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Magnetars are neutron stars with the strongest-known magnetic fields, with up to a thousand times the intensity of typical neutron stars and up to 10 trillion times the strength of a refrigerator magnet. Modest disturbances to the magnetic field can cause magnetars to erupt with sporadic X-ray bursts for weeks or longer.

This approach screens two proteins against all nucleotide sequences from the NCBI nucleotide sequence database (NCBI NT) within hours on our cluster, which leads to the identification of all organisms with an interesting gene structure for further investigation. As usual in Galaxy workflows, every parameter, including the proximity distance, can be changed and additional steps can be easily added. For example, additional filtering to refine the initial BLAST hits, or inclusion of a third query sequence, can be added. Identifying novel proteins Galaxy Tool Shed Repository “Filter sequences by ID”: https://toolshed.g2.bx.psu.edu/view/peterjc/seq_filter_by_id/ Identification and analysis of gene clusters is an important task in synthetic biology [ 26, 27]. Unfortunately, identifying candidate gene clusters is complex and can take hours for a single genome. However, with prior knowledge about the expected genes in a cluster, the genome can be screened in a way that limits the search space dramatically. Protein BLAST database”: MadLandDB (Genome zoo) plant and algal genomes with a focus on non-seed plants and streptophyte algae (22 Dec 2022)The ionosphere, which helps protect life on Earth by absorbing harmful ultraviolet rays from the sun, is highly sensitive to changing magnetic and electrical conditions in space, usually connected to solar activity. It also expands and contracts in response to solar radiation. Marchler-Bauer A, Lu S, Anderson JB, Chitsaz F, Derbyshire MK, DeWeese-Scott C, et al. CDD: a Conserved Domain Database for the functional annotation of proteins. Nucleic Acids Res. 2011;39 suppl 1:D225–9.

The IPN placed the April 15 burst, called GRB 200415A, squarely in the central region of NGC 253, a bright spiral galaxy located about 11.4 million light-years away in the constellation Sculptor. This is the most precise sky position yet determined for a magnetar located beyond the Large Magellanic Cloud, a satellite of our galaxy and host to a giant flare in 1979, the first ever detected. Afgan E, Baker D, Coraor N, Chapman B, Nekrutenko A, Taylor J. Galaxy CloudMan: delivering cloud compute clusters. BMC Bioinformatics. 2010;11 Suppl 12:S4. Delcher AL, Bratke KA, Powers EC, Salzberg SL. Identifying bacterial genes and endosymbiont DNA with Glimmer. Bioinformatics. 2007;23(6):673–9. A detailed analysis of data from Fermi’s Gamma-ray Burst Monitor (GBM) and Swift’s BAT provides strong evidence that the April 15 event was unlike any burst associated with mergers, noted Oliver Roberts, an associate scientist at Universities Space Research Association’s Science and Technology Institute in Huntsville, Alabama, who led the study. Galaxy Tool Shed Repository “blast_top_hit_species”: https://toolshed.g2.bx.psu.edu/view/peterjc/blast_top_hit_species/The difference between your typical gamma-ray burst and this one is about the same as the difference between the light bulb in your living room and the lit-up floodlights in a sports stadium,” says Andrew Levan, Radbound University, the Netherlands, who used the NASA/ESA/CSA James Webb Space Telescope and the NASA/ESA Hubble Space Telescope to observe the burst.

Some tools we describe were written from scratch as new Python scripts, rather than as a wrapper for an existing tool. One example in this manuscript reproduces three published methods for oomycete effector RXLR motif prediction ( Bhattacharjee et al., 2006; Win et al., 2007; Whisson et al., 2007). The expansion of the Galaxy wrappers for BLAST+ has followed a similar course. The initial wrappers focused on the five core tools (BLASTP, BLASTN, BLASTX, TBLASTN and TBLASTX) and did not allow the creation of custom BLAST databases. Gradually, the scope and contributor base of the project has expanded (Tables 1 and 3), particularly since our publication of genome and protein annotation tools [ 10], and was also supported by the move to a dedicated source code repository on GitHub. This shift to a distributed international team effort followed discussions, both online and in person at the Galaxy Community Conference 2013, and reflects the broad usage of the BLAST+ tools within the Galaxy community.Ubertini said the disturbance that occurred in the ionosphere was not seen by anyone on the ground. Fermi is a collaboration with the U.S. Department of Energy, with important contributions from partners in France, Germany, Italy, Japan, Sweden, and the United States. On Dec. 11, 2021, NASA’s Neil Gehrels Swift Observatory and Fermi Gamma-ray Space Telescope detected a blast of high-energy light from the outskirts of a galaxy around 1 billion light-years away. The event has rattled scientists’ understanding of gamma-ray bursts (GRBs), the most powerful events in the universe. The ability to generate rapidly large amounts of genomic and transcriptomic sequence data for non-model organisms has enabled comparative genomic studies of a large number of plant pathogen effectors ( Haas et al., 2009; Baltrus et al., 2011). Prior to the commonplace production of genome scale data, manual workflows for functional characterisation of effector sequences, often involving copying and pasting sequences into online tools like NCBI BLAST ( Altschul et al., 1990; Camacho et al., 2009) were tractable. These labour-intensive approaches are impractical with large datasets, for which automated large-scale analyses become necessary. Adopting an automated workflow also brings benefits as, even when the level of data would be manageable, manual analyses can be difficult to reproduce without meticulous record keeping. This can affect the consistency of work within a research group, and also the utility of published literature, where the level of detail in the computational methods section can be inadequate for replication. Automated analyses are usually repeatable, and both the analytical processes and results can be logged in great detail, in a searchable framework.

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