cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
1-octanol-water partitioning as a classifier of water soluble organic matters: Implication for solubility distribution
Creators: name: Mikinori Kuwata
name: Wen-Chien Lee
Publisher: name: Taylor & Francis
Year: 2017
Subjects: subject: Biochemistry
subject: Space Science
subject: Medicine
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: Ecology
subject: FOS: Biological sciences

description: Water-soluble organic matters (WSOMs) play an important role in determining magnitudes of climatic and environmental impacts of organic aerosol particles because of their contributions to hygroscopic growth and cloud formation. These processes are dependent on water solubility as well as distribution of this property in a particle, yet no method has been available to quantify such characteristics. In this study, we developed a theoretical framework to classify WSOM by 1-octanol-water partitioning that has a strong correlation with water solubility. 1-octanol-water partitioning coefficient also has a strong correlation with a traditional solid phase extraction method, facilitating interpretation of data from the technique. The theoretical analysis demonstrated that the distributions of WSOM classified by 1-octanol-water partitioning depend on (1) the volume ratio of 1-octanol and aqueous phases, and (2) extraction steps. The method was tested by using organic aerosol particles generated by smoldering of a mosquito coil, which serves as a surrogate for biomass burning particles. The WSOM extracted from the mosquito coil burning particles was classified by 1-octanol-water partitioning at different volume ratios. These solutions, including both the 1-octanol and aqueous phases, were nebulized to generate particles for measurements using an online aerosol mass spectrometer. The mass spectra indicated that highly oxygenated species tend to be highly soluble, while high molecular weight compounds are less soluble. Linear combinations of these mass spectra allowed the estimation of the mass fractions of WSOM partitioned to 1-octanol and aqueous phases, thereby facilitating the evaluation of the mass fractions of cloud condensation nuclei (CCN) active materials. © 2017 American Association for Aerosol Research
Supplementary information 3: Computer code and accompanying documentation for morphometrics and colourimetric analyses from ddRAD sequencing resolves fine-scale population structure in a benthic invertebrate with implications for understanding phenotypic plasticity
Creators: name: Vendrami, David L. J.
name: Telesca, Luca
name: Weigand, Hannah
name: Weiss, Martina
name: Fawcett, Katie
name: Lehman, Katrin
name: M. S. Clark
name: Leese, Florian
name: McMinn, Carrie
name: Moore, Heather
name: Hoffman, Joseph I.
Publisher: name: The Royal Society
Year: 2017
Subjects: subject: Genetics
subject: FOS: Biological sciences

description: The field of molecular ecology is transitioning from the use of small panels of classical genetic markers such as microsatellites to much larger panels of single nucleotide polymorphisms (SNPs) generated by approaches like RAD sequencing. However, few empirical studies have directly compared the ability of these methods to resolve population structure. This could have implications for understanding phenotypic plasticity, as many previous studies of natural populations may have lacked the power to detect genetic differences, especially over micro-geographic scales. We therefore compared the ability of microsatellites and RAD sequencing to resolve fine-scale population structure in a commercially important benthic invertebrate by genotyping great scallops (Pecten maximus) from nine populations around Northern Ireland at 13 microsatellites and 10 539 SNPs. The shells were then subjected to morphometric and colour analysis in order to compare patterns of phenotypic and genetic variation. We found that RAD sequencing was superior at resolving population structure, yielding higher Fst values and support for two distinct genetic clusters, whereas only one cluster could be detected in a Bayesian analysis of the microsatellite dataset. Furthermore, appreciable phenotypic variation was observed in size-independent shell shape and coloration, including among localities that could not be distinguished from one another genetically, providing support for the notion that these traits are phenotypically plastic. Taken together, our results suggest that RAD sequencing is a powerful approach for studying both population structure and phenotypic plasticity in natural populations.
What role for environmental cooperatives in collective agri-environmental schemes?
Creators: name: Limbach, Kristin
Publisher: name: Taylor & Francis
Year: 2023
Subjects: subject: Environmental Sciences not elsewhere classified
subject: Ecology
subject: FOS: Biological sciences
subject: Science Policy

