• iPPI-Esml

  • Referenced in 26 articles [sw22413]
  • transforms derived from the numerical series along a protein chain. The operation engine...
  • Cell-PLoc

  • Referenced in 90 articles [sw09126]
  • positive bacterial, Gram-negative bacterial and viral proteins, respectively. Using these Web servers ... high expected accuracy, as demonstrated by a series of cross-validation tests on the benchmark ... sites and in which none of the proteins included had greater than or equal to25...
  • Hum-PLoc

  • Referenced in 24 articles [sw26863]
  • predicting subcellular locations of proteins are actually buried into a series of tedious GO numbers...
  • iMethyl-PseAAC

  • Referenced in 21 articles [sw22443]
  • Acid Composition Approach. Before becoming the native proteins during the biosynthesis, their polypeptide chains created ... ribosome’s translating mRNA will undergo a series of “product-forming” steps, such as cutting ... posttranslational modification (PTM). Knowledge of PTMs in proteins is crucial for dynamic proteome analysis...
  • AGGRESCAN

  • Referenced in 3 articles [sw22400]
  • algorithm is shown to identify a series of protein fragments involved in the aggregation...
  • ANIMO

  • Referenced in 2 articles [sw29381]
  • fitting them to experimental time series of protein activity data...
  • pSuc-Lys

  • Referenced in 31 articles [sw16643]
  • facing a challenging problem: for an uncharacterized protein sequence having many Lys residues therein, which ... constructing an ensemble predictor by fusing a series of individual random forest classifiers. Rigorous cross...
  • ProtorP

  • Referenced in 2 articles [sw35300]
  • server calculates a series of physical and chemical parameters of the protein interaction sites that...
  • GENeVis

  • Referenced in 2 articles [sw06743]
  • series data in a gene regulatory network context. This is a network of regulator proteins ... visualization, and visual comparison of multiple time series in one view. Various interaction mechanisms, such ... between present biological interpretation of time series experiments, performed on a gene-by-gene basis ... genes whose expression is regulated by regulator proteins...
  • iNR-PhysChem

  • Referenced in 8 articles [sw26878]
  • predictor called iNR-PhysChem in which the protein samples were expressed by a novel mode ... from a physical-chemical matrix via a series of auto-covariance and cross-covariance transformations ... stringent benchmark dataset in which none of protein sequences included has ≥60% pairwise sequence identity...
  • Prnam-PC

  • Referenced in 18 articles [sw22422]
  • PTLM (post-translational modification) in proteins, PTCM (post-transcriptional modification) in RNA plays very important ... from a physical-chemical matrix via a series of auto-covariance and cross covariance transformations...
  • MSMBuilder

  • Referenced in 2 articles [sw23802]
  • building statistical models of high-dimensional time-series data. It is designed with a particular ... atomistic simulations of biomolecular dynamics such as protein folding and conformational change. MSMBuilder is named ... package includes complementary algorithms for understanding time-series data such as hidden Markov models...
  • PSNO

  • Referenced in 6 articles [sw27678]
  • dysregulation of SNO leads to a series of severe diseases, such as developmental abnormalities ... PSNO, is proposed to identify SNOs from protein sequences. Firstly, we explore various promising sequence...
  • MIND-BEST

  • Referenced in 2 articles [sw17005]
  • Inhibitors and Theoretical−Experimental Study of G3PDH Protein from Trichomonas gallinae. We developed ... accuracy of 94.4%/94.9% for training/validation series. We illustrate the use of this server ... server to study different peptides of proteins present in proteome of human parasite Trichomonas gallinae...
  • POODLE-I

  • Referenced in 1 article [sw16914]
  • Series and Structural Information Predictors Based on a Workflow Approach. Under physiological conditions, many proteins...
  • tigre

  • Referenced in 1 article [sw36163]
  • models for analysis of gene expression time series from single input motif networks. The package ... used for inferring unobserved transcription factor (TF) protein concentrations from expression measurements of known target...
  • Pinnacle

  • Referenced in 5 articles [sw35328]
  • reproducible methods for detecting, matching and quantifying protein spots. The most commonly used approaches involve ... results in no missing data. Using dilution series for validation, we demonstrate Pinnacle outperformed ... that are adequately powered to find important protein expression differences. Availability: Matlab code to implement...
  • AlignNemo

  • Referenced in 0 articles [sw34159]
  • local topology of the networks beyond the proteins directly interacting with the current solution ... performance of AlignNemo, we ran a series of benchmarks using statistical measures as well ... biological knowledge. Based on reference datasets of protein complexes, AlignNemo shows better performance than other...
  • OXBench

  • Referenced in 7 articles [sw22988]
  • reference alignments derived from the comparison of protein three-dimensional structures together with evaluation measures ... score matrix was replaced by a BLOSUM series matrix. AMPS gave an accuracy in Structurally...
  • WIWS

  • Referenced in 1 article [sw20958]
  • here a collection of WHAT IF-based protein structure bioinformatics web services: these relate ... hydrogens and optimizing hydrogen bonds and a series of geometric calculations. The freely accessible...