cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Reconstructing the mid-infrared environment in the stellar merger remnant V838 Monocerotis
Creators: name: Mobeen, Muhammad Zain
name: Kamiński, Tomasz
name: Matter, Alexis
name: Wittkowski, Markus
name: Monnier, John D.
name: Kraus, Stefan
name: Bouquin, Jean-Baptiste Le
name: Anugu, Narsireddy
name: Brummelaar, Theo Ten
name: Davies, Claire L.
name: Ennis, Jacob
name: Gardner, Tyler
name: Labdon, Aaron
name: Lanthermann, Cyprien
name: Schaefer, Gail H.
name: Setterholm, Benjamin R.
name: Ibrahim, Nour
name: Howell, Steve B.
Publisher: name: arXiv
Year: 2023
Subjects: subject: Solar and Stellar Astrophysics (astro-ph.SR)
subject: High Energy Astrophysical Phenomena (astro-ph.HE)
subject: FOS: Physical sciences

description: V838 Mon is a stellar merger remnant that erupted in 2002 in a luminous red novae event. Although it is well studied in the optical, near infrared and submillimeter regimes, its structure in the mid-infrared wavelengths remains elusive. We observed V838 Mon with the MATISSE (LMN bands) and GRAVITY (K band) instruments at the VLTI and also the MIRCX/MYSTIC (HK bands) instruments at the CHARA array. We geometrically modelled the squared visibilities and the closure phases in each of the bands to obtain constraints on physical parameters. Furthermore, we constructed high resolution images of V838 Mon in the HK bands, using the MIRA and SQUEEZE algorithms to study the immediate surroundings of the star. Lastly, we also modelled the spectral features seen in the K and M bands at various temperatures. The image reconstructions show a bipolar structure that surrounds the central star in the post merger remnant. In the K band, the super resolved images show an extended structure (uniform disk diameter $\sim 1.94$ mas) with a clumpy morphology that is aligned along a north-west position angle (PA) of $-40^\circ$. Whereas in the H band, the extended structure (uniform disk diameter $\sim 1.18$ mas) lies roughly along the same PA. However, the northern lobe is slightly misaligned with respect to the southern lobe, which results in the closure phase deviations. The VLTI and CHARA imaging results show that V838 Mon is surrounded by features that resemble jets that are intrinsically asymmetric. This is also confirmed by the closure phase modelling. Further observations with VLTI can help to determine whether this structure shows any variation over time, and also if such bipolar structures are commonly formed in other stellar merger remnants.
description: 18 pages, 34 figures
title: Alkohol und junge Fahrerinnen und Fahrer
Creators: name: Knafl, Angela
Year: 2008

description: Straßenverkehrsunfälle stellen noch immer die häufigste Todesursache für die Altersgruppe der 18-24-jährigen Autolenker dar. Nicht selten handelt es sich bei den in diesem Zusammenhang registrierten Verkehrsunfällen um Alkoholunfälle. In der vorliegenden Diplomarbeit sollen jene Faktoren ermittelt werden, die für eine negative Lösung des Trink-/Fahrkonflikts bei jungen Fahrerinnen und Fahrern verantwortlich sind. In der quantitativen Untersuchung mittels Online-Fragebogen, an der sich insgesamt 161 Respondenten beteiligten, standen jene Faktoren im Mittelpunkt, die vor allem auf der individuellen Ebene die Bereitschaft zu Trunkenheitsfahrten beeinflussen. Mittels einer multivariaten Regressionsanalyse zeigten sich signifikante Unterschiede zwischen Trunkenheitsfahrern und unauffällige Fahrern vor allem im Bereich alkoholbezogener Einstellungen und der Tendenz zu verkehrsauffälligen Verhaltensweisen. Um die Bedeutung des sozialen Umfelds auf das Verhalten „Fahren unter Alkohol“ zu untersuchen, wurden weiters auch qualitative Interviews geführt. Es zeigte sich, dass es weniger zielführend ist, den Einfluss individueller Verhaltensweisen auf die Bereitschaft zu Alkohol am Steuer isoliert zu betrachten. Denn wie die qualitativen Interviews ergaben, werden vor allem durch Faktoren der informellen sozialen Kontrolle (z.B. vorherrschende Peer-Normen), diese individuellen Persönlichkeitseigenschaften begünstigt oder auch abgeschwächt.
description: Traffic accidents are still the main cause of death for young people between 18 and 24 years. The assumption is that a great majority of fatal crashes are alcohol related. The intention of this study is to examine relations between risk and protective factors and drinking and driving.To find out more about individual behavioural attitudes which influence alcohol impaired driving, 161 car drivers were interviewed in an online-questionnaire. Using the multivariate regression analysis, significant differences between inebriated drivers and ordinary drivers have been established; those differences apply to alcohol-related attitudes and the tendency towards risky driving. Qualitative interviews have been conducted too, in order to examine the impact of the social environment on alcohol-impaired driving. They showed that individual behavioural attitudes cannot be perceived in an isolated fashion in explaining drinking and driving behaviour. Rather, they are affected by factors of informal social control (e.g.: norms in the peer-group).
Additional file 1 of Substantial health and economic burden of COVID-19 during the year after acute illness among US adults at high risk of severe COVID-19
Creators: name: Scott, Amie
name: Ansari, Wajeeha
name: Khan, Farid
name: Chambers, Richard
name: Benigno, Michael
name: Di Fusco, Manuela
name: McGrath, Leah
name: Malhotra, Deepa
name: Draica, Florin
name: Nguyen, Jennifer
name: Atkinson, Joanna
name: Atwell, Jessica E.
Publisher: name: figshare
Year: 2024
Subjects: subject: Medicine
subject: Neuroscience
subject: Physiology
subject: FOS: Biological sciences
subject: Biotechnology
subject: Immunology
subject: FOS: Clinical medicine
subject: Science Policy
subject: Mental Health
subject: Computational Biology