description: The collective action dilemma inherent to environmental quality problems implies that agri-environmental contracts are best managed collectively. Such collective contracts need to be coordinated, a complex process that in some countries is chaperoned through an associative structure. This research assesses the potential of environmental cooperatives (EC) for the governance of collective agri-environmental contracts. The context in which ECs historically emerged is presented, followed by an analysis across case studies of the factors that can facilitate the role of ECs. These factors are compared to a recent case study on a newly emerged French EC, for which a series of interviews are analysed. This investigation highlights that the role of the EC is above all a facilitating one, mediating between the different interest groups by ensuring three important contract criteria: (1) place-based targets and locally specific measures, (2) a participatory process to contract design, (3) flexibility in the measure’s adaptation.
Gut microbiota & gut-brain axis summary document
Creators: name: Campbell, Kristina
name: Enck, Paul
name: Prados, Andreu
name: Premysl Bercik
Publisher: name: figshare
Year: 2017
Subjects: subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences

description: This document covers recent science linking the gut microbiota to brain-related disorders via the gut-brain axis. It contains a summary written by Paul Enck and Kristina Campbell, and an editorial by Premysl Bercik summarizing the research to date on the role of gut microbiota in gut-brain communication and in the patholophysiology of disorders related to brain function and behaviour. The document highlights seven literature selections that indicate the direction of the field, and lists science-based resources for further information.
title: Creencias y actitudes lingüísticas de estudiantes universitarios de español en el Reino Unido hacia las variedades dialectales del español europeo: el caso del ceceo, del seseo y de la distinción entre /s/ y /θ/
title: Beliefs and language attitudes of university students of Spanish in the United Kingdom towards the dialectal varieties of European Spanish: the case of ceceo, seseo, and distinción of /s/ and /θ/ sounds
titleType: AlternativeTitle
Creators: name: Saborido Beltrán, Mario
Publisher: name: The University of Edinburgh
Year: 2025
Subjects: subject: Language attitudes
subject: Dialectal varieties
subject: Ceceo, seseo, distinción
subject: Phonetic variation
subject: Discriminatory attitudes

description: This research project arises from the need to surface and understand attitudinal factors in teaching and learning Spanish as a foreign language. Its main aim is to analyse the language beliefs held by present-day university students in the United Kingdom towards European dialectal varieties of Spanish and the phonetic variation phenomena of ceceo, seseo and distinción of /s/ and /θ/ sounds. Focussing on affective and cognitive criteria, social status, and personal characteristics, this study has adapted the methodology primarily developed in the Project for the study of beliefs and attitudes towards the varieties of Spanish in the XXI century (PRECAVES-XXI) (2013). The results that I present build upon PRECAVES-XXI to reveal problematic language ideologies and discriminatory attitudes towards some European varieties and certain associated linguistic phenomena. Finally, I conclude with a reflection on the impact that this research project may have on the teaching and learning of Spanish, both within the context of UK Higher Education and internationally.
1-Octanol-Water Partitioning as a Classifier of Water Soluble Organic Matters: Implication for Solubility Distribution
Creators: name: Mikinori Kuwata
name: Wen-Chien Lee
Publisher: name: Taylor & Francis
Year: 2017
Subjects: subject: Biochemistry
subject: Space Science
subject: Medicine
subject: Cell Biology
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: Ecology
subject: FOS: Biological sciences

