Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Concept Videos

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

Complete genome sequence of multidrug-resistant <i>Edwardsiella ictaluri</i> A21-00102 isolated from channel catfish (<i>Ictalurus punctatus</i>) in the United States.

Microbiology resource announcements·2026
Same author

Hi-C Metagenome Deconvolution of Double-Crested Cormorant (<i>Nannopterum auritum</i>) Fecal Samples Demonstrates Feasibility of Linking Microbial Genomes, AMR Genes, and Mobile Elements in Avian Microbiomes.

Microorganisms·2026
Same author

Firecracker-induced air pollution and health burden during Diwali: ground and satellite assessment across 14 cities of The Indo-Gangetic Basin.

Scientific reports·2026
Same author

Recombinant TadZ from the type IVc pilus system induces protective immunity against virulent <i>Aeromonas hydrophila</i> in channel catfish (<i>Ictalurus punctatus</i>).

Frontiers in immunology·2026
Same author

Advancements in biochar nanocomposites: multifunctional platforms for sustainable energy storage and conversions.

Nanoscale advances·2026
Same author

Efficacy of distress tolerance techniques of dialectical behavior therapy in persons with obsessive-compulsive disorder: a study protocol for a randomized controlled trial.

Trials·2026
Same journal

Real-time Targeted Enrichment in Single-cell Long-read Sequencing.

Genomics, proteomics & bioinformatics·2026
Same journal

Decoding RNA N6-Methyladenosine Methylome of Wheat Using Machine Learning and Nanopore Direct RNA Sequencing.

Genomics, proteomics & bioinformatics·2026
Same journal

Tranquillyzer: A Neural Network Framework for Long-read Annotation and Demultiplexing.

Genomics, proteomics & bioinformatics·2026
Same journal

Advancing Functional Transcriptomics in Zebrafish with High-accuracy Full-length RNA Sequencing.

Genomics, proteomics & bioinformatics·2026
Same journal

NanoRAPID: A Deep Learning-based Framework for Single-molecule RNA Structure Analysis Using Nanopore Direct RNA Sequencing.

Genomics, proteomics & bioinformatics·2026
Same journal

Single-cell Multiomic and Spatiotemporal Dissection of the Liver Circadian Clock.

Genomics, proteomics & bioinformatics·2026
See all related articles

Related Experiment Video

Updated: Jun 1, 2026

Translating Ribosome Affinity Purification (TRAP) to Investigate Arabidopsis thaliana Root Development at a Cell Type-Specific Scale
09:41

Translating Ribosome Affinity Purification (TRAP) to Investigate Arabidopsis thaliana Root Development at a Cell Type-Specific Scale

Published on: May 14, 2020

TAAPP: Tiling Array Analysis Pipeline for Prokaryotes.

Ranjit Kumar1, Shane C Burgess, Mark L Lawrence

  • 1College of Veterinary Medicine, Mississippi State University, MS 39762, USA. rkumar@cvm.msstate.edu

Genomics, Proteomics & Bioinformatics
|June 7, 2011
PubMed
Summary
This summary is machine-generated.

TAAPP is a new web-based tool for analyzing prokaryotic tiling array data. It helps identify novel RNA elements and gene structures, advancing microbial genome annotation.

More Related Videos

A Fast and Reliable Pipeline for Bacterial Transcriptome Analysis Case study: Serine-dependent Gene Regulation in Streptococcus pneumoniae
10:18

A Fast and Reliable Pipeline for Bacterial Transcriptome Analysis Case study: Serine-dependent Gene Regulation in Streptococcus pneumoniae

Published on: April 25, 2015

Metabolic Labeling and Profiling of Transfer RNAs Using Macroarrays
10:56

Metabolic Labeling and Profiling of Transfer RNAs Using Macroarrays

Published on: January 16, 2018

Related Experiment Videos

Last Updated: Jun 1, 2026

Translating Ribosome Affinity Purification (TRAP) to Investigate Arabidopsis thaliana Root Development at a Cell Type-Specific Scale
09:41

Translating Ribosome Affinity Purification (TRAP) to Investigate Arabidopsis thaliana Root Development at a Cell Type-Specific Scale

Published on: May 14, 2020

A Fast and Reliable Pipeline for Bacterial Transcriptome Analysis Case study: Serine-dependent Gene Regulation in Streptococcus pneumoniae
10:18

A Fast and Reliable Pipeline for Bacterial Transcriptome Analysis Case study: Serine-dependent Gene Regulation in Streptococcus pneumoniae

Published on: April 25, 2015

Metabolic Labeling and Profiling of Transfer RNAs Using Macroarrays
10:56

Metabolic Labeling and Profiling of Transfer RNAs Using Macroarrays

Published on: January 16, 2018

Area of Science:

  • Genomics
  • Bioinformatics
  • Molecular Biology

Background:

  • High-density tiling arrays offer high-resolution genome-wide transcription analysis.
  • Existing eukaryotic-focused tools are inadequate for prokaryotic genome architecture and novel element identification.
  • Automated analysis is crucial for leveraging tiling array data in prokaryotic research.

Purpose of the Study:

  • To develop and present TAAPP, a customized, web-based analysis package for prokaryotic tiling array data.
  • To enable the identification and annotation of novel transcriptional elements in prokaryotes.
  • To provide a user-friendly platform for microbial genome annotation and gene expression studies.

Main Methods:

  • Developed TAAPP, a two-module web package for prokaryotic tiling array analysis.
  • Module 1: Transcript generation of transcriptionally active regions (TARs) from normalized data.
  • Module 2: Feature extraction and annotation of TARs, categorizing novel RNAs and operon structures.

Main Results:

  • TAAPP successfully processes normalized tiling array data to identify transcriptionally active regions (TARs).
  • The package accurately maps TARs to existing prokaryotic genome annotations.
  • TAAPP categorizes transcription profiles, revealing potential novel non-coding RNA, antisense RNA, and operon structures.

Conclusions:

  • TAAPP provides a tailored, automated solution for prokaryotic tiling array data analysis.
  • The web-based package facilitates the discovery of novel transcriptional elements in prokaryotic genomes.
  • TAAPP is a valuable, platform-independent resource for microbial genomics and functional annotation.