description: Additional file 1: Table S1. Reasons for exclusion from the study.
Identifying novel enzymes for metabolic engineering using homology based sequence searches
Creators: name: Oja, Merja
name: Castillo, Sandra
name: Peddinti, Gopal
Publisher: name: F1000Research
Year: 2017

description: Synthetic biology involves engineering a biological host to achieve a desired function by introducing novel pathways or metabolic enzymes into it. We have developed a bioinformatics pipeline for performing homology based sequence database searches (SeqSearch) to identify novel candidate enzymes for a desired function. The workflow has been applied in several applications including identification of novel isoprene synthases. In the isoprene case study, we used SeqSearch to search across publicly available nucleotide and amino acid sequence databases, and identified novel candidate genes potentially encoding isoprene synthases. The hits were expressed in Escherichia coli and three highest ranking candidate genes produced isoprene in E. coli cells. The isoprene synthase candidate found in Ipomoea batatas produced the highest amounts of isoprene in our experiments, exceeding the levels obtained by previously known candidates.
Power-Aperture Resource Allocation for a MPAR with Communications Capabilities
Creators: name: Aubry, Augusto
name: De Maio, Antonio
name: Pallotta, Luca
Publisher: name: arXiv
Year: 2023
Subjects: subject: Signal Processing (eess.SP)
subject: FOS: Electrical engineering, electronic engineering, information engineering

description: Multifunction phased array radars (MPARs) exploit the intrinsic flexibility of their active electronically steered array (ESA) to perform, at the same time, a multitude of operations, such as search, tracking, fire control, classification, and communications. This paper aims at addressing the MPAR resource allocation so as to satisfy the quality of service (QoS) demanded by both line of sight (LOS) and reflective intelligent surfaces (RIS)-aided non line of sight (NLOS) search operations along with communications tasks. To this end, the ranges at which the cumulative detection probability and the channel capacity per bandwidth reach a desired value are introduced as task quality metrics for the search and communication functions, respectively. Then, to quantify the satisfaction level of each task, for each of them a bespoke utility function is defined to map the associated quality metric into the corresponding perceived utility. Hence, assigning different priority weights to each task, the resource allocation problem, in terms of radar power aperture (PAP) specification, is formulated as a constrained optimization problem whose solution optimizes the global radar QoS. Several simulations are conducted in scenarios of practical interest to prove the effectiveness of the approach.
description: 14 pages, 16 figures
Additional file 1 of Prognostic efficacy of lymph node parameters in resected ampullary adenocarcinoma based on long-term follow-up data after adjuvant treatment
Creators: name: Park, Namyoung
name: Cho, In Rae
name: Lee, Sang Hyub
name: Kim, Joo Seong
name: Choi, Jin Ho
name: Lee, Min Woo
name: Paik, Woo Hyun
name: Joo, Kwang Ro
name: Ryu, Ji Kon
name: Kim, Yong-Tae
Publisher: name: figshare
Year: 2024
Subjects: subject: Medicine
subject: Cell Biology
subject: Biotechnology
subject: Immunology
subject: FOS: Clinical medicine
subject: Mathematical Sciences not elsewhere classified
subject: Cancer

description: Supplementary Material 1.
Additional file 2 of Substantial health and economic burden of COVID-19 during the year after acute illness among US adults at high risk of severe COVID-19
Creators: name: Scott, Amie
name: Ansari, Wajeeha
name: Khan, Farid
name: Chambers, Richard
name: Benigno, Michael
name: Di Fusco, Manuela
name: McGrath, Leah
name: Malhotra, Deepa
name: Draica, Florin
name: Nguyen, Jennifer
name: Atkinson, Joanna
name: Atwell, Jessica E.
Publisher: name: figshare
Year: 2024
Subjects: subject: Medicine
subject: Neuroscience
subject: Physiology
subject: FOS: Biological sciences
subject: Biotechnology
subject: Immunology
subject: FOS: Clinical medicine
subject: Science Policy
subject: Mental Health
subject: Computational Biology

description: Additional file 2: Table S2. Diagnoses of the respiratory system during the baseline and post-acute phases in the overall population (N=19,558)a.
Additional file 1 of Chemical quantification of N-acyl alanine methyl ester (NAME) production and impact on temporal gene expression patterns in Roseovarius tolerans EL-164
Creators: name: Leinberger, Janina
name: Koteska, Diana
name: Boldt, Judith
name: Petersen, Jörn
name: Shivaramu, Sahana
name: Tomasch, Jürgen
name: Schulz, Stefan
name: Brinkhoff, Thorsten
Publisher: name: figshare
Year: 2024
Subjects: subject: Biochemistry
subject: Microbiology
subject: FOS: Biological sciences
subject: Biotechnology
subject: Environmental Sciences not elsewhere classified
subject: Chemical Sciences not elsewhere classified
subject: Biological Sciences not elsewhere classified
subject: Plant Biology

description: Supplementary Material 1: Word document describing pre-experiments, NAME extraction procedures (Table T1) and cultivation of EL-164 for metabolite extraction and spike-in incubations.
title: Auffällig bewegungslos
Creators: name: Mailer, Marianne
Year: 2008

