bluuebunny/crossref_metadata_2025_split huggingface dataset:
Calculator for inadequate micronutrient intake for Ethiopia (CIMI‐Ethiopia): Validation of the software for lactating mothers and their children under 2 years
Authors: Berhanu Desalegn Beruk , Lambert Christine , Gola Ute , Riedel Simon , Negese Tegene , Biesalski Hans Konrad 
Published: June 2022

AbstractEarly identification of inadequate intake of nutrients from a person's diet is usually crucial to prevent the development of micronutrient malnutrition. However, there is no single dietary assessment tool for Ethiopia that can assess the nutrient intake of a person from the type of food she or he consumed with a given amount. Therefore, the Calculator for Inadequate Micronutrient Intake (CIMI) application was adapted in consideration of food and nutrition contexts in Ethiopia and validated for its suitability to compute nutrient intake and identify nutrient intake inadequacy. For this, a 24‐h recall quantitative dietary data of children aged 12–23 months (n = 781) and lactating mothers (n = 1086) were collected between February 15 and 30, 2017, from rural Genta Afeshum district, Tigray region, Ethiopia. An individual nutrient intake was estimated by calculating using CIMI‐Ethiopia and also by NutriSurvey (NS) software for comparison. The average (mean and median) intake of energy and most nutrients and the prevalence of inadequacy calculated by the two software for the children aged 12–23 months and lactating mothers were comparable, except that of the vitamin A. The correlation coefficients for the intake results calculated by CIMI‐Ethiopia and NS were between 0.85 and 0.97 for the children and between 0.5 and 0.96 for the lactating mothers' group. Most of the mean intake differences calculated by the two methods were within the acceptable limits, except for the vitamins A, D, and B12 in the Bland–Altman plots. CIMI‐Ethiopia is very sensitive to identifying energy, protein, and selected micronutrients inadequacy included in this study, both for the lactating mothers (84.1%–100%) and 12–23‐month‐old children (77.6%–100%) group. Our results showed that CIMI‐Ethiopia estimates the energy and nutrient intake, and can be also used as a screening tool to identify energy, protein, and selected micronutrients inadequacy from an individual woman's and child's diet in rural Tigray, Ethiopia.
Quantitative assessment of copy number alterations by liquid biopsy for neuroblastoma
Authors: Shirai Ryota , Osumi Tomoo , Sato‐Otsubo Aiko , Nakabayashi Kazuhiko , Ishiwata Keisuke , Yamada Yuji , Yoshida Masanori , Yoshida Kaoru , Shioda Yoko , Kiyotani Chikako , Terashima Keita , Tomizawa Daisuke , Takasugi Nao , Takita Junko , Miyazaki Osamu , Kiyokawa Nobutaka , Yoneda Akihiro , Kanamori Yutaka , Hishiki Tomoro , Matsumoto Kimikazu , Hata Kenichiro , Yoshioka Takako , Kato Motohiro 
Published: June 2022

AbstractLiquid biopsy, a method of detecting genomic alterations using blood specimens, has recently attracted attention as a noninvasive alternative to surgical tissue biopsy. We attempted quantitative analysis to detect amplification of MYCN (MYCNamp) and loss of heterozygosity at 11q (11qLOH), which are clinical requisites as prognostic factors of neuroblastoma (NB). In this study, cell‐free DNA (cfDNA) was extracted from plasma samples from 24 NB patients at diagnosis. Copy numbers of MYCN and NAGK genes were quantitatively analyzed by droplet digital PCR (ddPCR). 11qLOH was also assessed by detecting allelic imbalances of heterozygous single nucleotide polymorphisms in the 11q region. The results obtained were compared to those of specimens from tumor tissues. The correlation coefficient of MYCN copy number of cfDNA and tumor DNA was 0.88 (p < 0.00001). 11qLOH was also accurately detected from cfDNA, except for one case with localized NB. Given the high accuracy of liquid biopsy, to investigate components of cfDNA, the proportion of tumor‐derived DNA was estimated by examining the variant allele frequency of tumor‐specific mutations in cfDNA. The proportion of tumor‐derived DNA in cfDNA was 42.5% (range, 16.9%–55.9%), suggesting sufficient sensitivity of liquid biopsy for NB. In conclusion, MYCN copy number and 11qLOH could be quantitatively analyzed in plasma cfDNA by ddPCR assay. These results suggest that plasma cfDNA can be substituted for tumor DNA and can also be applied for comprehensive genomic profiling analysis.
Data Drops for Tunnel Information Modelling
Authors: Paskaleva Galina , Niedermoser Christoph , Vierhauser Michael , Mazak‐Huemer Alexandra , Hruschka Sabine , Huemer Christian 
Published: June 2022

