• iRSpot-EL

  • Referenced in 29 articles [sw24776]
  • pseudo K-tuple nucleotide composition and mode of dinucleotide-based auto-cross covariance into...
  • iPromoter-2L

  • Referenced in 22 articles [sw24788]
  • using the multi-window-based PseKNC (pseudo K-tuple nucleotide composition) approach to incorporate...
  • iNuc-PseKNC

  • Referenced in 31 articles [sw16607]
  • based predictor for predicting nucleosome positioning in genomes with pseudo k-tuple nucleotide composition. Motivation...
  • iPro54-PseKNC

  • Referenced in 32 articles [sw22411]
  • based predictor for identifying sigma-54 promoters in prokaryote with pseudo k-tuple nucleotide composition...
  • iDHS-EL

  • Referenced in 10 articles [sw22426]
  • fusing three different modes of pseudo nucleotide composition into an ensemble learning framework. MOTIVATION: Regulatory ... respectively based on the three special modes of the general pseudo nucleotide composition (PseKNC...
  • SigHunt

  • Referenced in 1 article [sw30007]
  • present a surrogate method that investigates nucleotide base composition of the DNA sequence...
  • iEnhancer-EL

  • Referenced in 11 articles [sw27668]
  • Machine) based on kmer, subsequence profile and PseKNC (Pseudo K-tuple Nucleotide Composition), respectively. Rigorous...
  • iRNA-AI

  • Referenced in 26 articles [sw24437]
  • developed to address such an important problem based on the RNA sequence information alone ... incorporating the chemical properties of nucleotides and their sliding occurrence density distribution along ... into the general form of pseudo nucleotide composition (PseKNC). It has been shown...
  • iLoc-lncRNA

  • Referenced in 8 articles [sw30465]
  • incorporating octamer composition into general PseKNC. Results: We developed a sequence-based bioinformatics tool called ... tuple nucleotide features into the general PseKNC (Pseudo K-tuple Nucleotide Composition) via the binomial...
  • iROS-gPseKNC

  • Referenced in 8 articles [sw25363]
  • position-specific propensity into general pseudo nucleotide composition. DNA replication, occurring in all living organisms ... throughput tools to identify these regions purely based on the sequence information alone. In this ... propensity information into the general pseudo nucleotide composition and using the random forest classifier...
  • iRSpot-Pse6NC

  • Referenced in 13 articles [sw27677]
  • spots in Saccharomyces cerevisiae by incorporating hexamer composition into general PseKNC. Meiotic recombination caused ... samples with a same length (131 bp). Based on such a foundation and using ... general PseKNC (Pseudo K-tuple Nucleotide Composition) via the binomial distribution approach. It has been...
  • repDNA

  • Referenced in 12 articles [sw16473]
  • third group calculates six pseudo nucleotide composition features, which can be used to represent ... addition, these features can be easily calculated based on both the built-in and user...
  • PairClone

  • Referenced in 3 articles [sw30712]
  • based on mutation pairs. Tumour cell populations can be thought of as a composition ... being characterized by overlapping sets of single‐nucleotide variants. Such subpopulations are known as subclones...
  • PseUI

  • Referenced in 1 article [sw40020]
  • PseUI: Pseudouridine sites identification based on RNA sequence information. Results: In this study, we developed ... five different kinds of features including nucleotide composition (NC), dinucleotide composition (DC), pseudo dinucleotide composition ... position-specific dinucleotide propensity (PSDP) were generated based on RNA segments. Then, a sequential forward...
  • MEGA4

  • Referenced in 7 articles [sw07695]
  • generated. Another new feature is the Maximum Composite Likelihood (MCL) method for estimating evolutionary distances ... used to estimate transition/transversion bias and nucleotide substitution pattern without knowledge of the phylogenetic tree ... Wine compatibility layer) and on Intel-based Macintosh computers under the Parallels program. The current...
  • RAMPred

  • Referenced in 1 article [sw40019]
  • experimental methods, a support vector machine based-method called RAMPred is proposed to identify ... encoded by using nucleotide chemical property and nucleotide compositions. RAMPred achieves promising performances in jackknife ... convenience of experimental scientists, a web-server based on the proposed model was constructed...
  • QGRS mapper

  • Referenced in 2 articles [sw27630]
  • composition and distribution of putative Quadruplex forming G-Rich Sequences (QGRS) in nucleotide sequences ... spliced or alternatively polyadenylated). QGRS Mapper is based on published algorithms for recognition and mapping ... Mapper program maps QGRS in the entire nucleotide sequence provided in the raw or FASTA ... sites. In addition to providing data on composition and locations of QGRS relative...
  • iTerm-PseKNC

  • Referenced in 1 article [sw40053]
  • developed a new predictor called ‘iTerm-PseKNC’ based on support vector machine to identify transcription ... subset derived from pseudo k-tuple nucleotide composition (PseKNC). The 5-fold cross-validation test...
  • i4mC-Mouse

  • Referenced in 1 article [sw40033]
  • KSNC), k-mer nucleotide composition (Kmer), mono nucleotide binary encoding (MBE), dinucleotide binary encoding, electron ... interaction pseudo potentials (EIIP) and dinucleotide physicochemical composition were explored that cover different characteristics ... sequence information. Subsequently, we built six RF-based encoding models and then linearly combined their...
  • rpiCOOL

  • Referenced in 0 articles [sw34163]
  • learning method to detect RNA–protein interactions based on sequence information. We used motif information ... protein interactions, in combination with sequence composition as descriptors to build a model ... About 20% of the “sequence motifs” and “nucleotide composition” features have been selected...