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 Experiment Videos

KBERG: KnowledgeBase for Estrogen Responsive Genes.

Suisheng Tang1, Zhuo Zhang, Sin Lam Tan

  • 1Institute for Infocomm Research, 21 Heng Mui Keng Terrace, Singapore 119613. suisheng@i2r.a-star.edu.sg

Nucleic Acids Research
|November 9, 2006
PubMed
Summary
This summary is machine-generated.

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

Large-scale genomic surveillance reveals immunosuppression drives mutation dynamics in persistent SARS-CoV-2 infections.

Nature communications·2026
Same author

Risk factors and blood biomarker profiles of children diagnosed with cerebral palsy in a Danish cohort of preterm newborns.

Early human development·2026
Same author

How benchmarking of bioinformatics tools is essential for informed workflow selection: a case study on SARS-CoV-2 subgenomic RNA detection.

Frontiers in bioinformatics·2026
Same author

BIGH3 is a mediator of TGFβ-Induced collagen formation in fibrosis and pancreatic cancer and a potential therapeutic target.

Scientific reports·2025
Same author

High-resolution epidemiological landscape from  ~290,000 SARS-CoV-2 genomes from Denmark.

Nature communications·2024
Same author

Variations in the persistence of 5'-end genomic and subgenomic SARS-CoV-2 RNAs in wastewater from aircraft, airports and wastewater treatment plants.

Heliyon·2024
Same journal

Correction to 'New origin firing is inhibited by APC/CCdh1 activation in S-phase after severe replication stress'.

Nucleic acids research·2026
Same journal

VeloRM: disentangling pre- and post-splicing RNA modification dynamics at single-cell resolution.

Nucleic acids research·2026
Same journal

Accessibility of telomeric overhangs to stabilizing small-molecule ligands.

Nucleic acids research·2026
Same journal

Multivalent interactions mediate SNAIL transcription factor stimulation of the nucleosome deacetylase activity of the CoREST complex.

Nucleic acids research·2026
Same journal

Genome-wide mapping of DNA G-quadruplexes in Trypanosoma brucei chromatin reveals enrichment in coding regions and transcription start sites.

Nucleic acids research·2026
Same journal

Correction to 'The Gene Ontology knowledgebase in 2026'.

Nucleic acids research·2026
See all related articles

We developed the KnowledgeBase for Estrogen Responsive Genes (KBERG) to understand how estrogen affects gene transcription. KBERG analyzes conserved promoter motifs and gene ontology to explore estrogen-responsive genes.

Area of Science:

  • Genomics
  • Molecular Biology
  • Bioinformatics

Background:

  • Estrogen significantly influences human physiology by regulating the transcription of numerous genes.
  • Understanding the functional characteristics of these estrogen-responsive genes is crucial for deciphering estrogen's biological roles.

Purpose of the Study:

  • To develop a comprehensive database, KBERG, for exploring estrogen-responsive genes.
  • To investigate transcription regulation mechanisms of estrogen-responsive genes through conserved promoter motifs.
  • To facilitate functional annotation and exploration of these genes.

Main Methods:

  • Derived genes from the Estrogen Responsive Gene Database (ERGDB).
  • Identified conserved promoter motifs in orthologous genes (human, mouse, rat) using ab initio discovery within [-1200, +500] regions.

Related Experiment Videos

  • Linked motifs to transcription factor binding sites via the TRANSFAC database.
  • Integrated Gene Ontology (GO) and eVOC for functional and co-expression analysis.

    • Main Results:

    • KBERG integrates gene information, conserved promoter motifs, transcription factor binding sites, and functional annotations (GO, eVOC).
    • The system facilitates the exploration of gene co-expression patterns using human EST libraries.
    • Identified conserved cis-elements in promoter regions reflect evolutionary sequence preservation.

    Conclusions:

    • KBERG provides a user-friendly platform for the functional exploration and annotation of estrogen-responsive genes.
    • The database links to multiple external resources, enhancing its utility for researchers.
    • Analysis of conserved motifs offers insights into the transcriptional regulation of estrogen-affected genes.