Information retrieval and text mining technologies for chemistry
Efficient access to chemical information contained in scientific literature, patents, technical
reports, or the web is a pressing need shared by researchers and patent attorneys from …
reports, or the web is a pressing need shared by researchers and patent attorneys from …
Community challenges in biomedical text mining over 10 years: success, failure and the future
CC Huang, Z Lu - Briefings in bioinformatics, 2016 - academic.oup.com
One effective way to improve the state of the art is through competitions. Following the
success of the Critical Assessment of protein Structure Prediction (CASP) in bioinformatics …
success of the Critical Assessment of protein Structure Prediction (CASP) in bioinformatics …
Domain-specific language model pretraining for biomedical natural language processing
Pretraining large neural language models, such as BERT, has led to impressive gains on
many natural language processing (NLP) tasks. However, most pretraining efforts focus on …
many natural language processing (NLP) tasks. However, most pretraining efforts focus on …
The role of ontologies in biological and biomedical research: a functional perspective
R Hoehndorf, PN Schofield… - Briefings in …, 2015 - academic.oup.com
Ontologies are widely used in biological and biomedical research. Their success lies in their
combination of four main features present in almost all ontologies: provision of standard …
combination of four main features present in almost all ontologies: provision of standard …
GNormPlus: an integrative approach for tagging genes, gene families, and protein domains
The automatic recognition of gene names and their associated database identifiers from
biomedical text has been widely studied in recent years, as these tasks play an important …
biomedical text has been widely studied in recent years, as these tasks play an important …
Paternal sperm DNA methylation associated with early signs of autism risk in an autism-enriched cohort
JI Feinberg, KM Bakulski, AE Jaffe… - International journal …, 2015 - academic.oup.com
Background: Epigenetic mechanisms such as altered DNA methylation have been
suggested to play a role in autism, beginning with the classical association of Prader-Willi …
suggested to play a role in autism, beginning with the classical association of Prader-Willi …
Epigenetic changes in sperm are associated with paternal and child quantitative autistic traits in an autism-enriched cohort
JI Feinberg, R Schrott, C Ladd-Acosta… - Molecular …, 2024 - nature.com
There is a need to consider paternal contributions to autism spectrum disorder (ASD) more
strongly. Autism etiology is complex, and heritability is not explained by genetics alone …
strongly. Autism etiology is complex, and heritability is not explained by genetics alone …
Semantic annotation in biomedicine: the current landscape
J Jovanović, E Bagheri - Journal of biomedical semantics, 2017 - Springer
The abundance and unstructured nature of biomedical texts, be it clinical or research
content, impose significant challenges for the effective and efficient use of information and …
content, impose significant challenges for the effective and efficient use of information and …
MeSH Now: automatic MeSH indexing at PubMed scale via learning to rank
Y Mao, Z Lu - Journal of biomedical semantics, 2017 - Springer
Background MeSH indexing is the task of assigning relevant MeSH terms based on a
manual reading of scholarly publications by human indexers. The task is highly important for …
manual reading of scholarly publications by human indexers. The task is highly important for …
[HTML][HTML] A fine-tuned bidirectional encoder representations from transformers model for food named-entity recognition: Algorithm development and validation
Background Recently, food science has been garnering a lot of attention. There are many
open research questions on food interactions, as one of the main environmental factors, with …
open research questions on food interactions, as one of the main environmental factors, with …