description: Ein flexibles Regelwerk und eine flexible Unterrichtsgestaltung, wie sie für eine Bewegte Schule kennzeichnend sind, können zu einer veränderten Wahrnehmung gegenüber oftmals als abweichend bzw. störend erlebten Verhaltensweisen im schulischen Kontext führen. Auf der anderen Seite kann eine Bewegte Schule der anthropologischen Tatsache Rechnung tragen, dass Bewegung als ein Grundbedürfnis des Menschen zu verstehen ist. Die Vorbereitung der Kinder auf das zukünftige Leben, in dem sowohl Kompetenzen wie Flexibilität, Kreativität und Individualität, als auch die Fähigkeit sich selbständig Wissen anzueignen immer mehr an Bedeutung gewinnen, ist nur durch ein flexibles Regelwerk bzw. eine flexible Unterrichtsgestaltung möglich. Dadurch kann einerseits auf die individuellen Bedürfnisse der Kinder besser eingegangen werden, andererseits wird die Förderung von Begabungen und Talenten ermöglicht.
Investigating tRNA-Val-CAC-1-1: acting as a tRNA or tRF in Drosophila melanogaster
Creators: name: Poff, Adam Dean
Publisher: name: No Publisher Supplied
Year: 2025

description: Animal development is regulated by the organismal genes. These genes are broadly divided into protein coding and non-coding DNA. The latter in comprised of different functional groups, here we focus on investigating the role of transfer RNA (tRNA) in posttranscriptional gene regulation. Some tRNAs can function as tRNA fragments (tRFs). These RNAs act similarly to miRNAs by regulating mRNAs post transcriptionally. The tRNA:Val-CAC-1-1 (ValT) (CR31572) was computationally predicted as tRF in Drosophila melanogaster. One of the predicted 51 targets is Sprouty (Sty), a known negative regulator of the epidermal growth factor receptor (EGFR) signaling pathway. We performed experiments aiming to determine whether ValT acts as tRNA and/or tRF. Using genome engineering, CRISPR/Cas9, the following modifications were done in ValT, including eliminating either its normal tRNA or tRF function by changing the predicted tRF or anticodon domains. All substituted ValTs were homozygous viable. In delta ValT, we expected to see an increase in Sty, which in turn decreases EGFR signaling. Yet, the predicted eggshell phenotypes, which are sensitive to changes in EGFR signaling, were not consistent among the mutants, and no significant change was observed. Next, to achieve a better understanding of ValT functions, all transgenic lines were analyzed by RNAseq. We found groups of genes that were transcribed at different levels that were consistent across mutations in the tRF and others that were consistent across anticodon substitutions. These genes indicate potential targets for future studies into the function of ValT as a tRNA and a tRF.
Additional file 3 of Substantial health and economic burden of COVID-19 during the year after acute illness among US adults at high risk of severe COVID-19
Creators: name: Scott, Amie
name: Ansari, Wajeeha
name: Khan, Farid
name: Chambers, Richard
name: Benigno, Michael
name: Di Fusco, Manuela
name: McGrath, Leah
name: Malhotra, Deepa
name: Draica, Florin
name: Nguyen, Jennifer
name: Atkinson, Joanna
name: Atwell, Jessica E.
Publisher: name: figshare
Year: 2024
Subjects: subject: Medicine
subject: Neuroscience
subject: Physiology
subject: FOS: Biological sciences
subject: Biotechnology
subject: Immunology
subject: FOS: Clinical medicine
subject: Science Policy
subject: Mental Health
subject: Computational Biology

description: Additional file 3: Figure S1. Percentage change from the baseline phase to the post-acute phase in frequency of ICD-10-CM “diseases of the respiratory system” in the overall population (N=19,558). Diagnosis codes shown include those applicable to ≥2% of the baseline population.
Vacaspati: A Diverse Corpus of Bangla Literature
Creators: name: Bhattacharyya, Pramit
name: Mondal, Joydeep
name: Maji, Subhadip
name: Bhattacharya, Arnab
Publisher: name: arXiv
Year: 2023
Subjects: subject: Computation and Language (cs.CL)
subject: FOS: Computer and information sciences

description: Bangla (or Bengali) is the fifth most spoken language globally; yet, the state-of-the-art NLP in Bangla is lagging for even simple tasks such as lemmatization, POS tagging, etc. This is partly due to lack of a varied quality corpus. To alleviate this need, we build Vacaspati, a diverse corpus of Bangla literature. The literary works are collected from various websites; only those works that are publicly available without copyright violations or restrictions are collected. We believe that published literature captures the features of a language much better than newspapers, blogs or social media posts which tend to follow only a certain literary pattern and, therefore, miss out on language variety. Our corpus Vacaspati is varied from multiple aspects, including type of composition, topic, author, time, space, etc. It contains more than 11 million sentences and 115 million words. We also built a word embedding model, Vac-FT, using FastText from Vacaspati as well as trained an Electra model, Vac-BERT, using the corpus. Vac-BERT has far fewer parameters and requires only a fraction of resources compared to other state-of-the-art transformer models and yet performs either better or similar on various downstream tasks. On multiple downstream tasks, Vac-FT outperforms other FastText-based models. We also demonstrate the efficacy of Vacaspati as a corpus by showing that similar models built from other corpora are not as effective. The models are available at https://bangla.iitk.ac.in/.
Interaction between skeletal muscle and adipose tissue through myostatin in pancreatic cancer patients
Creators: name: Wang, Yabing
Publisher: name: University of Iowa
Year: 2027
Subjects: subject: Myostatin
subject: Pancreatic ductal adenocarcinoma (PDAC)
subject: Skeletal Muscle Index (SKMI)
subject: Visceral Adipose Tissue Index (VATI)
subject: Health sciences
subject: FOS: Health sciences
subject: Body Composition
subject: Obesity