description: Water-soluble organic matters (WSOM) play an important role in determining magnitudes of climatic and environmental impacts of organic aerosol particles because of their contributions to hygroscopic growth and cloud formation. These processes are dependent on water solubility as well as distribution of this property in a particle, yet no method has been available to quantify such characteristics. In this study, we developed a theoretical framework to classify WSOM by 1-octanol-water partitioning that has a strong correlation with water solubility. 1-octanol-water partitioning coefficient also has a strong correlation with a traditional solid phase extraction method, facilitating interpretation of data from the technique. The theoretical analysis demonstrated that the distributions of WSOM classified by 1-octanol-water partitioning depend on (1) the volume ratio of 1-octanol and aqueous phases, and (2) extraction steps. The method was tested by using organic aerosol particles generated by smoldering of a mosquito coil, which serves as a surrogate for biomass burning particles. The WSOM extracted from the mosquito coil burning particles was classified by 1-octanol-water partitioning at different volume ratios. These solutions, including both the 1-octanol and aqueous phases, were nebulized to generate particles for measurements using an online aerosol mass spectrometer. The mass spectra indicated that highly oxygenated species tend to be highly soluble, while high molecular weight compounds are less soluble. Linear combinations of these mass spectra allowed the estimation of the mass fractions of WSOM partitioned to 1-octanol and aqueous phases, thereby facilitating the evaluation of the mass fractions of cloud condensation nuclei (CCN) active materials.
Supplementary information 3 from ddRAD sequencing resolves fine-scale population structure in a benthic invertebrate with implications for understanding phenotypic plasticity
Creators: name: Vendrami, David L. J.
name: Telesca, Luca
name: Weigand, Hannah
name: Weiss, Martina
name: Fawcett, Katie
name: Lehman, Katrin
name: M. S. Clark
name: Leese, Florian
name: McMinn, Carrie
name: Moore, Heather
name: Hoffman, Joseph I.
Publisher: name: The Royal Society
Year: 2017
Subjects: subject: Genetics
subject: FOS: Biological sciences

description: Computer code and accompanying documentation for morphometrics and colourimetric analyses.
Supplementary Figure 3 from Increasing cognitive load attenuates right arm swing in healthy human walking
Creators: name: Killeen, Tim
name: Easthope, Christopher S.
name: Filli, Linard
name: Lőrincz, Lilla
name: Schrafl-Altermatt, Miriam
name: Brugger, Peter
name: Linnebank, Michael
name: Curt, Armin
name: Zörner, Björn
name: Bolliger, Marc
Publisher: name: The Royal Society
Year: 2017
Subjects: subject: Neuroscience
subject: 110601 Biomechanics
subject: FOS: Health sciences
subject: 170299 Cognitive Science not elsewhere classified
subject: FOS: Psychology

description: Basic spatiotemporal parameters under increasing cognitive loads during treadmill walking in younger, middle-aged and older adults. Statistical significance was determined using a linear mixed model with post-hoc t-tests. P values are corrected for multiple comparisons within each age group using the Bonferroni method. Error bars indicate 1 standard error of the mean. CoV; coefficient of variation.
Supplementary Figure 1 from Increasing cognitive load attenuates right arm swing in healthy human walking
Creators: name: Killeen, Tim
name: Easthope, Christopher S.
name: Filli, Linard
name: Lőrincz, Lilla
name: Schrafl-Altermatt, Miriam
name: Brugger, Peter
name: Linnebank, Michael
name: Curt, Armin
name: Zörner, Björn
name: Bolliger, Marc
Publisher: name: The Royal Society
Year: 2017
Subjects: subject: Neuroscience
subject: 110601 Biomechanics
subject: FOS: Health sciences
subject: 170299 Cognitive Science not elsewhere classified
subject: FOS: Psychology

description: Effect of cognitive load on ASI for the entire cohort (n = 119), separated into three groups based on inclusion status. Only individuals exhibiting an ASI between -20 and 20 were included in the final analysis. Low baseline ASI; excluded group exhibiting a right-dominant ASI during normal walking of < -20 (n=8). High baseline ASI; excluded group exhibiting a left-dominant ASI during normal walking of > 20 (n=28). ASI is given as the mean value per gait cycle over a trial of 45 seconds (approximately 42 gait cycles at 4kmh-1). Error bars represent 95% confidence intervals. ASI; arm swing symmetry index.
Supplementary Table 1 from Increasing cognitive load attenuates right arm swing in healthy human walking
Creators: name: Killeen, Tim
name: Easthope, Christopher S.
name: Filli, Linard
name: Lőrincz, Lilla
name: Schrafl-Altermatt, Miriam
name: Brugger, Peter
name: Linnebank, Michael
name: Curt, Armin
name: Zörner, Björn
name: Bolliger, Marc
Publisher: name: The Royal Society
Year: 2017
Subjects: subject: Neuroscience
subject: 110601 Biomechanics
subject: FOS: Health sciences
subject: 170299 Cognitive Science not elsewhere classified
subject: FOS: Psychology