AbstractIn the Architecture, Engineering and Construction (AEC) industry, as well as in the tunnelling domain, inter‐company processes between partners in different roles in large‐scale construction projects still exhibit great potential towards digitalisation. Thereby, information should be seamlessly shared between partners according to the Building Information Modelling (BIM) paradigm. Today, different types of artefacts (e.g., models, plans, documents, etc.) are shared at different points in time, which differ in terms of requirements, information content, as well as data formats. In this article, we extend and prototypically implement the concept of Data Drops to provide those artefacts in a digitalised form via a shared Data Drop management platform. For this purpose, we have developed a formal, well‐defined indexed data structure on a metadata level. This not only facilitates traceability, but also enables searching for specific meta‐information and provides a common view on Data Drops. In addition, a networked view between different drops can be provided. The approach is being evaluated on the use case of a real tunnel construction project.
High‐resolution real‐time multipurpose tunnel surface 3D rendering
Authors: Paar Gerhard , Mett Michael , Ortner Thomas , Kup Daniel , Kontrus Heiner 
Published: June 2022

AbstractTunnel surveys making use of photogrammetric three‐dimensional (3D) tunnel reconstruction reach resolutions in the millimeter range. Classical big data visualization approaches display point clouds only, neglecting this considerable resolution difference between structure and texture. The article suggests a data structure that separates structural and textural resolution by a regular grid on the unwrapped design surface for 3D, combined with a UV mapping technique as regularly used in computer graphics. For real‐time rendering of huge multiscale data sets, the result of photogrammetric commercial‐off‐the‐shelf reconstructions is transformed into a proprietary hierarchical data structure. It facilitates to only load currently relevant parts of the tunnel surface from the hard drive, and only upload and render currently adequate levels‐of‐detail onto the graphics card for seamless exploration of high‐resolution geometric and image 3D tunnel data of arbitrary length. The solution allows for smooth interactive analysis and annotation such as crack identification and mapping, inventory, deformation assessment, and dimensional measurements. Aspects of data generation are addressed and information is given about the data structure, showing examples from entire tunnel 3D representations to demonstrate the smooth behaviour of the real‐time rendering of huge data volumes in various scales on standard graphics hardware.
Treatment of advanced squamous cell carcinoma of the external auditory canal: Critical analysis of persistent failures in diagnosis and surgery with a competing‐risk model
Authors: Mazzoni Antonio , Cazzador Diego , Marioni Gino , Zanoletti Elisabetta 
Published: June 2022

AbstractBackgroundA series of temporal bone squamous cell carcinomas (TBSCCs) was analyzed with the aim of (i) better understanding the causes for the persistent high failure rate in advanced SCCs and (ii) discussing a possible way out from this stalemate in treatment.MethodsForty‐five TBSCCs consecutively treated surgically were reviewed.ResultsThe 5‐year cumulative incidence for postoperative local recurrence was 41.8%. At multivariable analysis, pT3‐4 stages were associated with eightfold relative incidence of developing local recurrence during follow‐up (sHR = 9.06, 95% confidence interval [CI] = 1.18–69.46, p = 0.034) and cause‐specific death (sHR = 7.95, 95%CI = 1.01–62.27, p = 0.048).ConclusionsThe poor outcome in advanced TBSCC occurred because of local recurrence due to defective resection. The fundamental pitfall of surgery on advanced TBSCC appeared to be the insufficient knowledge of microscopic tumor growth in the different sites and subsites of the temporal bone. The serial histopathological study of the en bloc surgical specimen and autopsy temporal bones seems to represent a way to enhance our understanding of these tumors.
The robotic‐assisted extended “Sistrunk” approach for tumors of the upper aerodigestive tract with limited transoral access: First description of oncological and functional outcomes
Authors: Simon Christian , Beharry Avinash , Paleri Vinidh , Dübi Pascaline , Lambercy Karma , Holsinger F. Christopher , Todic Jelena 
Published: June 2022