description: Background: Pancreatic ductal adenocarcinoma (PDAC) is a devastating disease with a high prevalence of cachexia, a multifactorial syndrome characterized by unintentional weight loss and muscle wasting. In PDAC patients, muscle loss and clinical outcomes tend to be more severe in individuals with obesity. Notably, people with obesity are known to have increased levels of myostatin, a protein that inhibits muscle growth and promotes muscle protein degradation. However, the association between myostatin and body composition in PDAC patients, particularly those with obesity, is poorly understood. Objective: This study aimed to examine the associations between circulating myostatin levels and body composition indices, including skeletal muscle index (SKMI), visceral adipose tissue index (VATI), and subcutaneous adipose tissue index (SATI) in PDAC patients. Methods: A retrospective study used ELISA to measure serum myostatin levels and CT imaging to assess body composition. Aim 1 (n = 121) examined the association between baseline myostatin levels and body composition indices; Aim 2 (n = 96) assessed changes in body composition over time and their association with initial myostatin levels; and Aim 3 (n = 18) explored the association between changes in body composition and changes in myostatin levels. Results: PDAC patients with greater SKMI had higher circulating myostatin levels (p = 0.0123). Furthermore, higher circulating myostatin levels were associated with greater loss of VATI (p = 0.0167). Greater VATI loss was also associated with greater decreases in circulating myostatin levels (p = 0.0233). Conclusions: Our findings suggest an intricate relationship between myostatin and body composition in PDAC patients. Additional studies are needed to explore this interaction and the relationship between myostatin and cachexia in PDAC patients.
Additional file 4 of Substantial health and economic burden of COVID-19 during the year after acute illness among US adults at high risk of severe COVID-19
Creators: name: Scott, Amie
name: Ansari, Wajeeha
name: Khan, Farid
name: Chambers, Richard
name: Benigno, Michael
name: Di Fusco, Manuela
name: McGrath, Leah
name: Malhotra, Deepa
name: Draica, Florin
name: Nguyen, Jennifer
name: Atkinson, Joanna
name: Atwell, Jessica E.
Publisher: name: figshare
Year: 2024
Subjects: subject: Medicine
subject: Neuroscience
subject: Physiology
subject: FOS: Biological sciences
subject: Biotechnology
subject: Immunology
subject: FOS: Clinical medicine
subject: Science Policy
subject: Mental Health
subject: Computational Biology

description: Additional file 4: Table S3. Medication prescriptions during the baseline and post-acute phases in the overall population (N=19,558)a.
Modelling Consolidated Bioprocessing of Cellulose via Population Balances Coupled with Cybernetic Models
Creators: name: FIRNAAZ AHAMED
Publisher: name: Monash University
Year: 2020
Subjects: subject: 100302 Bioprocessing, Bioproduction and Bioproducts
subject: FOS: Industrial biotechnology
subject: Computational Biology
subject: Biological Engineering
subject: 80110 Simulation and Modelling
subject: FOS: Computer and information sciences
subject: 10302 Numerical Solution of Differential and Integral Equations
subject: FOS: Mathematics
subject: 10301 Numerical Analysis

description: The complexity of consolidated bioprocessing (CBP) for conversion of cellulosic biomass to biochemicals eludes a full mechanistic understanding of the underlying process fundamentals, thus, process and microbial strain optimizations are challenging. This research presents a new mechanistic modelling framework – Unified Cybernetic-Population Balance Model (UC-PBM) to address the limitations of CBP. Through the coupling of population balances and cybernetic models, this study reveals the necessity for a closed-loop control mechanism across multiple scales of process features to represent CBP at an adequate resolution to benefit rational reaction engineering. Insights from this work are crucial to overcome the limitations of cellulose bioprocessing.
Supplemental Material - Food monotony compromises photoperiod induced responses in migratory redheaded bunting
Creators: name: Yadav, Anupama
name: Malik, Shalie
name: Rani, Sangeeta
Publisher: name: SAGE Journals
Year: 2023
Subjects: subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences

description: Supplemental Material for Food monotony compromises photoperiod induced responses in migratory redheaded bunting by Anupama Yadav, Shalie Malik and Sangeeta Rani in Avian Biology Research
Additional file 2 of Chemical quantification of N-acyl alanine methyl ester (NAME) production and impact on temporal gene expression patterns in Roseovarius tolerans EL-164
Creators: name: Leinberger, Janina
name: Koteska, Diana
name: Boldt, Judith
name: Petersen, Jörn
name: Shivaramu, Sahana
name: Tomasch, Jürgen
name: Schulz, Stefan
name: Brinkhoff, Thorsten
Publisher: name: figshare
Year: 2024
Subjects: subject: Biochemistry
subject: Microbiology
subject: FOS: Biological sciences
subject: Biotechnology
subject: Environmental Sciences not elsewhere classified
subject: Chemical Sciences not elsewhere classified
subject: Biological Sciences not elsewhere classified
subject: Plant Biology

description: Supplementary Material 2: Word document containing additional figures and tables with results from the quantification experiment (Figures F1-4 and Tables T1-2).
sj-docx-2-hss-10.1177_15563316231174439 – Supplemental material for The Preparticipation Physical Examination for American Football Athletes
Creators: name: Leiszler, Matthew
name: Holtz, Jacob
name: Ward, Cody
Publisher: name: SAGE Journals
Year: 2023
Subjects: subject: 110323 Surgery
subject: FOS: Clinical medicine