description: Mean ± SEM of gait parameters under three walking conditions on a treadmill; normal walking (no additional cognitive load), walking while performing a congruent Stroop task and walking while performing an incongruent Stroop task. Step length is the distance in the progression axis from heel strike to ipsilateral heel strike. Step width is the distance in the lateral axis from heel strike to contralateral heel strike. Phase dispersion is calculated as the point in the time normalised gait cycle at which the coordinated event occurs during the cycle of the second limb expressed as a percentage of the latter, with maximal arm protraction taken as the index event for arm swing and toe-off taken as that for stepping. Foot clearance is reported as the distance in the vertical axis of the toe marker from the treadmill at the point of ipsilateral mid swing. * indicates significant change to baseline walking condition, † indicates significant change between incongruent and congruent Stroop task condition (linear mixed model, p=0.05). CoV; coefficient of variation.
Supplementary Figure 4 from Increasing cognitive load attenuates right arm swing in healthy human walking
Creators: name: Killeen, Tim
name: Easthope, Christopher S.
name: Filli, Linard
name: Lőrincz, Lilla
name: Schrafl-Altermatt, Miriam
name: Brugger, Peter
name: Linnebank, Michael
name: Curt, Armin
name: Zörner, Björn
name: Bolliger, Marc
Publisher: name: The Royal Society
Year: 2017
Subjects: subject: Neuroscience
subject: 110601 Biomechanics
subject: FOS: Health sciences
subject: 170299 Cognitive Science not elsewhere classified
subject: FOS: Psychology

description: Mean toe clearance at ipsilateral mid-swing under increasing cognitive load. Statistical significance was determined using a linear mixed model with post-hoc t-tests. P values are corrected for multiple comparisons within each age group using the Bonferroni method. Error bars indicate 1 standard error of the mean
Understanding coaching practice in professional youth football: deconstructing coaching philosophy
Creators: name: Partington, Mark
Publisher: name: Loughborough University
Year: 2020
Subjects: subject: 119999 Medical and Health Sciences not elsewhere classified
subject: FOS: Other medical sciences

description: The purpose of this research was to understand the social construction of coaching philosophy and investigate how it articulated with, and impacted, coaching practice. Current understandings of coaching philosophy suffer from a lack of conceptual clarity and are often presented as coach centric ideals that are both disconnected from, and not reflected in, coaches’ practice (Lyle & Cushion, 2017). To further ‘muddy the water’ there remains an absence of philosophical thought employed in coaching philosophy, such as ontology, axiology, ethics (Hardman & Jones, 2013) and epistemology (Light, 2008). To address this gap, data were collected from a case study of one professional English youth male football Academy. The research lasted over fifteen months and during this time multiple interviews with coaches and field observations of their practice took place. In addition, observations of discussions were also undertaken with coach developers, first team and Academy staff. The data were analysed using Braun and Clarke’s (2006) thematic analysis. Subsequently, the themes were subjected to a higher level of theoretical abstraction using the work of Bourdieu. Here Bourdieu’s thinking tools of field, capital and habitus, were used to make connections between the themes and to increase the depth of the study’s explanatory outcomes. Analysis revealed that coaching philosophy was mainly associated with tactical and technical knowledge of the sport. Coaching philosophy also functioned as symbolic capital in power relations to rationalise practice rather than provide a clear guide to question and underpin coach’s individual practice. A coaching field existed and was influenced by a logic that valorised professional playing experience, National Governing Body coaching qualifications and social connections as symbolic capital. The symbolic capitals in the coaching field structured coach’s positions. Hence, coaches’ practice in this case was driven and misrecognised by the ‘rules of the game’ coupled with a desire to maintain or improve their position within the field. What resulted was an uncritical reproduction of established practice, ideology and power. Subsequently, the recommendations from this research proposes that coach education distinguishes between coaching philosophy, philosophical concepts and tactical and technical knowledge. In doing so, coaches need to be given support to identify a philosophy of coaching that includes epistemology, ontology, axiology and ethics. Coaches also need the reflexive tools and understanding to become aware of tradition, culture and relations of power inherent within social structures that can influence their practice.
Supplementary Figure 2 from Increasing cognitive load attenuates right arm swing in healthy human walking
Creators: name: Killeen, Tim
name: Easthope, Christopher S.
name: Filli, Linard
name: Lőrincz, Lilla
name: Schrafl-Altermatt, Miriam
name: Brugger, Peter
name: Linnebank, Michael
name: Curt, Armin
name: Zörner, Björn
name: Bolliger, Marc
Publisher: name: The Royal Society
Year: 2017
Subjects: subject: Neuroscience
subject: 110601 Biomechanics
subject: FOS: Health sciences
subject: 170299 Cognitive Science not elsewhere classified
subject: FOS: Psychology

