1-20 of 8537
Journal Article
Transformer-based approach for symptom recognition and multilingual linking
Database, Volume 2024, 2024, baae090, https://doi.org/10.1093/database/baae090
Published: 11 September 2024
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The number of entities in the train and test sets in different languages in...
Published: 11 September 2024
Figure 1.
The number of entities in the train and test sets in different languages in the SympTEMIST dataset.
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The concept alias frequency in the Spanish KB.
Published: 11 September 2024
Figure 3.
The concept alias frequency in the Spanish KB.
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Example prompt for reranking candidate entities.
Published: 11 September 2024
Figure 8.
Example prompt for reranking candidate entities.
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The prompt used for translating a symptom mention into Spanish.
Published: 11 September 2024
Figure 10.
The prompt used for translating a symptom mention into Spanish.
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The architecture of the NER model.
Published: 11 September 2024
Figure 5.
The architecture of the NER model.
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The architecture of the Enity Linking model.
Published: 11 September 2024
Figure 6.
The architecture of the Enity Linking model.
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A pipeline for assigning SNOMED CT codes to automatically translated sympto...
Published: 11 September 2024
Figure 7.
A pipeline for assigning SNOMED CT codes to automatically translated symptom mentions (Subtask 3), consisting of four main steps: first, symptom mentions are preprocessed and a dictionary lookup is performed, second if a mention is found in the dictionary, it is assigned the corresponding code, thir
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The number of concepts per type in the gazetteer in the SympTEMIST dataset....
Published: 11 September 2024
Figure 2.
The number of concepts per type in the gazetteer in the SympTEMIST dataset.
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The number of aliases in the KB for the different languages.
Published: 11 September 2024
Figure 4.
The number of aliases in the KB for the different languages.
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Using the Fitness Browser to consider alternate pathways. (a) Two potential...
Published: 06 September 2024
Figure 4.
Using the Fitness Browser to consider alternate pathways. (a) Two potential roles for the putative sugar kinase SM_b21217 in glucosamine utilization (adapted from Price et al . [ 3 ]). (b) A comparison of fitness data from S. meliloti with N -acetyglucosamine or glucosamine as the nitrogen sourc
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Checking functional residues with SitesBLAST. This screenshot shows the top...
Published: 06 September 2024
Figure 5.
Checking functional residues with SitesBLAST. This screenshot shows the top result for the putative sugar kinase SM_b21217.
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Comparing the presence/absence of two gene families. In this screenshot fro...
Published: 06 September 2024
Figure 6.
Comparing the presence/absence of two gene families. In this screenshot from “fast.genomics,” each point is a genome. The bit score ratio is the alignment score for the best hit divided by the highest possible alignment score; it is a measure of how similar the best hit (if any) in that genome is to
Journal Article
Interactive tools for functional annotation of bacterial genomes
Database, Volume 2024, 2024, baae089, https://doi.org/10.1093/database/baae089
Published: 06 September 2024
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Overview of interactive tools. If you are interested in whether the genome ...
Published: 06 September 2024
Figure 1.
Overview of interactive tools. If you are interested in whether the genome encodes a specific capability, look at pathway annotations from GapMind, or search for candidate proteins that might have a specific function using Curated BLAST for genomes. Once you are interested in a specific protein, sea
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Identification of a l -fucose transporter using RB-TnSeq data and c...
Published: 06 September 2024
Figure 2.
Identification of a l -fucose transporter using RB-TnSeq data and conserved gene neighbors. (a) In H. seropedicae SmR1, HSERO_RS05250 is specifically important for l -fucose utilization. This screenshot from the Fitness Browser shows the strongest fitness values for this gene from 96 experiments
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Finding papers about a protein and its homologs with PaperBLAST. This scree...
Published: 06 September 2024
Figure 3.
Finding papers about a protein and its homologs with PaperBLAST. This screenshot shows the top results for Shewana3_2071. Experimentally characterized homologs are shown with curated annotations in bold. Homologs that are discussed in papers are shown with snippets of text from those papers. Within
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Annotating metabolic pathways with GapMind. (a) Amino biosynthesis in E...
Published: 06 September 2024
Figure 7.
Annotating metabolic pathways with GapMind. (a) Amino biosynthesis in Echinicola vietnamensis DSM 17526. This screenshot shows biosynthetic pathways for five of the amino acids along with the key for the color coding. (b) Carbon catabolism in E. vietnamensis . This screenshot shows catabolic path
Journal Article
Global Globin Network and adopting genomic variant database requirements for thalassemia
Database, Volume 2024, 2024, baae080, https://doi.org/10.1093/database/baae080
Published: 04 September 2024
