• AFP-Pred

  • Referenced in 24 articles [sw22441]
  • random forest approach for predicting antifreeze proteins from sequence-derived properties. Some creatures living ... search methods often fails to predict AFPs from sequence databases. In this work, we report ... Pred” for the prediction of antifreeze proteins from protein sequence. AFP-Pred was trained ... compared with BLAST and HMM. High prediction accuracy and successful of prediction of hypothetical proteins...
  • Signal-CF

  • Referenced in 29 articles [sw26854]
  • developed an automated method for predicting signal peptide sequences and their cleavage sites in eukaryotic ... bacterial protein sequences. It is a 2-layer predictor: the 1st-layer prediction engine ... automatically continued with the 2nd-layer prediction engine to further identify the cleavage site ... subsite coupling effects along a protein sequence and by fusing the results derived from many...
  • iNuc-PseKNC

  • Referenced in 31 articles [sw16607]
  • iNuc-PseKNC: a sequence-based predictor for predicting nucleosome positioning in genomes with pseudo ... cellular processes. With the avalanche of genome sequences generated in the post-genomic ... sequence. Results: Here a predictor called ‘iNuc-PseKNC’ was developed for predicting nucleosome positioning ... predictor, the samples of DNA sequences were formulated by a novel feature-vector called ‘pseudo...
  • PSIPRED

  • Referenced in 14 articles [sw11340]
  • users to submit a protein sequence, perform a prediction of their choice and receive ... select one of three prediction methods to apply to their sequence: PSIPRED, a highly accurate ... widely used transmembrane topology prediction method; or GenTHREADER, a sequence profile based fold recognition method...
  • Kalign

  • Referenced in 13 articles [sw13194]
  • accurate alignment of very large numbers of sequences. The accuracy of Kalign2 compares well ... potential of using known or predicted sequence annotation to improve the alignment accuracy. Kalign2...
  • Signal-3L

  • Referenced in 16 articles [sw26857]
  • Signal-3L: a 3-layer approach for predicting signal peptide. Functioning as an ”address ... protein. With the avalanche of new protein sequences generated in the post-genomic ... developed a novel method for predicting signal peptide sequences and their cleavage sites in human ... sequences, respectively. The new predictor is called Signal-3L that consists of three prediction engines...
  • PseAAC-General

  • Referenced in 16 articles [sw22430]
  • been widely used to represent protein sequences in predicting protein structural and functional attributes...
  • SCPRED

  • Referenced in 6 articles [sw26876]
  • sequences of twilight-zone similarity with predicting sequences. Background: Protein structure prediction methods provide accurate ... propose SCPRED method that improves prediction accuracy for sequences that share twilight-zone pairwise similarity ... with sequences used for the prediction. Results: SCPRED uses a support vector machine classifier that ... that share low identity with sequence used for the prediction. The high predictive accuracy achieved...
  • FoldRate

  • Referenced in 15 articles [sw35301]
  • Server for Predicting Protein Folding Rates from Primary Sequence. With the avalanche of gene products ... between newly found protein sequences and the knowledge of their 3D (three dimensional) structures ... predict the folding rates of proteins based on their amino acid sequence information alone ... however, need both the sequence and 3D structure information for predicting the folding rate...
  • pLoc-mPlant

  • Referenced in 27 articles [sw25191]
  • plant protein subcellular location prediction based on the sequence information alone. Although considerable efforts have ... state-of-the-art method for predicting plant protein subcellular localization. To maximize the convenience...
  • miRBase

  • Referenced in 23 articles [sw14367]
  • Each entry in the miRBase Sequence database represents a predicted hairpin portion of a miRNA ... database), with information on the location and sequence of the mature miRNA sequence (termed...
  • CONTRAfold

  • Referenced in 8 articles [sw17117]
  • dominant strategy for single sequence RNA secondary structure prediction. More recently, stochastic context-free grammars ... models. CONTRAfold is a novel secondary structure prediction method based on conditional log-linear models ... models, CONTRAfold achieves the highest single sequence prediction accuracies to date, outperforming currently available probabilistic...
  • LSTM

  • Referenced in 24 articles [sw03373]
  • algorithms to map input sequences to output sequences, with or without a teacher. They ... vision, protein analysis, stock market prediction, and many other sequence problems...
  • iRNA-PseU

  • Referenced in 19 articles [sw27659]
  • approaches: For an uncharacterized RNA sequence, can we predict which of its uridine sites...
  • GPCR-CA

  • Referenced in 35 articles [sw25949]
  • predicting G-protein-coupled receptor functional classes. Given an uncharacterized protein sequence ... piles of long and complicated protein sequences. Meanwhile, the gray-level co-occurrence matrix factors ... layer predictor: the first layer prediction engine is for identifying a query protein as GPCR ... automatically continued with the second-layer prediction engine to further identify its type among...
  • iPhos-PseEvo

  • Referenced in 17 articles [sw23953]
  • modification. Given an uncharacterized protein sequence, can we predict whether it may be phosphorylated ... iPhos-PseEvo by (1) incorporating the protein sequence evolutionary information into the general pseudo amino...
  • pLoc-mHum

  • Referenced in 21 articles [sw27661]
  • human protein subcellular location prediction based on the sequence information alone. Although considerable efforts have ... state-of-the-art method in predicting the human protein subcellular localization. Availability and implementation...
  • MultiLoc

  • Referenced in 11 articles [sw35402]
  • MultiLoc: prediction of protein subcellular localization using N-terminal targeting sequences, sequence motifs and amino ... proteomics. A key annotation is the prediction of a protein’s subcellular localization. Numerous prediction ... based approach for predicting subcellular localization, which integrates N-terminal targeting sequences, amino acid composition ... this approach improves the prediction based on N-terminal targeting sequences, by comparing our method...
  • iPromoter-2L

  • Referenced in 22 articles [sw24788]
  • avalanche of DNA sequences discovered in the postgenomic age. Although some prediction methods were developed ... promoters may share quite similar consensus sequence pattern, and that the promoters of same type ... sequence as a promoter or non-promoter, and the second layer to predict which...
  • iEzy-drug

  • Referenced in 15 articles [sw22455]
  • physicochemical features derived from its sequence, and the prediction engine was operated by the fuzzy...