description: Changes in ASI in individuals under increasing cognitive load for the entire cohort (n = 119), including excluded groups. ASI is given as the mean value per gait cycle over a trial of 45 seconds (approximately 42 gait cycles at 4kmh-1). Individuals' ASI values in the three different trials are linked with a dotted line. Individuals with an ASI less than -20 or more than 20 during normal walking were excluded from the final analysis. The ASI of these individuals during the incongruent Stroop task are indicated by a + (ASI during normal walking > 20) or a - (ASI during normal walking < -20).
Subjective and Objective Outcome Measures in Spine Surgery
Creators: name: Gautschi, Oliver
Publisher: name: Université de Genève
Year: 2016
Subjects: info:eu-repo/classification/ddc/616.8
Outcome measures
Subjective
Objective
Timed up and go test
Lumbar spine surgery
Degenerative disc disease

description: Multiple factors are important for the functional and health-related quality of life (HRQoL) assessment of patients with lumbar degenerative disc disease (DDD), both before and after surgical treatment. The surgeon's experience and background as well as a detailed analysis of both intrinsic and environmental factors constitute the cornerstones of the pre-operative evaluation and help to determine the optimal surgical treatment, tailored to the individual patient requiring lumbar spine surgery (LSS). In the era of evidence-based medicine and increasing demand for quality control, the worldwide trend is to use standardized methods such as questionnaires and scores to assess the functional impairment of patients scheduled for LSS, as well as for the outcome assessment after treatment. Nowadays, the tools most widely used in daily clinical practice include the Oswestry Disability Index and the Roland-Morris Disability Index to assess functional outcome, as well as the Short-Form 36 or 12 and EuroQol-5D to assess HRQoL, besides additional measures including the Visual Analogue Scale to measure back and leg pain intensity. All these assessment tools are, however, highly subjective in their nature. Currently, the perioperative assessment lacks objective standardized measures. We therefore introduced the Timed Up and Go (TUG) test to measure objective functional impairment (OFI) in patients with lumbar DDD. The TUG test evaluates basic but nonetheless important functions such as standing up, ambulating, changing direction, ambulating again and seating oneself. These are fundamental functions for patients to recuperate their activities of daily living and regain HRQoL after LSS. Moreover, the TUG test is fast and simple to perform, as it only necessitates an armchair and 3 meters of walking space. The goal of this project is to compare the TUG test with established patient reported outcome measures, to demonstrate that the TUG test is a useful tool to evaluate OFI in patients with lumbar DDD, as well as to establish its relationship to different patient-specific and radiological parameters, e.g. sex, age, body mass index, mental and smoking status, as well as Pfirrmann disc and Modic endplate degenerative changes scores.
Integrated health systems for chronic disease management: lessons from Type 1 diabetes in Low Income Settings
Creators: name: Beran, David Henri
Publisher: name: Université de Genève
Year: 2016
Subjects: info:eu-repo/classification/ddc/613
diabète
intégration
systèmes de santé
maladies chroniques

