著者

Eri Ogiso-Tanaka Shiori Yabe Tsuyoshi Tanaka

出版者

Japanese Society of Breeding

雑誌

Breeding Science (ISSN:13447610)

巻号頁・発行日

pp.19141, (Released:2020-06-05)

被引用文献数

1

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Polymorphism information generated by next-generation sequencing (NGS) technologies has enabled applications of genome-wide markers assisted breeding. However, handling such large-scale data remains a challenge for experimental researchers and breeders, calling for the urgent development of a flexible and straightforward analysis tool for NGS data. We developed “IonBreeders” as bioinformatics plugins that implement general analysis steps from genotyping to genomic prediction. IonBreeders comprises three plugins, “ABH”, “IMPUTATION”, and “GENOMIC PREDICTION”, for format conversion of genotyping data, preprocessing and imputation of genotyping data, and genomic prediction, respectively. “ABH” converts genotyping data derived from NGS into the ABH format, which is acceptable for our further plugins and with other breeding software tools, R/qtl, MapMaker, and AntMap. “IMPUTATION” filters out non-informative markers and imputes missing marker genotypes. In “GENOMIC PREDICTION”, users can use four statistical methods based on their target trait, quantitative trait locus effect, and number of markers, and construct a prediction model for genomic selection. IonBreeders is operated in Torrent Suite, but can also handle genotype data in standard formats, e.g., Variant Call Format (VCF), by format conversion using free software or our provided scripts.

著者

Tetsuya Tagami Hironori Kimura Sumire Ohtani Tsuyoshi Tanaka Takashi Tanaka Shiro Hata Miho Saito Yasushi Miyazaki Rika Araki Masami Tanaka Kazuya Yonezawa Morio Sawamura Takuyuki Ise Atsushi Ogo Takuro Shimbo Akira Shimatsu Mitsuhide Naruse

出版者

The Japan Endocrine Society

雑誌

Endocrine Journal (ISSN:09188959)

巻号頁・発行日

vol.58, no.6, pp.449-457, 2011 (Released:2011-06-30)

参考文献数

44

被引用文献数

13 26

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Hypercholesterolemia is one of the most representative disorders of the common diseases. To evaluate the prevalence of hypothyroidism in the population of adult hypercholesterolemia, we prospectively examined the thyroid function in patients with untreated or treated hypercholesterolemia as a multi-center survey. Subjects were the patients who were treated with some antilipemic agents or the untreated patients whose total cholesterol (TC) was over 220 mg/dL and/or LDL-cholesterol (LDL-C) over 140 mg/dL. Among 737 cases recruited, 725 cases (300 males and 425 females) participated in the survey including the thyroid function test. The patient's backgrounds include hypertension (51%), diabetes mellitus (49%), fatty liver (17%), smoking (15%), and habitual drinking (10%). The 72% of the patients were treated with some antilipemic agents and the mean values of TC, LDL-C, triglyceride (TG), HDL-cholesterol (HDL-C), and LDL-C/HDL-C ratio (L/H) were 204.5 mg/dL, 119.6 mg/dL, 144.4 mg/dL, 60.7 mg/dL and 2.25, respectively. The primary hypothyroidism was seen in 27 cases (3.7%) (11 males, 16 females) with subclinical hypothyroidism in 17 cases (2.4%) and overt hypothyroidism in 10 cases (1.4%). The central hypothyroidism was seen in 4 cases (0.6%). The prevalence of hypothyroidism was 4.3% in patients with hypercholesterolemia. Taking account of the large number of patients with dyslipidemia and importance of avoiding unnecessary administration and associated adverse effects, evaluation of the thyroid function could be warranted in patients with dyslipidemia although cost-benefit issues waits further investigation.

著者

増田 彰正 田中 剛 朝倉 純子 清水 洋 Akimasa MASUDA Tsuyoshi TANAKA Junko ASAKURA Hiroshi SHIMIZU

雑誌

南極資料 (ISSN:00857289)

巻号頁・発行日

vol.58, pp.197-203, 1977-03

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