ゲノム情報解析の再現性と再利用性を向上させる情報基盤の設計

学位の種別: 課程博士審査委員会委員 : （主査）東京大学教授 油谷 浩幸, 東京大学教授 森川 博之, 東京大学教授 井原 茂男, 東京大学准教授 谷内江 望, ライフサイエンス統合データベースセンター准教授 山口 敦子University of Tokyo(東京大学

軟組織による外耳道閉鎖症例での軟骨伝導

A hearing aid using cartilage conduction (CC) has been proposed as an alternative to bone conduction (BC) hearing aids. The transducer developed for this application is lightweight, requires a much smaller fixation force than a BC hearing aid, and is more convenient to use. CC can be of great benefit to patients with fibrotic aural atresia. Fibrotic tissue connected to the ossicles provides an additional pathway (termed fibrotic tissue pathway) for sound to reach the cochlea by means of CC. To address the function of fibrotic tissue pathway, BC and CC thresholds were measured in six ears with fibrotic aural atresia. The relationship between the CC thresholds and the results of computed tomography was investigated. In the ears with the presence of a fibrotic tissue pathway, the CC thresholds were lower than the BC thresholds at 0.5 and 1.0 kHz. At 2.0 kHz, no significant difference was observed between the BC and CC thresholds. The current findings suggest that sound in the low to middle frequency range is transmitted more efficiently by CC via a fibrotic tissue pathway than BC. The development of hearing devices using CC can contribute to rehabilitation, particularly in patients with fibrotic aural atresia.博士（医学）・甲621号・平成26年3月17

Detections of [C II] 158 μ\mum and [O III] 88 μ\mum in a Local Lyman Continuum Emitter, Mrk 54, and its Implications to High-redshift ALMA Studies

We present integral field, far-infrared (FIR) spectroscopy of Mrk 54, a local Lyman Continuum Emitter (LCE), obtained with FIFI-LS on the Stratospheric Observatory for Infrared Astronomy. This is only the second time, after Haro 11, that [C II] 158 $\mu$m and [O III] 88 $\mu$m spectroscopy of the known LCEs have been obtained. We find that Mrk 54 has a strong [C II] emission that accounts for $\sim1$% of the total FIR luminosity, whereas it has only moderate [O III] emission, resulting in the low [O III]/[C II] luminosity ratio of $0.22\pm0.06$. In order to investigate whether [O III]/[C II] is a useful tracer of $f_{\rm esc}$ (LyC escape fraction), we examine the correlations of [O III]/[C II] and (i) the optical line ratio of $\rm O_{32} \equiv$ [O III] 5007 \AA/[O II] 3727 \AA, (ii) specific star formation rate, (iii) [O III] 88 $\mu$m/[O I] 63 $\mu$m ratio, (iv) gas phase metallicity, and (v) dust temperature based on a combined sample of Mrk 54 and the literature data from the Herschel Dwarf Galaxy Survey and the LITTLE THINGS Survey. We find that galaxies with high [O III]/[C II] luminosity ratios could be the result of high ionization (traced by $\rm O_{32}$), bursty star formation, high ionized-to-neutral gas volume filling factors (traced by [O III] 88 $\mu$m/[O I] 63 $\mu$m), and low gas-phase metallicities, which is in agreement with theoretical predictions. We present an empirical relation between the [O III]/[C II] ratio and $f_{\rm esc}$ based on the combination of the [O III]/[C II] and $\rm O_{32}$ correlation, and the known relation between $\rm O_{32}$ and $f_{\rm esc}$. The relation implies that high-redshift galaxies with high [O III]/[C II] ratios revealed by ALMA may have $f_{\rm esc}\gtrsim0.1$, significantly contributing to the cosmic reionization.Comment: 14 pages, 5 figures, Accepted for publication in Ap

On the origin and evolution of the asteroid Ryugu: A comprehensive geochemical perspective

