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Editor’s introduction to the special section on the 7th Biomedical Linked Annotation Hackathon (BLAH7)

Kim JD, Cohen KB, Rinaldi F, Lu Z, Park HS

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LitCovid-AGAC: cellular and molecular level annotation data set based on COVID-19

Ouyang S, Wang Y, Zhou K, Xia J

Currently, coronavirus disease 2019 (COVID-19) literature has been increasing dramatically, and the increased text amount make it possible to perform large scale text mining and knowledge discovery. Therefore, curation of...
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OryzaGP 2021 update: a rice gene and protein dataset for named-entity recognition

Larmande P, Liu Y, Yao X, Xia J

Due to the rapid evolution of high-throughput technologies, a tremendous amount of data is being produced in the biological domain, which poses a challenging task for information extraction and natural...
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Visualizing the phenotype diversity: a case study of Alexander disease

Dohi E, Bangash AH

Since only a small number of patients have a rare disease, it is difficult to identify all of the features of these diseases. This is especially true for patients presenting...
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A biomedically oriented automatically annotated Twitter COVID-19 dataset

Hernandez LAR, Callahan TJ, Banda JM

The use of social media data, like Twitter, for biomedical research has been gradually increasing over the years. With the coronavirus disease 2019 (COVID-19) pandemic, researchers have turned to more...
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Draft genome of Semisulcospira libertina, a species of freshwater snail

Gim JA, Baek KW, Hah YS, Choo HJ, Kim JS, Yoo JI

Semisulcospira libertina, a species of freshwater snail, is widespread in East Asia. It is important as a food source. Additionally, it is a vector of clonorchiasis, paragonimiasis, metagonimiasis, and other...
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COVID-19 recommender system based on an annotated multilingual corpus

Barros M, Ruas P, Sousa D, Bangash AH, Couto FM

Tracking the most recent advances in Coronavirus disease 2019 (COVID-19)‒related research is essential, given the disease's novelty and its impact on society. However, with the publication pace speeding up, researchers...
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Constructing Japanese MeSH term dictionaries related to the COVID-19 literature

Yamaguchi A, Takatsuki T, Tateisi Y, Soares F

The coronavirus disease 2019 (COVID-19) pandemic has led to a flood of research papers and the information has been updated with considerable frequency. For society to derive benefits from this...
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Chromosome-specific polymorphic SSR markers in tropical eucalypt species using low coverage whole genome sequences: systematic characterization and validation

Patturaj M, Munusamy A, Kannan N, Kandasamy U, Ramasamy Y

Eucalyptus is one of the major plantation species with wide variety of industrial uses. Polymorphic and informative simple sequence repeats (SSRs) have broad range of applications in genetic analysis. ...
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O-JMeSH: creating a bilingual English-Japanese controlled vocabulary of MeSH UIDs through machine translation and mutual information

Soares F, Tateisi Y, Takatsuki T, Yamaguchi A

Previous approaches to create a controlled vocabulary for Japanese have resorted to existing bilingual dictionary and transformation rules to allow such mappings. However, given the possible new terms introduced due...
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Improving classification of low-resource COVID-19 literature by using Named Entity Recognition

Lithgow-Serrano O, Cornelius J, Kanjirangat V, Méndez-Cruz CF, Rinaldi F

Automatic document classification for highly interrelated classes is a demanding task that becomes more challenging when there is little labeled data for training. Such is the case of the coronavirus...
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Rapid and sensitive detection of Salmonella species targeting the hilA gene using a loop-mediated isothermal amplification assay

Chu J, Shin J, Kang S, Shin S, Chung YJ

Salmonella species are among the major pathogens that cause foodborne illness outbreaks. In this study, we aimed to develop a loop-mediated isothermal amplification (LAMP) assay for the rapid and sensitive...
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Comparative genome characterization of Leptospira interrogans from mild and severe leptospirosis patients

Anuntakarun S, Sawaswong V, Jitvaropas R, Praianantathavorn K, Poomipak W, Suputtamongkol Y, Chirathaworn C, Payungporn S

Leptospirosis is a zoonotic disease caused by spirochetes from the genus Leptospira. In Thailand, Leptospira interrogans is a major cause of leptospirosis. Leptospirosis patients present with a wide range of...
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High-accuracy quantitative principle of a new compact digital PCR equipment: Lab On An Array

Lee H, Lee CJ, Kim DH, Cho CS, Shin W, Han K

Digital PCR (dPCR) is the third-generation PCR that enables real-time absolute quantification without reference materials. Recently, global diagnosis companies have developed new dPCR equipment. In line with the development, the...
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Molecular insights into the role of genetic determinants of congenital hypothyroidism

Kollati Y, Akella RRD, Naushad SM, Patel RK, Reddy GB, Dirisala VR

In our previous studies, we have demonstrated the association of certain variants of the thyroid-stimulating hormone receptor (TSHR), thyroid peroxidase (TPO), and thyroglobulin (TG) genes with congenital hypothyroidism. Herein, we...
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