description: Supplemental material, sj-docx-2-hss-10.1177_15563316231174439 for The Preparticipation Physical Examination for American Football Athletes by Matthew Leiszler, Jacob Holtz and Cody Ward in HSS Journal®
EFFICIENT DEEP LEARNING FROM CONVOLUTIONAL NEURAL NETWORKS TO TRANSFORMERS.
Creators: name: Long, Yinghan
Publisher: name: Purdue University Graduate School
Year: 2025
Subjects: classificationCode: 460299
subject: Artificial intelligence not elsewhere classified
classificationCode: 400899
subject: Electrical engineering not elsewhere classified
classificationCode: 460207
subject: Modelling and simulation

description: Deep learning models have played a crucial role in advancing the capabilities of Artificial Intelligence (AI), powering a wide range of applications and systems. Over time, these models have evolved from handling basic classification tasks to driving complex generative AI applications. Among the most prominent architectures are Convolutional Neural Networks (CNNs) and transformers, each contributing significantly to the field. However, the increasing size of these models presents significant challenges in training and deploying them on resource-constrained devices. This thesis addresses the growing challenges of deep learning model efficiency and scalability, particularly in the context of distributed systems, attention mechanisms, and diffusion models. By proposing innovative approaches such as conditionally deep hybrid precision networks, complexity-aware training, and the integration of attention with recurrence, we enhance both energy efficiency and inference accuracy in resource-constrained environments. Additionally, our introduction of the Panoptic Diffusion Model (PDM) sets a new benchmark in concurrent image and segmentation map generation, pushing the boundaries of creativity and realism in diffusion models. Together, these contributions pave the way for more efficient and versatile deep learning applications across a range of domains.
Additional file 5 of Substantial health and economic burden of COVID-19 during the year after acute illness among US adults at high risk of severe COVID-19
Creators: name: Scott, Amie
name: Ansari, Wajeeha
name: Khan, Farid
name: Chambers, Richard
name: Benigno, Michael
name: Di Fusco, Manuela
name: McGrath, Leah
name: Malhotra, Deepa
name: Draica, Florin
name: Nguyen, Jennifer
name: Atkinson, Joanna
name: Atwell, Jessica E.
Publisher: name: figshare
Year: 2024
Subjects: subject: Medicine
subject: Neuroscience
subject: Physiology
subject: FOS: Biological sciences
subject: Biotechnology
subject: Immunology
subject: FOS: Clinical medicine
subject: Science Policy
subject: Mental Health
subject: Computational Biology

description: Additional file 5: Table S4. Hospital discharge status during baseline and post-acute phasesa in the overall population and stratified by age.
Supplemental Material - Symptoms burden and rehabilitation preference after an episode of COVID-19: A patients survey
Creators: name: Alhotye, Munyra
name: Daynes, Enya
name: Gerlis, Charlotte
name: Singh, Sally J
Publisher: name: SAGE Journals
Year: 2023
Subjects: subject: 111702 Aged Health Care
subject: FOS: Health sciences
subject: 110203 Respiratory Diseases
subject: FOS: Clinical medicine

description: Supplemental Material for The formal rationality of artificial intelligence-based algorithms and the problem of bias by Munyra Alhotye, Enya Daynes, Charlotte Gerlis and Sally J Singh in Chronic Respiratory Disease
Additional file 1 of Substantial health and economic burden of COVID-19 during the year after acute illness among US adults not at high risk of severe COVID-19
Creators: name: Scott, Amie
name: Ansari, Wajeeha
name: Chambers, Richard
name: Reimbaeva, Maya
name: Mikolajczyk, Tomasz
name: Benigno, Michael
name: Draica, Florin
name: Atkinson, Joanna
Publisher: name: figshare
Year: 2024
Subjects: subject: Medicine
subject: Neuroscience
subject: Biotechnology
subject: Immunology
subject: FOS: Clinical medicine
subject: Science Policy
subject: Hematology
subject: Virology
subject: Computational Biology

description: Additional file 1: Table S1. Reasons for Exclusion From the Study. ICD-10 International Classification of Diseases, 10th Revision, LTCF long-term care facility, SNF skilled nursing facility. aThere is no accurate date of death available, only month and year of death, so it was approximated to the last day of the month.
Supplemental Material - Characteristics of clinical-pharmacological recommendations in psychiatry
Creators: name: Schröder, Sebastian
name: Schulze Westhoff, Martin
name: Pfister, Tabea
name: Bleich, Stefan
name: Wedegärtner, Felix
name: Krüger, Tillmann HC
name: Heck, Johannes
name: Groh, Adrian
Publisher: name: SAGE Journals
Year: 2023
Subjects: subject: 170199 Psychology not elsewhere classified
subject: FOS: Psychology

description: Supplemental Material for Characteristics of clinical-pharmacological recommendations in psychiatry by Sebastian Schröder, Martin Schulze Westhoff, Tabea Pfister, Stefan Bleich, Felix Wedegärtner, Tillmann HC Krüger, Johannes Heck, and Adrian Groh in The International Journal of Psychiatry in Medicine
From single cells to populations:Modelling the dynamics of disease progression from cross-sectional studies using phenotypically-driven pseudotime ordering
Creators: name: Campbell, Kieran R
name: Yau, Christopher
Publisher: name: F1000Research
Year: 2017

description: We extend the idea of single-cell "pseudotime" to cross sectional health studies where we seek to order samples by latent disease progression. To do so we derive a novel type of statistical model termed a covariate-adjusted latent variable model (CLVM) that allows an additional set of covariates to perturb the factor loading matrix. This allows us to learn pseudotimes in the presence of heterogeneous genetic and environmental backgrounds. We apply out model to both single-cells under stimulation and cross sectional TCGA cancer studies.
title: "U-Bahn gleich Aufwertung?"
Creators: name: Indra, Irene
Year: 2008