AbstractWe report on the first clinical experience with the robotic‐assisted extended “Sistrunk” approach (RESA) for access to constrained spaces of the upper aerodigestive tract. This prospective case cohort study include six patients that underwent RESA if transoral exposure could not be achieved. Three patients received previous radiation. Patients were postoperatively followed until week 16 for perioperative complications, surgical margins, and functional outcomes. In all patients RESA allowed adequate exposure and resection with negative margins. Three patients who underwent salvage surgery experienced a minor or intermediate grade postoperative bleeding. No patient developed a pharyngocutaneous fistula. Three patients recovered their swallowing to their preoperative status and the remaining three experienced an improvement. All patients experienced complete recovery of their voice. RESA has the potential to provide a new organ preservation approach for head and neck cancer (HNC) not amenable to transoral exposure and thus warrants further prospective clinical studies.
Durable complete response is achieved by balloon‐occluded transcatheter arterial chemoembolization for hepatocellular carcinoma
Authors: Shirono Tomotake , Iwamoto Hideki , Niizeki Takashi , Shimose Shigeo , Kajiwara Akira , Suzuki Hiroyuki , Kamachi Naoki , Noda Yu , Okamura Shusuke , Nakano Masahito , Kuromatsu Ryoko , Murotani Kenta , Koga Hironori , Torimura Takuji 
Published: June 2022

Abstract
In 2013 and 2014, the development of microcatheters with balloons for the 4‐Fr system and new embolization materials provided various options for transarterial chemoembolization (TACE), expanding the range of treatment strategies. At our hospital, balloon‐occluded TACE (B‐TACE), conventional TACE (C‐TACE), and drug‐eluting bead TACE (DEB‐TACE) have been actively performed for hepatocellular carcinoma (HCC). This study compared the local recurrence‐free (LRF) periods of nodules with complete necrosis (TE4) obtained using each treatment method by extracting the nodules evaluated as complete response by the modified Response Evaluation Criteria in Solid Tumors. We performed 580 TACE procedures between June 2013 and April 2019. Among them, 58 HCC nodules in 43 patients, 33 nodules in 30 patients, and 45 nodules in 25 patients were evaluated as having complete necrosis after C‐TACE, DEB‐TACE, and B‐TACE, respectively. The time to local recurrence for each nodule was defined as the LRF period, and the quality of TE4 for each TACE was examined. Factors related to overall survival and the LRF period were determined by univariate and multivariate analyses, and overall survival and the LRF period were analyzed using the Kaplan–Meier method. Multivariate analysis of the LRF period showed that B‐TACE was an independent factor. The median LRF periods were 39.3, 13, and 9.1 months for B‐TACE, C‐TACE, and DEB‐TACE, respectively. Moreover, B‐TACE had a significantly longer LRF period than C‐TACE and DEB‐TACE. Conclusion: There was no significant difference between C‐TACE and DEB‐TACE. The LRF period of nodules with TE4 was the longest with B‐TACE, suggesting that B‐TACE should be used to achieve a radical cure in patients with HCC.
A phase I/II study of ivaltinostat combined with gemcitabine and erlotinib in patients with untreated locally advanced or metastatic pancreatic adenocarcinoma
Authors: Jo Jung Hyun , Jung Dawoon E. , Lee Hee Seung , Park Soo Been , Chung Moon Jae , Park Jeong Youp , Bang Seungmin , Park Seung Woo , Cho Sangsook , Song Si Young 
Published: June 2022