Presented here are the observations and interpretations from a comprehensive analysis of 16 representative particles returned from the C-type asteroid Ryugu by the Hayabusa2 mission. On average Ryugu particles consist of 50% phyllosilicate matrix, 41% porosity and 9% minor phases, including organic matter. The abundances of 70 elements from the particles are in close agreement with those of CI chondrites. Bulk Ryugu particles show higher δ18O, Δ17O, and ε54Cr values than CI chondrites. As such, Ryugu sampled the most primitive and least-thermally processed protosolar nebula reservoirs. Such a finding is consistent with multi-scale H-C-N isotopic compositions that are compatible with an origin for Ryugu organic matter within both the protosolar nebula and the interstellar medium. The analytical data obtained here, suggests that complex soluble organic matter formed during aqueous alteration on the Ryugu progenitor planetesimal (several 10’s of km), <2.6 Myr after CAI formation. Subsequently, the Ryugu progenitor planetesimal was fragmented and evolved into the current asteroid Ryugu through sublimation

Inferring causal molecular networks: empirical assessment through a community-based effort

Inferring molecular networks is a central challenge in computational biology. However, it has remained unclear whether causal, rather than merely correlational, relationships can be effectively inferred in complex biological settings. Here we describe the HPN-DREAM network inference challenge that focused on learning causal influences in signaling networks. We used phosphoprotein data from cancer cell lines as well as in silico data from a nonlinear dynamical model. Using the phosphoprotein data, we scored more than 2,000 networks submitted by challenge participants. The networks spanned 32 biological contexts and were scored in terms of causal validity with respect to unseen interventional data. A number of approaches were effective and incorporating known biology was generally advantageous. Additional sub-challenges considered time-course prediction and visualization. Our results constitute the most comprehensive assessment of causal network inference in a mammalian setting carried out to date and suggest that learning causal relationships may be feasible in complex settings such as disease states. Furthermore, our scoring approach provides a practical way to empirically assess the causal validity of inferred molecular networks

Inferring causal molecular networks: empirical assessment through a community-based effort

It remains unclear whether causal, rather than merely correlational, relationships in molecular networks can be inferred in complex biological settings. Here we describe the HPN-DREAM network inference challenge, which focused on learning causal influences in signaling networks. We used phosphoprotein data from cancer cell lines as well as in silico data from a nonlinear dynamical model. Using the phosphoprotein data, we scored more than 2,000 networks submitted by challenge participants. The networks spanned 32 biological contexts and were scored in terms of causal validity with respect to unseen interventional data. A number of approaches were effective, and incorporating known biology was generally advantageous. Additional sub-challenges considered time-course prediction and visualization. Our results suggest that learning causal relationships may be feasible in complex settings such as disease states. Furthermore, our scoring approach provides a practical way to empirically assess inferred molecular networks in a causal sense

上級生模擬患者による看護学生の学び

本研究は、看護学部上級生(4年生)による模擬患者(SP)を活用した成人看護学演習において、受講した同学部3年生106名を対象に、この上級生SP演習授業による学びを明らかにし、臨地実習に向けた成人看護学演習の教育方法について示唆を得ることを目的とした。研究者間で作成した自記式質問紙調査を行い、99名(回収率94.3%)の学びについての回答を、質的帰納的に分析した。その結果、44コード、25サブカテゴリー、および【準備の大切さ】【目的・根拠を考えたケア】【患者に適した看護のありよう】【患者への配慮】【看護の現実味】の5カテゴリーが生成された。また学びとはならなかったが、『自己の振り返り』や『先輩の存在から感じたこと』についても抽出することができた。上級生SPは、経験や訓練が必要な一般のSPと比較して、実習経験から学生へのフィードバックができていることから効果的である可能性が示唆された。また上級生SPを活用した演習を領域実習前に取り入れることは、実習での学生の過度な緊張や不安を和らげ、看護援助や患者理解を深める効果が期待できる