description: This thesis is a review of a series of articles looking at different aspects of diabetes management in low and middle incomes countries. From the lessons learnt this work aims to develop a model for integration of diabetes and chronic diseases.
Additional fileÂ 4: of Integration of maternal postpartum services in maternal and child health services in Kaya health district (Burkina Faso): an intervention time trend analysis
Creators: name: YugbarĂŠ Belemsaga, Danielle
name: Goujon, Anne
name: Tougri, Halima
name: Coulibaly, Abou
name: Degomme, Olivier
name: Duysburgh, Els
name: Temmerman, Marleen
name: Kouanda, Seni
Publisher: name: figshare
Year: 2018
Subjects: subject: Medicine
subject: Evolutionary Biology
subject: FOS: Biological sciences
subject: Immunology
subject: FOS: Clinical medicine
subject: Developmental Biology
subject: Infectious Diseases
subject: FOS: Health sciences

description: Table S3. Comparison of PP visit utilization rate from the linked data and from the monitoring. Table S3 compares data from the two methods used (the matched records between the motherâ s PP visit and the utilization of immunization services, and the monitoring data) during the same period, from September 2013 to August 2014. There is a difference at day 6â 10 when PP visit utilization rate was generally lower with monitoring data compared to linked data, except in Delga, Kalambaogo and Tangasgo HFs. In general, comparability is better in rural HFs. Depending on the HF, the quality of the data differs according to the visit and probably according to the provider who fills in the registers. A more systematic registration of women and children through identification numbers could for instance improve the situation and facilitate the monitoring of activities. (DOCX 13 kb)
MOESM1 of A RecET-assisted CRISPR–Cas9 genome editing in Corynebacterium glutamicum
Creators: name: Wang, Bo
name: Hu, Qitiao
name: Zhang, Yu
name: Shi, Ruilin
name: Chai, Xin
name: Liu, Zhe
name: Shang, Xiuling
name: Zhang, Yun
name: Wen, Tingyi
Publisher: name: figshare
Year: 2018
Subjects: subject: Biochemistry
subject: Microbiology
subject: FOS: Biological sciences
subject: Cell Biology
subject: Genetics
subject: Molecular Biology
subject: Evolutionary Biology
subject: Ecology
subject: Developmental Biology
subject: Marine Biology
subject: Cancer
subject: Infectious Diseases
subject: FOS: Health sciences

description: Additional file 1: Figure S1. Colony PCR verification of cas9 integration. Figure S2. Colony PCR verification of upp deletion in WT::P hom -cas9. Figure S3. Colony PCR verification of upp deletion in WT::P tuf -cas9. Figure S4. Colony PCR verification of upp deletion in WT::P tuf -rbs1-cas9. Figure S5. Colony PCR verification of upp deletion in WT::P tuf -rbs2-cas9. Figure S6. Colony PCR verification of recET integration. Figure S7. Colony PCR verification of upp deletion in WT::P tuf -rbs2-cas9::P prp -recET. Figure S8. Colony PCR verification of upp deletion in WT::P tuf -rbs2-cas9::P prp -rbs3-recET. Figure S9. Colony PCR verification of upp deletion in WT::P tuf -rbs2-cas9::P prp -rbs4-recET (EDT). Figure S10. Colony PCR verification of argR deletion in EDT. Figure S11. Colony PCR verification of farR deletion in EDT△argR. Figure S12. Colony PCR verification of ldh deletion via pHA500sgRNA ldh in EDT. Figure S13. Colony PCR verification of ldh deletion via pHA1000sgRNA ldh in EDT. Figure S14. Colony PCR verification of 1-kb fragment deletion at the CGP3 locus in EDT. Figure S15. Colony PCR verification of 10-kb fragment deletion at the CGP3 locus in EDT. Figure S16. Colony PCR verification of 20-kb fragment deletion at the CGP3 locus in EDT. Figure S17. Colony PCR verification of gfp and hom-thrB insertion at the upp locus in EDT. Figure S18. Colony PCR verification of gfp insertion at the CGP1 locus in ET. Figure S19. Colony PCR verification of gfp insertion at the CGP2 locus in EDT. Figure S20. Colony PCR verification of gfp insertion at the CGP3 locus in EDT. Figure S21. Colony PCR verification of P tuf -hom-thrB, P tuf -hom-thrB-P glyA -lysC-thrC and P tuf -trpEG-P glyA - trpDC-P sod -trpBA insertions at the upp locus in EDT. Figure S22. Colony PCR verification of lacZ fragment insertion into the genomic locus between cgl0900 and cgl0901. Figure S23. Colony PCR verification of ldh deletion in EDT. Figure S24. Colony PCR verification of hdpA deletion in EDT△ldh. Figure S25. Colony PCR verification of plug out of cas9–recET expression cassette in EDT△ldh△hdpAP hom -pgk. Table S1. Editing efficiencies using different genome editing methods in C. glutamicum. Table S2. Strains used in this study. Table S3. Plasmids used in this study. Table S4. Primers used in this study.
Calycopis_supplemental_table_S2 from When COI barcodes deceive: complete genomes reveal introgression in hairstreaks
Creators: name: Cong, Qian
name: Jinhui Shen
name: Borek, Dominika
name: Robbins, Robert K.
name: Opler, Paul A.
name: Zbyszek Otwinowski
name: Grishin, Nick V.
Publisher: name: The Royal Society
Year: 2017
Subjects: subject: Evolutionary Biology
subject: FOS: Biological sciences
subject: 60102 Bioinformatics
subject: FOS: Computer and information sciences
subject: 60408 Genomics

