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BioInform s Surfing Report: Web-Based Tools at Computational Genomics


Argo, from the Broad Institute, is a tool for visualizing and manually annotating whole genomes:

BOX-C (Blast Organism Cross-Comparison), from Hiram College, is a sequence gap closure method that aligns contigs through comparison to the NCBI non-redundant database:

Chisel, from Argonne National Laboratory, clusters protein sequences that are closely related in terms of homology and function:

MaGe (Magnifying Genomes), from Genoscope, is a software system for computational and manual microbial genome annotation:

MANATEE (Manual Annotation Tool, Etc., Etc.), from TIGR, genome annotation tool that can view, modify, and store annotation for prokaryotic and eukaryotic genomes:

PASA (Program to Assemble Sliced Alignments), from TIGR, is an automated system for genome annotation:

Pathema, from TIGR, is a pathogen database funded by the NIAID’s BRC program:

Picky, from Iowa State University, is an oligo microarray design program that identifies probes that are unique and specific to input sequences:

Puma2, from Argonne National Laboratory, is an updated version of ANL’s Puma database and bioinformatics suite for comparative analysis of genomes and metabolic networks (still in beta):

SNP-PHAGE (Single Nucleotide Polymorphism Discovery Pipeline for Haplotype Analysis and Genbank Submissions), from USDA, is a tool for polymorphism discovery:

WebGestalt, from Oak Ridge National Laboratory, is a genomic analysis toolkit that incorporates information from different public resources:

Filed under

The Scan

More Boosters for US

Following US Food and Drug Administration authorization, the Centers for Disease Control and Prevention has endorsed booster doses of the Moderna and Johnson & Johnson SARS-CoV-2 vaccines, the Washington Post writes.

From a Pig

A genetically modified pig kidney was transplanted into a human without triggering an immune response, Reuters reports.

For Privacy's Sake

Wired reports that more US states are passing genetic privacy laws.

Science Paper on How Poaching Drove Evolution in African Elephants

In Science this week: poaching has led to the rapid evolution of tuskless African elephants.