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

Sputnik: a database platform for comparative plant genomics.

Stephen Rudd1, Hans-Werner Mewes, Klaus F X Mayer

  • 1Institute for Bioinformatics (MIPS), GSF National Research Center for Environment and Health, Ingolstädter Landstrasse 1, 85764 Neuherberg, Germany. s.rudd@gsf.de

Nucleic Acids Research
|January 10, 2003
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

Extensive variation between chromosomes of North American and European hop.

Nature communications·2026
Same author

Under salt stress, quinoa stomatal guard cells control transpiration in an ABA-primed manner.

The New phytologist·2025
Same author

Author Correction: A pangenome and pantranscriptome of hexaploid oat.

Nature·2025
Same author

Whole-genome resequencing of the wild barley diversity collection: a resource for identifying and exploiting genetic variation for cultivated barley improvement.

G3 (Bethesda, Md.)·2025
Same author

A pangenome and pantranscriptome of hexaploid oat.

Nature·2025
Same author

De novo annotation reveals transcriptomic complexity across the hexaploid wheat pan-genome.

Nature communications·2025
Same journal

Correction to 'scSuperAnnotator: A platform for benchmarking comparison and visualizing automated cellular annotation methods for scRNA-seq data'.

Nucleic acids research·2026
Same journal

Correction to 'Differentiable partition function calculation for RNA'.

Nucleic acids research·2026
Same journal

Deployment of non-canonical splicing in tunicate genomes is mediated by divergent U2AF function and changing m6A modification in U1 and U6 snRNA.

Nucleic acids research·2026
Same journal

Bacillus subtilis DnaB forms multiple protein-protein interactions essential for DNA replication initiation.

Nucleic acids research·2026
Same journal

Multiple forms of protein-protein and DNA binding are exhibited by BrxC from the BREX phage restriction system.

Nucleic acids research·2026
Same journal

Biosynthesis of glycosylated 5-hydroxycytosine in the DNA of diverse viruses.

Nucleic acids research·2026
See all related articles

Sputnik provides a valuable transcriptomic resource for plant genomics by analyzing two million plant expressed sequence tags (ESTs). This platform aids in comparative genomics for unsequenced plant genomes.

Area of Science:

  • Genomics
  • Bioinformatics

Background:

  • A vast resource of two million plant expressed sequence tags (ESTs) from 20 species, totaling over 1000 Mbp, is available.
  • Significant information gaps exist for unsequenced plant genomes.

Purpose of the Study:

  • To leverage the plant EST resource for comparative genomics.
  • To address the information gap in unsequenced plant genomes.

Main Methods:

  • Optimized EST clustering techniques were employed to reduce the complexity of individual EST collections.
  • Annotation involved transferring information from the Arabidopsis thaliana knowledgebase and performing advanced sequence analyses.
  • Functional predictions, comparative analyses, and associative annotations were generated for 500,000 EST-derived peptides.

Related Experiment Videos

Main Results:

  • The Sputnik platform was established using a large-scale plant EST dataset.
  • Information was successfully transferred and analyzed to annotate EST-derived peptides.
  • Functional predictions and comparative analyses were performed.

Conclusions:

  • Sputnik serves as a foundational platform for in silico comparative plant genomics.
  • The resource aids in understanding plant genomes, particularly those not yet fully sequenced.
  • It provides valuable insights for contemporary plant biologists.