description: In der vorliegenden Arbeit geht es um die Entwicklung der Mietpreise im Einzugsgebiet neuer U-Bahn-Stationen. Das Interesse an diesem Thema liegt nicht nur für Immobilienmakler und Mieter auf der Hand, sondern ist auch aus stadtplanerischer Sicht bedeutend. Einerseits stellt sich die Frage, ob die Preise durch die U-Bahn-Anbindung steigen. Anderseits, wenn dem so ist, sollte dies ein Anzeichen für eine Aufwertung des Stadtteils sein? Die Preisentwicklung wird im empirischen Teil mittels Inseratanalyse von Wohnungsannoncen geprüft. Dazu wird das Preisniveau der Mieten vor, während und nach der U-Bahn-Errichtung erfasst. Hierfür werden zwei Untersuchungsgebiete herangezogen. Es handelt sich um die Einzugsgebiete der neuen Stationen der U3-Erweiterungsteilstrecken Ottakring und Simmering. Außerdem werden die Ergebnisse mit den Mikrozensus-Daten über Wohnkosten der Statistik Austria für Wien verglichen. Dadurch können Aussagen gefällt werden, ob hier überdurchschnittliche Preiseffekte auftreten und wenn ja, ob diese auf die U-Bahn zurückzuführen sind. Zum Ergebnis lässt sich bereits sagen, dass die U-Bahn keine Garantie für eine Standortaufwertung ist. Hier spielen mehrere Faktoren wie Infrastruktur und Image des Stadtteils eine Rolle. Trotzdem ist eine gute Verkehrsanbindung, insbesondere an das U-Bahnnetz, ein großer Standortvorteil, der genützt werden sollte. So kann die Stadt künftige U-Bahn-Stationen in Gebiete führen, die eine Aufwertung benötigen. Dies müsste jedoch durch begleitende Projekte wie die Verbesserung der Infrastruktur oder die Attraktivierung des Stadtraumes unterstützt werden.
Additional file 1 of Who actualizes postpartum contraceptive intentions? A trajectory cluster analysis
Creators: name: O’Brien, Michelle L.
name: Nur, Aasli Abdi
Publisher: name: figshare
Year: 2024
Subjects: subject: Cell Biology
subject: Biotechnology
subject: Sociology
subject: FOS: Sociology
subject: Immunology
subject: FOS: Clinical medicine
subject: Mathematical Sciences not elsewhere classified
subject: Developmental Biology
subject: Cancer
subject: Computational Biology

description: Supplementary material 1.
Comparing tools for gene prioritization
Creators: name: Guala, Dimitri
name: Sonnhammer, Erik L L
Publisher: name: F1000Research
Year: 2017

description: High throughput experiments e.g. GWAS and RNA interference screens, generate huge amounts of data which can be used to link genes with diseases. These high-throughput methods yield hundreds of associations but contain many False Positives. Gene prioritization methods are used to rank the output from the high throughput experiments in order to focus subsequent experimental efforts on the most promising candidates.

Gene prioritization tools have so far been benchmarked by validating a small number of genes, but this approach gives poor statistical support and does not generalize to other methods. This makes it difficult to compare performance of different tools and choose the right tool for the problem domain. We want to use a sufficiently large amount of genes and objective data to enable robust comparisons of these tools.

To this end we use the Gene Ontology, with thousands of functional classes, and the functional association network FunCoup as data. We apply cross validation with appropriate performance measures to benchmark several state-of-the-art tools. We were able to show significant performance differences and some surprising results. The final output is a systematic and objective benchmark that enables comparison of gene prioritization tools.
Additional file 2 of Substantial health and economic burden of COVID-19 during the year after acute illness among US adults not at high risk of severe COVID-19
Creators: name: Scott, Amie
name: Ansari, Wajeeha
name: Chambers, Richard
name: Reimbaeva, Maya
name: Mikolajczyk, Tomasz
name: Benigno, Michael
name: Draica, Florin
name: Atkinson, Joanna
Publisher: name: figshare
Year: 2024
Subjects: subject: Medicine
subject: Neuroscience
subject: Biotechnology
subject: Immunology
subject: FOS: Clinical medicine
subject: Science Policy
subject: Hematology
subject: Virology
subject: Computational Biology

description: Additional file 2: Table S2. Hormone Prescriptions During the Baseline and Post-Acute Phasea in the Overall Population (N=3792)b. ACTH adrenocorticotropic hormone, NC not calculable, USC Uniform System of Classification. aThe baseline period was the 12 months before the index date, and the post-acute phase spanned from 1 to 13 months after the index date. bIncludes all prescriptions, including those prescribed to <2% of the baseline population (which were excluded from the main analysis).
Reply to "Comment on 'Trivial Andreev Band Mimicking Topological Bulk Gap Reopening in the Nonlocal Conductance of Long Rashba Nanowires'"
Creators: name: Hess, Richard
name: Legg, Henry F.
name: Loss, Daniel
name: Klinovaja, Jelena
Publisher: name: arXiv
Year: 2023
Subjects: subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: Superconductivity (cond-mat.supr-con)
subject: FOS: Physical sciences