AbstractThis phase I/II study evaluated the safety and efficacy of a new histone deacetylase (HDAC) inhibitor, ivaltinostat, in combination with gemcitabine and erlotinib for advanced pancreatic ductal adenocarcinoma (PDAC). Patients diagnosed with unresectable, histologically confirmed PDAC who had not undergone previous therapy were eligible. Phase I had a 3 + 3 dose escalation design to determine the maximum tolerable dose (MTD) of ivaltinostat (intravenously on days 1, 8 and 15) with gemcitabine (1000 mg/m2 intravenously on days 1, 8 and 15) and erlotinib (100 mg/day, orally) for a 28‐day cycle. In phase II, patients received a six‐cycle treatment with the MTD of ivaltinostat determined in phase I. The primary endpoint was the objective response rate (ORR). Secondary endpoints included overall survival (OS), disease control rate (DCR) and progression‐free survival (PFS). The MTD of ivaltinostat for the phase II trial was determined to be 250 mg/m2. In phase II, 24 patients were enrolled. The median OS and PFS were 8.6 (95% confidence interval [CI]: 5.3‐11.2) and 5.3 months (95% CI: 3.7‐5.8). Of the 16 patients evaluated for response, ORR and DCR were 25.0% and 93.8% with a median OS/PFS of 10.8 (95% CI: 8.3‐16.7)/5.8 (95% CI: 4.6‐6.7) months. Correlative studies showed that mutation burden detected by cfDNA and specific blood markers such as TIMP1, pro‐MMP10, PECAM1, proMMP‐2 and IGFBP1 were associated with clinical outcomes. Although the result of a small study, a combination of ivaltinostat, gemcitabine and erlotinib appeared to be a potential treatment option for advanced PDAC.
Late effects, long‐term problems and unmet needs of cancer survivors
Authors: Schmidt Martina E. , Goldschmidt Siri , Hermann Silke , Steindorf Karen 
Published: June 2022

AbstractGreat efforts are being made in cancer treatment, with impressive improvement in survival. The situation concerning research and care for long‐term problems and late effects in the growing population of cancer survivors, however, is unsatisfactory. Therefore, in the FiX survey 1348 disease‐free survivors about 4 years after diagnosis of different cancer types were asked to rate existing burdens and support received for them along a list of 36 potential problems. Health‐related quality of life (HRQoL) was assessed with the EORTC QLQ‐C30. Determinants of burdens were explored using logistic regression analysis. While cancer survivors' global HRQoL, physical and role function ratings were comparable or better than age‐ and sex‐matched reference values of the general population, emotional and cognitive function was worse, especially among women (P < .01). Most frequently reported problems with at least moderate burden were loss of physical performance (36.3%), fatigue (35.1%), sexual problems (34.7%), sleep problems (34.1%), arthralgia (33.8%), anxiety (28.0%), neuropathy (25.6%), memory problems (23.0%) and concentration problems (21.9%). Burdened survivors often rated received support as poor, especially regarding support for problems that physicians might consider medically nonthreatening, or for which no effective pharmacologic or medical treatment is known. Determinants for burden included higher age, female gender, having ever received chemotherapy and overweight/obesity. In conclusion, a significant number of cancer survivors suffer from long‐term or late effects and have unmet care needs. Awareness of health care professionals should be increased for these issues. The results of our study can contribute to the development of targeted survivorship plans.
Adrenocortical carcinoma with inferior vena cava tumor thrombus found during surgery
Authors: Nabeshima Yuta , Yamashita Shimpei , Deguchi Ryusuke , Iwamoto Ryuta , Warigaya Kenji , Koike Hiroyuki , Kikkawa Kazuro , Kohjimoto Yasuo , Murata Shinichi , Hara Isao 
Published: June 2022

IntroductionThe safety and efficacy of minimally invasive approaches for adrenocortical carcinoma with inferior vena cava tumor thrombus have not yet been established. We report a case of large adrenocortical carcinoma with inferior vena cava tumor thrombus found perioperatively which required conversion from a laparoscopic to an open procedure.Case presentationA 71‐year‐old woman with right‐side 10‐cm diameter adrenocortical carcinoma was scheduled for laparoscopic adrenalectomy. The operation was converted to open surgery, however, because inferior vena cava tumor thrombus, which was not detected by preoperative imaging modalities, was found during surgery.ConclusionIn patients with large adrenocortical carcinoma, the possible presence of inferior vena cava thrombus should be considered when selecting surgical procedures.
Clinical examination of cattle. Part 1: Adult dairy and beef cattle
Authors: Nelson Rebecca , Kerby Mike , Remnant John 
Published: June 2022

Background: Carrying out a thorough and systematic clinical examination is a key veterinary skill. The high value of individual animals, and the sometimes limited access to further diagnostics in the field make this particularly important when working with cattle. Cattle may require a clinical examination after presenting as unwell to reach a diagnosis or to aid development of a management plan. The principles of an individual clinical examination can also be applied to population medicine. Individual animal findings may highlight herd‐level risk factors and warrant further investigation. Additionally, a population subset of animals can undergo a targeted examination to determine prevalence of disease in a herd. Finally, a group of animals can be examined as a whole to identify behavioural signs indicative of a problem. At a population level it is important to remember to also thoroughly look at the environment and to examine both farm records and herd data.Aim of the article: In this first article, we will outline an approach to the examination of adult cattle at both an individual and population level. A follow‐up article, to be published in a subsequent issue, will cover examination of youngstock and the use of technology and ancillary testing.
Measuring relative volatility in high‐frequency data under the directional change approach
Authors: Li Shengnan , Tsang Edward P. K. , O'Hara John 
Published: June 2022

