ArticleNucleic acids research2015
TCS: a web server for multiple sequence alignment evaluation and phylogenetic reconstruction.
Article in Nucleic acids research, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 31 papers.
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Who cites it
31 citing papers in PubMed.
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- Biodegradation of high-molecular-weight polycyclic aromatic hydrocarbons by a novel species of the genusFrontiers in microbiology · 2025Article
- Transcriptome-wide investigation and functional characterization reveal a terpene synthase involved in γ-terpinene biosynthesis in Monarda citriodora.Functional & integrative genomics · 2024Article
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- Seqrutinator: scrutiny of large protein superfamily sequence datasets for the identification and elimination of non-functional homologues.Genome biology · 2024Article
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- Evolution of the enhancer-rich regulatory region of the gene for the cell-type specific transcription factor POU1F1.Heliyon · 2024Article
- Partial Ribosomal Nontranscribed Spacer Sequences Distinguish Rhagoletis zephyria (Diptera: Tephritidae) From the Apple Maggot, R. pomonella.Journal of economic entomology · 2022Article
- Vitamin D3 and its hydroxyderivatives as promising drugs against COVID-19: a computational study.Journal of biomolecular structure & dynamics · 2022Article
- Enhancing the Discovery of Functional Post-Translational Modification Sites with Machine Learning Models - Development, Validation, and Interpretation.Methods in molecular biology (Clifton, N.J.) · 2022Article
- Small Things Matter: The 11.6-kDa TraB Protein is Crucial for Antibiotic Resistance Transfer Among Enterococci.Frontiers in molecular biosciences · 2022Article
- Distinct Evolutionary Profiles and Functions of microRNA156 and microRNA529 in Land Plants.International journal of molecular sciences · 2021Article
- ARG-SHINE: improve antibiotic resistance class prediction by integrating sequence homology, functional information and deep convolutional neural network.NAR genomics and bioinformatics · 2021Article
- Article
- First description of betalains biosynthesis in an aquatic organism: characterization of 4,5-DOPA-extradiol-dioxygenase activity in the cyanobacteria Anabaena cylindrica.Microbial biotechnology · 2020Article
- Genome-wide identification and characterization of CKIN/SnRK gene family in Chlamydomonas reinhardtii.Scientific reports · 2019Article
- Haptoglobin Is a Divergent MASP Family Member That Neofunctionalized To Recycle Hemoglobin via CD163 in Mammals.Journal of immunology (Baltimore, Md. : 1950) · 2018Article
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Authors and funding
5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
This article introduces the Transitive Consistency Score (TCS) web server; a service making it possible to estimate the local reliability of protein multiple sequence alignments (MSAs) using the TCS index. The evaluation can be used to identify the aligned positions most likely to contain structurally analogous residues and also most likely to support an accurate phylogenetic reconstruction. The TCS scoring scheme has been shown to be accurate predictor of structural alignment correctness among commonly used methods. It has also been shown to outperform common filtering schemes like Gblocks or trimAl when doing MSA post-processing prior to phylogenetic tree reconstruction. The web server is available from http://tcoffee.crg.cat/tcs.
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