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Blast2GO poster exhibited at ECCB 2018

BioBam Bioinformatics attended the 17th European Conference on Computational Biology (ECCB) in Athens, Greece. It is the main computational biology event in Europe and congregates scientists working in a variety of disciplines, including bioinformatics, computational biology, biotechnology, medicine, and systems biology. We presented all the new features developed, during the last month, in Blast2GO:

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quality check

NGS Preprocessing and Quality Control: How-To with OmicsBox

Functional genomics attempts to describe the functions of genes and proteins by making use of data derived from genomic and transcriptomic experiments. Some bioinformatics tools, like OmicsBox, offers biologists to get from raw NGS data through all steps up to the generation of biological insights for a species without any previous genome resources. The bioinformatic process to perform a de

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Gene expression profiling in fresh-water colonial green alga Volvox carteri

Blast2GO Supported Project. Researchers: Mrs.Soulmaz Ekhtari Teachers: Dr. Jafar Razeghi, Dr. Karim Hasanpur, and Dr. Arash Kianianmomeni Background and Project Overview: The evolutionary origin of some multicellular organisms has not yet been completely studied. A clear characteristic of complex multicellular organisms is germ-soma differentiation. The monophyletic group of volvocine contains multiple algae species ranging from unicellular species such as Chlamydomonas reinhardtii

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new version 5

Release Version 5.2

(Release Date: 02/08/2018) We are happy to announce that Blast2GO 5.2 has now been released. This update makes our bioinformatics tool for straightforward functional genomics even better.Read below to learn which features and improvements are part of this release. Main features: Venn Diagrams that are fully customizable and allows multiple list comparisons FastQ Pre-Processing (Adapters, Quality, Length) with multiple trimming options.

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Sarocladium oryzae

De novo genome assembly and annotation of sheath rot fungus Sarocladium oryzae with Blast2GO

This project reproduces a study carried out by Hittalmani S. et al. in 2016 about the S. oryzae fungus which causes sheath rot of rice. We used Blast2GO for the main analysis steps like the structural and functional annotation and analysis. (Original research paper: https://doi.org/10.1186/s12864-016-2599-0) 1.  Introduction Sheath rot disease caused by S. oryzae is an emerging threat to rice

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How to create analysis workflows

OmicsBox/Blast2GO provides an interface to create, edit and run workflows based on the Common Workflow Language (CWL) specification. This interface allows to describe all analysis steps using the functions and tools offered by Blast2GO and connect them to perform a complete analysis in a single run.  This video shows step-by-step how to create a workflow from scratch, define the input

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Expression Estimation at Transcript-Level

The Transcript-level Quantification feature of OmicsBox/Blast2GO allows quantifying the gene and isoform expression of RNA-seq datasets. This video shows step-by-step how to create a count table of aligned sequencing reads and explains in detail the different concepts of expression quantification at transcript level. The application is based on the RSEM software package, which assigns reads to the isoforms they came

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