SummaryWe introduce a new approach in measuring relative volatility between two markets based on the directional change (DC) method. DC is a data‐driven approach for sampling financial market data such that the data are recorded when the price changes have reached a significant amplitude rather than recording data under a predetermined timescale. Under the DC framework, we propose a new concept of DC micro‐market relative volatility to evaluate relative volatility between two markets. Unlike the time‐series method, micro‐market relative volatility redefines the timescale based on the frequency of the observed DC data between the two markets. We show that it is useful for measuring the relative volatility in micro‐market activities (high‐frequency data).
Sparse group selection and analysis offunction‐relatedresidue forprotein‐staterecognition
Authors: Bai Fangyun , Puk Kin Ming , Liu Jin , Zhou Hongyu , Tao Peng , Zhou Wenyong , Wang Shouyi 
Published: June 2022

AbstractMachine learning methods have helped to advance wide range of scientific and technological field in recent years, including computational chemistry. As the chemical systems could become complex with high dimension, feature selection could be critical but challenging to develop reliable machine learning based prediction models, especially for proteins as bio‐macromolecules. In this study, we applied sparse group lasso (SGL) method as a general feature selection method to develop classification model for an allosteric protein in different functional states. This results into a much improved model with comparable accuracy (Acc) and only 28 selected features comparing to 289 selected features from a previous study. The Acc achieves 91.50% with 1936 selected feature, which is far higher than that of baseline methods. In addition, grouping protein amino acids into secondary structures provides additional interpretability of the selected features. The selected features are verified as associated with key allosteric residues through comparison with both experimental and computational works about the model protein, and demonstrate the effectiveness and necessity of applying rigorous feature selection and evaluation methods on complex chemical systems.
Screening the hub genes and analyzing the mechanisms in discharged COVID‐19 patients retesting positive through bioinformatics analysis
Authors: Fang Ke‐Ying , Liang Gui‐Ning , Zhuang Zhuo‐Qing , Fang Yong‐Xin , Dong Yu‐Qian , Liang Chuang‐Jia , Chen Xin‐Yan , Guo Xu‐Guang 
Published: June 2022

AbstractBackgroundAfter encountering COVID‐19 patients who test positive again after discharge, our study analyzed the pathogenesis to further assess the risk and possibility of virus reactivation.MethodsA separate microarray was acquired from the Gene Expression Omnibus (GEO), and its samples were divided into two groups: a “convalescent‐RTP” group consisting of convalescent and “retesting positive” (RTP) patients (group CR) and a “healthy‐RTP” group consisting of healthy control and RTP patients (group HR). The enrichment analysis was performed with R software, obtaining the Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG). Subsequently, the protein–protein interaction (PPI) networks of each group were established, and the hub genes were discovered using the cytoHubba plugin.ResultsIn this study, 6622 differentially expressed genes were identified in the group CR, among which RAB11B‐AS1, DISP1, MICAL3, PSMG1, and DOCK4 were up‐regulated genes, and ANAPC1, IGLV1‐40, SORT1, PLPPR2, and ATP1A1‐AS1 were down‐regulated. 7335 genes were screened in the group HR, including the top 5 up‐regulated genes ALKBH6, AMBRA1, MIR1249, TRAV18, and LRRC69, and the top 5 down‐regulated genes FAM241B, AC018529.3, AL031963.3, AC006946.1, and FAM149B1. The GO and KEGG analysis of the two groups revealed a significant enrichment in immune response and apoptosis. In the PPI network constructed, group CR and group HR identified 10 genes, respectively, and TP53BP1, SNRPD1, and SNRPD2 were selected as hub genes.ConclusionsUsing the messenger ribonucleic acid (mRNA) expression data from GSE166253, we found TP53BP1, SNRPD1, and SNRPD2 as hub genes in RTP patients, which is vital to the management and prognostic prediction of RTP patients.