description: In this Reply we respond to the comment by Das Sarma and Pan [1] on Hess et al., Phys. Rev. Lett. 130, 207001, "Trivial Andreev Band Mimicking Topological Bulk Gap Reopening in the Nonlocal Conductance of Long Rashba Nanowires" [2]. First, we note that Das Sarma and Pan reproduce the key results of Hess et al., substantiating that our findings are entirely valid. Next, we clarify the incorrect statement by Das Sarma and Pan that the main result of Hess et al. requires a "contrived periodic pristine system", pointing out the extensive discussion of positional disorder in the Hess et al. We also demonstrate that nonlocal conductance features are generically reduced by disorder. This applies to both an Andreev band and to a genuine topological bulk gap reopening signature (BRS). In fact, the suppression of nonlocal conductance of a genuine BRS by disorder was discussed in, e.g., Pan, Sau, Das Sarma, PRB 103, 014513 (2021) [3]. We conclude that, contrary to the claims of Das Sarma and Pan, the minimal model of Hess et al. is relevant to current realistic nanowire devices where only a few overlapping ABSs would be required to mimic a BRS.
description: 2 pages, 1 figure
title: The Wheelhouse
Creators: name: Mattison, Lucian Charles
Publisher: name: Old Dominion University
publisherIdentifier: https://ror.org/04zjtrb98
publisherIdentifierScheme: ROR
Year: 2015

description: The Wheelhouse is a creative work of poetry divided into three sections. The collection's major themes are centered around the notions of cyclical movement, desire, duende, love, and independence. The poems are linked by the use of repeating images and telescopic movement.
Supplemental Material - Twenty years of monitoring acute stroke care in Australia through the national stroke audit programme (1999–2019): A cross-sectional study
Creators: name: Purvis, Tara
name: Cadilhac, Dominique A
name: Hill, Kelvin
name: Reyneke, Megan
name: Olaiya, Muideen T
name: Dalli, Lachlan L
name: Kim, Joosup
name: Murphy, Lisa
name: Campbell, Bruce CV
name: Kilkenny, Monique F
Publisher: name: SAGE Journals
Year: 2023
Subjects: subject: 111708 Health and Community Services
subject: FOS: Health sciences
subject: 111799 Public Health and Health Services not elsewhere classified

description: Supplemental Material for Twenty years of monitoring acute stroke care in Australia through the national stroke audit program (1999–2019): A cross-sectional study by Tara Purvis, Dominique A Cadilhac, Kelvin Hill, Megan Reyneke, Muideen T Olaiya, Lachlan L Dalli, Joosup Kim, Lisa Murphy, Bruce CV Campbell and Monique F Kilkenny in Journal of Health Services Research & Policy.
UniRule: A semi-automated rule-based system for the functional annotation of proteins
Creators: name: Renaux, Alexandre
name: Martin, Maria
name: UniProt Consortium, EMBL-EBI/PIR/SIB
Publisher: name: F1000Research
Year: 2017

description: UniProt provides a comprehensive protein resource to the scientific community, most notably through the UniProt Knowledgebase (UniProtKB). Within UniProtKB, the reviewed section (UniProtKB/Swiss-Prot) contains high quality, manually curated, richly-annotated protein records. In contrast, the unreviewed section (UniProtKB/TrEMBL) which constitutes more than 99% of UniProtKB, is annotated with automatic annotation systems developed within the Consortium and data imports in collaboration with other databases. The use of rule-based annotation is necessary because there is no experimental data available for the majority of the unreviewed protein sequences.

UniRule is a rule-based annotation system leveraging the expert-curated data in UniProtKB/Swiss-Prot. It unifies existing manual rule-based systems (HAMAP, PIR, and RuleBase rules) into one system which manages, applies, and evaluates all rules. Currently, UniRule contains over 5,400 applied rules, which provides annotation for approximately 29% of unreviewed entries. Rules are a formalized way of expressing an association between conditions, which have to be met, and annotations, which are propagated. InterPro signatures, predictive models for the functional classification of protein sequences, and taxonomic constraints are used as conditions.

As a result, UniRule enriches the functional annotation of proteins with nomenclatures, catalytic activities, Gene Ontology terms and sequence features such as transmembrane domains. A key feature of the UniRule curation tool is a statistical quality control system allowing curators to evaluate their rules against the reviewed entries, to make sure rules are as accurate as possible. A dedicated space on the uniprot.org website has been created to allow users to view and explore UniRule.

In the future, we plan to distribute the UniRule rules in a standardised format which will allow users to integrate them into their systems. We will also explore the development of a standalone tool based on a rule-engine to apply the rules on the user's data and infer new protein annotations.
This project is still in development and we would like to involve the community working on functional annotation to help define the data model and the rule format specifications.
Additional file 3 of Substantial health and economic burden of COVID-19 during the year after acute illness among US adults not at high risk of severe COVID-19
Creators: name: Scott, Amie
name: Ansari, Wajeeha
name: Chambers, Richard
name: Reimbaeva, Maya
name: Mikolajczyk, Tomasz
name: Benigno, Michael
name: Draica, Florin
name: Atkinson, Joanna
Publisher: name: figshare
Year: 2024
Subjects: subject: Medicine
subject: Neuroscience
subject: Biotechnology
subject: Immunology
subject: FOS: Clinical medicine
subject: Science Policy
subject: Hematology
subject: Virology
subject: Computational Biology

description: Additional file 3: Table S3. New Medication Prescriptions With a ≥100% Increase From the Baseline to the Post-Acute Phasea in the Overall Population (N=3792)b. USC Uniform System of Classification. aThe baseline period was the 12 months before the index date, and the post-acute phase spanned from 1 to 13 months after the index date. bIncludes all prescriptions, including those prescribed to <2% of the baseline population (which were excluded from the main analysis).
Additional file 2 of Who actualizes postpartum contraceptive intentions? A trajectory cluster analysis
Creators: name: O’Brien, Michelle L.
name: Nur, Aasli Abdi
Publisher: name: figshare
Year: 2024
Subjects: subject: Cell Biology
subject: Biotechnology
subject: Sociology
subject: FOS: Sociology
subject: Immunology
subject: FOS: Clinical medicine
subject: Mathematical Sciences not elsewhere classified
subject: Developmental Biology
subject: Cancer
subject: Computational Biology

