• HPAM

  • Referenced in 3 articles [sw10931]
  • hybrid promoter analysis methodology for prokaryotic genomes. One of the big challenges of the post ... with cis-acting DNA sequences in the promoter regions of those regulated genes. Therefore, identifying ... genetic networks. We propose a hybrid promoter analysis methodology (HPAM) to discover complex promoter motifs...
  • CONFAC

  • Referenced in 4 articles [sw35535]
  • CONFAC: automated application of comparative genomic promoter analysis to DNA microarray datasets. The advent ... comparative genomics with high-throughput gene expression analysis. Here we describe the conserved transcription factor ... conserved TFBSs that are significantly enriched in promoters of gene clusters from microarray analyses compared ... genes using a Mann–Whitney U-test. Analysis of random gene sets demonstrated that using...
  • Expression Profiler

  • Referenced in 6 articles [sw08351]
  • annotations, such as GeneOntology, and the analysis of promoter sequences for predicting transcription factor binding...
  • iPromoter-2L

  • Referenced in 23 articles [sw24788]
  • following six types the identified promoter belongs to: σ24, σ28, σ32, σ38, σ54 and σ70 ... very useful high throughput tool for genome analysis...
  • ShapeNet

  • Referenced in 8 articles [sw35059]
  • data visualization of object attributes, promote data-driven geometric analysis, and provide a large-scale...
  • iPro54-PseKNC

  • Referenced in 34 articles [sw22411]
  • rapidly and effectively identifying the σ(54) promoters. Here, a predictor called ’iPro54-PseKNC ... also discovered through an in-depth statistical analysis that the distribution of distances between ... physical principle for studying the σ(54) promoters...
  • FROSTT

  • Referenced in 1 article [sw30092]
  • platform of tools to perform analysis. Promote reproducible research. FROSTT provides a globally consistent...
  • CONREAL

  • Referenced in 2 articles [sw18497]
  • predictions of conserved TFBSs in orthologous promoters. Comparative analysis using different algorithms can be started...
  • EXPANDER

  • Referenced in 8 articles [sw30158]
  • genes (including methods suitable for NGS data analysis); Clustering and biclustering; Down-stream enrichment analyses ... functional categories; TF binding sites in promoter regions; MicroRNA sites in 3’-UTRs and; Biological ... pathways and Chromosomal locations; Network-based analysis of the expression data.EXPANDER provides support for analysis...
  • Neuroconductor

  • Referenced in 3 articles [sw31165]
  • repository of R software dedicated to image analysis; disseminate quickly software updates; educate a large ... manual quality controls; and promote reproducibility of image data analysis. Based on the programming language...
  • PromoterExplorer

  • Referenced in 2 articles [sw35524]
  • AdaBoost algorithm. Motivation: Promoter prediction is important for the analysis of gene regulations. Although...
  • ProMoT

  • Referenced in 5 articles [sw02007]
  • manipulation of complex technical and biological systems. ProMoT has its origins in process engineering. Together ... further analysis. For the application in Systems Biology key features of ProMoT are the development...
  • 3WayPack

  • Referenced in 2 articles [sw24056]
  • Company is dedicated to promoting all aspects of the analysis of three-way data...
  • DeBaCl

  • Referenced in 3 articles [sw23572]
  • interactive graphical data analysis. The package is intended to promote the practical use of level...
  • GRID Infoware

  • Referenced in 23 articles [sw04166]
  • Centre (GRID Infoware: http://www.gridcomputing.com) aims to promote the development and advancement of technologies that ... molecular modelling for drug design, brain activity analysis, and high energy physics). This idea...
  • MLPAstats

  • Referenced in 1 article [sw18851]
  • strategy. Conclusions: MLPAstats is an analysis tool that promotes the use of cost-effective MLPA...
  • QGRS mapper

  • Referenced in 2 articles [sw27630]
  • used for the analysis of genomic sequences, e.g. promoter and telomeric regions, as well ... transcribed region of the appropriate gene for analysis...
  • CoMIK

  • Referenced in 1 article [sw35270]
  • scenario of analysis of the promoter sequences, that typically have a transcription start site...
  • ARGO

  • Referenced in 2 articles [sw35519]
  • recognition of tissue-specific gene promoters based on the presence and distribution of oligonucleotide motifs ... ARGO_Motifs program. Analysis and recognition of tissue-specific promoters in five gene samples demonstrated...
  • Seeder

  • Referenced in 2 articles [sw35336]
  • prediction of cis-regulatory elements in eukaryotic promoters. The algorithm is tested on biological benchmark ... applied to the analysis of plant tissue-specific promoter sequences and successfully identifies key regulatory...