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Metabolic Pathway Builder 3.8

 

Genostar is pleased to announce many exciting new features in Metabolic Pathway Builder 3.8. With MPB 3.8, you can now centralize, manage and share your results, expanding your knowledge base. See the Integrate your genomes into MicroB section below for details. We’ve also integrated new methods for data analysis and made improvements in the reporting, sharing and data transfer features.

 

Have a look below for a summary and more information about what's new in Metabolic Pathway Builder 3.8!

 

 

  Integrate your genomes into MicroB

  Centralize and manage your results.

  Connect, integrate and save  your genomes. Read more...

 

  Reporting facilities

  New click and copy features for your reports and publications.

  Read more...

 

  Genome annotation

  • Blast databank manager: add and share easily your Blast databanks
  • Additional ways to manually create CDSs
  • Frameshift detection

  Read more...

 

  Comparative analysis

  New task that allows you to detect SNPs and DIPs. Read more...

 

 

  Multiple alignment

  High speed computation of multiple alignments with MAFFT.

  Read more...

 

  Documentation

  How-to documentation is now available in the on-line help. 

  Read more...

 

  Installation

  Take advantage of a new, simple way to specify where your

  personal files will be stored.

  Read more...


 

 

Metabolic Pathway Builder / MicroB

With decreases in the cost of sequencing, the quantity of data being generated and analyzed is increasing rapidly. We’ve made it easier to centralize and manage your results in a traceable way. In addition to drawing on the wealth of data in MicroB for your comparative analyses, you can now connect, integrate and save your analyzed genomes in your dedicated MicroB, augmenting and consolidating your knowledge base. Your data is easy to access, and you can visualize, explore, share and export it anytime.

 

 

 

 

Reporting facilities

Metabolic Pathway Builder 3.8 has new click and copy features for your reports and publications.  We’ve improved the copy features so that you can copy any kind of object or graphical image from your workspace and paste it directly into your favorite programs as text or in Fasta format.

 





Genome annotation

Blast databank manager

We have a new graphical Blast databank manager that enables you to easily add, delete and share Blast databanks.

 

 

Manual CDS creation

Take advantage of additional ways to manually create CDSs: 

  • From specified bounds,
  • Along a whole sequence,
  • From selected features.

 

 

Frameshift detection

GenoAnnot has a new frameshift detection task. Frameshifts can be either a result of mutation or a consequence of sequencing misreads. Some frameshifts generate artificial insertions and deletions of nucleotides. This can lead to errors in predicted protein sequences and compromise analysis of the genome sequence. With the new “Detect Frameshifts” task, you can detect putative frameshift locations in a sequence and visualize them on a map, improving the accuracy of their annotations. The task is based on the comparison of the targeted sequence against a protein database.

 

 

 

Comparative analysis

We’ve added a new task in GenoAnnot that allows you to detect single-nucleotide polymorphisms and deletion-insertion polymorphisms (SNPs and DIPs). When polymorphisms occur in coding regions of DNA sequences, they may change the amino acid sequence of the protein that is produced. Such polymorphisms can be useful in understanding how species develop diseases or respond to drugs, pathogens or other agents. Polymorphisms that occur outside coding regions may have consequences for gene splicing, transcription factor binding or the sequence of non-coding RNA.

 

The Compute SNPs and DIPs tool in GenoAnnot compares a sequence or contigs against a closely related reference sequence and detects single-nucleotide and deletion-insertion polymorphisms.

 

The SNPs and DIPs are easily visualized in a table and can be explored graphically using the genomic viewer.

 

 

PathwayExplorer also includes a new task that enables you to compute homologies between organisms, taking replicons and plasmids into account.

 

 

Multiple alignment

We’ve integrated the MAFFT program into ProteoAnnot for high speed computation of multiple alignments. This complements the ClustalW and Muscle programs already present.

 

 

Data transfer between modules

Data transfer between GenoAnnot and PathwayExplorer has been improved. You can now indicate the type and shape of your replicon.

 

 

 

Documentation

HOW-TO documentation is now available in the on-line help

 

 

 

Installation

Metabolic Pathway Builder provides a new, simple way to specify where your personal files will be stored.

 

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