description: Supplementary material 2.
A tool and a warning: differential isoform usage with RATs
Creators: name: Kimon Froussios
name: Mourão, Kira
name: Simpson, Gordon G.
name: Barton, Geoffrey J.
name: Schurch, Nicholas J.
Publisher: name: F1000Research
Year: 2017

description: We present the R package “RATs” – (Relative Abundance of Transcripts) – that identifies transcriptome-wide Differential Transcript Usage (DTU) directly from transcript abundance estimations, without requiring access to alignment or assembly information. RATs is agnostic to quantification methods and unique in that it exploits bootstrapped quantifications, if available, to inform the significance of detected DTU events. In addition, RATs shows the DTU results graphically, and achieves a median False Discovery Rate ≤0.05 even at low replication levels. The package is available through Github at https://github.com/bartongroup/Rats.

We applied RATs to a public human RNA-seq dataset for which three DTU events had previously been validated by qRT-PCR. We found that the ability to reproduce the reported DTU events depended on the genome annotation used for quantification of the data. The isoform abundance profiles of two of the three genes changes radically between Ensembl v60 and v87. Of the >500 and >400 DTU events identified respectively by RATs, only 141 were in common and only 8 were among those reported by the original study. Investigation of this discrepancy revealed that the effect size of most of the originally reported events was small and below our threshold. More importantly, our analysis revealed that the qRT-PCR probes designed based on Ensembl v60 no longer corresponded to the intended transcripts according to Ensembl v87, but rather they matched an incompatible multitude of isoforms. As a consequence, interpretation of the original qRT-PCR quantifications is impossible with the newer annotation.
Supplemental Material - Total Hip Arthroplasty in Nonagenarians – A National In-Patient Sample-Based Study of Perioperative Complications
Creators: name: Venishetty, Nikit
name: Toutoungy, Michel
name: Beale, Jack
name: Martinez, Jack
name: Wukich, Dane K.
name: Mounasamy, Varatharaj
name: Huo, Michael H.
name: Sambandam, Senthil
Publisher: name: SAGE Journals
Year: 2023
Subjects: subject: 110308 Geriatrics and Gerontology
subject: FOS: Clinical medicine
subject: 110314 Orthopaedics
subject: 110604 Sports Medicine
subject: FOS: Health sciences
subject: 110323 Surgery

description: Supplemental Material for Total Hip Arthroplasty in Nonagenarians – A National In-Patient Sample-Based Study of Perioperative Complications by Nikit Venishetty, Michel Toutoungy, Jack Beale, Jack Martinez, Dane K. Wukich, Varatharaj Mounasamy, Michael H. Huo, and Senthil Sambandam in Geriatric Orthopaedic Surgery & Rehabilitation
Supplemental Material - Development of phonologically-balanced and perceptually equivalent Singapore Mandarin word lists for word recognition test
Creators: name: Soh, Kimberly Wanxian
name: Loo, Jenny Hooi Yin
Publisher: name: SAGE Journals
Year: 2023
Subjects: subject: 111708 Health and Community Services
subject: FOS: Health sciences
subject: Cardiology
subject: Medicine
subject: 111099 Nursing not elsewhere classified
subject: 111599 Pharmacology and Pharmaceutical Sciences not elsewhere classified
subject: FOS: Clinical medicine
subject: 111799 Public Health and Health Services not elsewhere classified
subject: 110323 Surgery

description: Supplemental Material for Development of phonologically-balanced and perceptually equivalent Singapore Mandarin word lists for word recognition test by Kimberly Wanxian Soh and Jenny Hooi Yin Loo in Proceedings of Singapore Healthcare.
Supplemental Material - Factors affecting pediatric nurses’ development of partnerships with parents of hospitalized children: An evaluation based on the stress-coping adaptation model
Creators: name: Cho, In Young
name: Hong, So Hyoung
name: Yun, Ji Yeong
Publisher: name: SAGE Journals
Year: 2023
Subjects: subject: 111708 Health and Community Services
subject: FOS: Health sciences
subject: 111099 Nursing not elsewhere classified
subject: 111403 Paediatrics
subject: FOS: Clinical medicine

description: Supplemental Material for Factors affecting pediatric nurses’ development of partnerships with parents of hospitalized children: An evaluation based on the stress-coping adaptation model by In Young Cho, So Hyoung Hong and Ji Yeong Yun. Journal of Child Health Care
Additional file 1 of Strategies for addressing the needs of children with or at risk of developmental disabilities in early childhood by 2030: a systematic umbrella review
Creators: name: Smythe, Tracey
name: Scherer, Nathaniel
name: Nanyunja, Carol
name: Tann, Cally J.
name: Olusanya, Bolajoko O.
Publisher: name: figshare
Year: 2024
Subjects: subject: Medicine
subject: Biotechnology
subject: Sociology
subject: FOS: Sociology
subject: Science Policy
subject: Computational Biology

description: Additional file 1. Excluded texts, with reasons for exclusion.
MPEC 2024-O101 : 2024 OU
Creators: name: Minor Planet Center Staff
Publisher: name: The Minor Planet Center
Year: 2024
Subjects: subject: Small Solar System bodies
valueUri: http://astrothesaurus.org/uat/1469
subject: 2024 OU

description: The Minor Planet Electronic Circulars contain information on unusual minor planets, routine data on comets and natural satellites, and occasional editorial announcements.  They are published on behalf of Division F of the International Astronomical Union by the Minor Planet Center, Smithsonian Astrophysical Observatory, Cambridge, MA 02138, U.S.A.