Referenced in 26 articles [sw22413]
  • proteins therein. Proteins rarely function alone. Most of their functions essential to life are associated...
  • iHSP-PseRAAAC

  • Referenced in 16 articles [sw25193]
  • prokaryotes and eukaryotes. They play essential roles in protein-protein interactions such as folding...
  • QMEAN

  • Referenced in 7 articles [sw17377]
  • Model quality estimation is an essential component of protein structure prediction, since ultimately the accuracy...
  • FoldUnfold

  • Referenced in 5 articles [sw16916]
  • prediction of disordered regions in protein chain. Summary: Identification of disordered regions in polypeptide chains ... very important because such regions are essential for protein function. A new parameter, namely mean...
  • RSARF

  • Referenced in 5 articles [sw22442]
  • complete physicochemical understanding of protein folding is essential for the accurate structure prediction. Knowledge ... residue solvent accessibility gives useful insights into protein structure prediction and function prediction. In this...
  • CytoNCA

  • Referenced in 2 articles [sw25624]
  • plugin for centrality analysis and evaluation of protein interaction networks. BACKGROUND AND SCOPE: Nowadays, centrality ... become a principal method for identifying essential proteins in biological networks. Here we present CytoNCA...
  • PANTHER

  • Referenced in 15 articles [sw22973]
  • PANTHER - a comprehensive, curated database of protein families, trees, subfamilies and functions available ... remain essentially unchanged: the accurate inference (and practical application) of gene and protein function over...
  • DIMA

  • Referenced in 4 articles [sw26868]
  • resource--exploring the protein domain network. Conserved domains represent essential building blocks of most known...
  • DiMoVo

  • Referenced in 2 articles [sw35351]
  • oligomeric state of a protein is often essential for understanding its function and mechanism. Within...
  • mLASSO-Hum

  • Referenced in 1 article [sw16468]
  • Knowing the subcellular compartments of human proteins is essential to shed light on the mechanisms ... human diseases. In computational methods for protein subcellular localization, knowledge-based methods (especially gene ontology ... solutions for large-scale prediction of human protein subcellular localization. By using ... these 87 essential GO terms, we can decide not only where a protein resides within...
  • PROMALS

  • Referenced in 4 articles [sw22476]
  • accurate multiple protein sequence alignments. Multiple sequence alignments are essential in homology inference, structure modeling ... developed a web server that constructs multiple protein sequence alignments using PROMALS, a progressive method...
  • OCTOPUS

  • Referenced in 3 articles [sw35319]
  • parts of many essential biological processes, structural knowledge of these proteins is necessary for increasing...
  • simDEF

  • Referenced in 1 article [sw34214]
  • genes. Motivation: Measures of protein functional similarity are essential tools for function prediction, evaluation...
  • iMembrane

  • Referenced in 2 articles [sw17379]
  • insertion data are essential in the accurate structural modelling of membrane proteins or the design...
  • SCOP2

  • Referenced in 1 article [sw16875]
  • approach to the classification of proteins that is essentially different from SCOP, but retains ... represented by a region of protein structure and sequence. The new classification project is expected...
  • PROMALS3D

  • Referenced in 3 articles [sw16918]
  • PROMALS3D: Multiple Protein Sequence Alignment Enhanced with Evolutionary and Three-Dimensional Structural Information. Multiple sequence ... alignment (MSA) is an essential tool with many applications in bioinformatics and computational biology. Accurate ... construction for divergent proteins remains a difficult computational task. The constantly increasing protein sequences...
  • Osprey

  • Referenced in 2 articles [sw21400]
  • protein redesign suite that implements our protein design algorithms. OSPREY has been used prospectively, with ... improved flexibility, ensembles, and provability are essential for this application...
  • STING contacts

  • Referenced in 1 article [sw35653]
  • across protein interfaces. Amino acid contacts in terms of atomic interactions are essential factors...
  • iTIS-PseKNC

  • Referenced in 3 articles [sw25196]
  • tuple nucleotides composition. Translation is an essential genetic process for understanding the mechanism of gene ... expression. Due to the large number of protein sequences generated in the post-genomic...
  • TileMap

  • Referenced in 13 articles [sw35530]
  • identify genomic loci that show transcriptional or protein binding patterns of interest. Results ... allows complex multiple sample comparisons that are essential for the study of temporal and spatial...