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References from The chromosomal genome sequence of the massive starlet coral, Siderastrea siderea (Ellis & Solander, 1768) (Scleractinia: Rhizangiidae). Local targets link to admitted publications; unresolved targets remain external evidence.
Basic Local Alignment Search Tool.
10.1016/s0022-2836(05)80360-2 · 1990 · External reference
Baseline levels of Siderastrea siderea bleaching under normal environmental conditions in Little Cayman.
10.4236/ojms.2017.71011 · 2017 · External reference
UniProt: The Universal Protein Knowledgebase in 2023.
10.1093/nar/gkac1052 · 2023 · External reference
Sensitive protein alignments at tree-of-life scale using DIAMOND.
10.1038/s41592-021-01101-x · 2021 · External reference
Emerging skeletal growth responses of Siderastrea siderea corals to multidecadal anthropogenic impacts in Martinique, Caribbean Sea.
10.1038/s41598-025-08709-5 · 2025 · External reference
BlobToolKit – interactive quality assessment of genome assemblies.
10.1534/g3.119.400908 · 2020 · External reference
Haplotype-resolved de novo assembly using phased assembly graphs with Hifiasm.
10.1038/s41592-020-01056-5 · 2021 · External reference
Cold-water event of January 2010 results in catastrophic benthic mortality on patch reefs in the Florida Keys.
10.1007/s00338-012-0880-5 · 2012 · External reference
Symbiodinium associations with diseased and healthy scleractinian corals.
10.1007/s00338-008-0464-6 · 2009 · External reference
The transformation of Caribbean coral communities since humans.
10.1002/ece3.7808 · 2021 · External reference
Twelve years of SAMtools and BCFtools.
10.1093/gigascience/giab008 · 2021 · External reference
MultiQC: Summarize analysis results for multiple tools and samples in a single report.
10.1093/bioinformatics/btw354 · 2016 · External reference
The nf-core framework for community-curated bioinformatics pipelines.
10.1038/s41587-020-0439-x · 2020 · External reference
Gfastats: Conversion, evaluation and manipulation of genome sequences using assembly graphs.
10.1093/bioinformatics/btac460 · 2022 · External reference
BRAKER3: Fully automated genome annotation using RNA-seq and protein evidence with GeneMark-ETP, AUGUSTUS, and TSEBRA.
10.1101/gr.278090.123 · 2024 · External reference
Comparative molecular and morphological variation analysis of Siderastrea (Anthozoa, Scleractinia) reveals the presence of Siderastrea stellata in the Gulf of Mexico.
10.1086/691788 · 2017 · External reference
Identifying and removing haplotypic duplication in primary genome assemblies.
10.1093/bioinformatics/btaa025 · 2020 · External reference
On the path to reference genomes for all biodiversity: Laboratory protocols and lessons learned from processing over 2,000 species in the Sanger Tree of Life.
10.1093/gigascience/giaf119/8300236 · 2025 · External reference
Significantly improving the quality of genome assemblies through curation.
10.1093/gigascience/giaa153 · 2021 · External reference
Catastrophic mortality on inshore coral reefs of the Florida Keys due to severe low-temperature stress.
10.1111/j.1365-2486.2011.02487.x · 2011 · External reference
HiGlass: Web-based visual exploration and analysis of genome interaction maps.
10.1186/s13059-018-1486-1 · 2018 · External reference
Singularity: Scientific containers for mobility of compute.
10.1371/journal.pone.0177459 · 2017 · External reference
Minimap2: Pairwise alignment for nucleotide sequences.
10.1093/bioinformatics/bty191 · 2018 · External reference
BUSCO update: Novel and streamlined workflows along with broader and deeper phylogenetic coverage for scoring of eukaryotic, prokaryotic, and viral genomes.
10.1093/molbev/msab199 · 2021 · External reference
Docker: Lightweight Linux containers for consistent development and deployment.
10.5555/2600239.2600241 · 2014 · External reference
Chromosome-level genomes of scleractinian corals: Gene prediction and functional annotation.
10.1038/s41597-026-07499-3 · 2026 · External reference
Species-specific responses to climate change and community composition determine future calcification rates of Florida Keys reefs.
10.1111/gcb.13481 · 2017 · External reference
GenomeScope 2.0 and Smudgeplot for reference-free profiling of polyploid genomes.
10.1038/s41467-020-14998-3 · 2020 · External reference
A 3D map of the human genome at kilobase resolution reveals principles of chromatin looping.
10.1016/j.cell.2014.11.021 · 2014 · External reference
Towards complete and error-free genome assemblies of all vertebrate species.
10.1038/s41586-021-03451-0 · 2021 · External reference
Merqury: Reference-free quality, completeness, and phasing assessment for genome assemblies.
10.1186/s13059-020-02134-9 · 2020 · External reference
Siderastrea radians. The IUCN Red List of Threatened Species.
2022 · External reference
NCBI taxonomy: A comprehensive update on curation, resources and tools.
10.1093/database/baaa062 · 2020 · External reference
Fecundity and sexual maturity of the coral Siderastrea siderea at high latitude along the Florida Reef Tract, USA.
10.1111/ivb.12115 · 2016 · External reference
Multi-year, seasonal genotypic surveys of coral-algal symbioses reveal prevalent stability or post-bleaching reversion.
10.1007/s00227-005-0114-2 · 2006 · External reference
MitoHiFi: A Python pipeline for mitochondrial genome assembly from PacBio high fidelity reads.
10.1186/s12859-023-05385-y · 2023 · External reference
10.1109/ipdps.2019.00041
10.1109/ipdps.2019.00041 · 2019 · External reference
YaHS: Yet another Hi-C scaffolding tool.
10.1093/bioinformatics/btac808 · 2023 · External reference