description: Two species of hairstreak butterflies from the genus Calycopis are known in the United States: C. cecrops and C. isobeon. Analysis of mitochondrial COI barcodes of Calycopis revealed cecrops-like specimens from the eastern US with atypical barcodes that were 2.6% different from either USA species, but similar to Central American Calycopis species. To address the possibility that the specimens with atypical barcodes represent an undescribed cryptic species, we sequenced complete genomes of 27 Calycopis specimens of four species: C. cecrops, C. isobeon, C. quintana and C. bactra. Some of these specimens were collected up to 60 years ago and preserved dry in museum collections, but nonetheless produced genomes as complete as fresh samples. Phylogenetic trees reconstructed using the whole mitochondrial and nuclear genomes were incongruent. While USA Calycopis with atypical barcodes grouped with Central American species C. quintana by mitochondria, nuclear genome trees placed them within typical USA C. cecrops in agreement with morphology, suggesting mitochondrial introgression. Nuclear genomes also show introgression, especially between C. cecrops and C. isobeon. About 2.3% of each C. cecrops genome has probably (p-value C. isobeon and about 3.4% of each C. isobeon genome may have come from C. cecrops. The introgressed regions are enriched in genes encoding transmembrane proteins, mitochondria-targeting proteins and components of the larval cuticle. This study provides the first example of mitochondrial introgression in Lepidoptera supported by complete genome sequencing. Our results caution about relying solely on COI barcodes and mitochondrial DNA for species identification or discovery.
Calycopis_supplemental_figures from When COI barcodes deceive: complete genomes reveal introgression in hairstreaks
Creators: name: Cong, Qian
name: Jinhui Shen
name: Borek, Dominika
name: Robbins, Robert K.
name: Opler, Paul A.
name: Zbyszek Otwinowski
name: Grishin, Nick V.
Publisher: name: The Royal Society
Year: 2017
Subjects: subject: Evolutionary Biology
subject: FOS: Biological sciences
subject: 60102 Bioinformatics
subject: FOS: Computer and information sciences
subject: 60408 Genomics

description: Two species of hairstreak butterflies from the genus Calycopis are known in the United States: C. cecrops and C. isobeon. Analysis of mitochondrial COI barcodes of Calycopis revealed cecrops-like specimens from the eastern US with atypical barcodes that were 2.6% different from either USA species, but similar to Central American Calycopis species. To address the possibility that the specimens with atypical barcodes represent an undescribed cryptic species, we sequenced complete genomes of 27 Calycopis specimens of four species: C. cecrops, C. isobeon, C. quintana and C. bactra. Some of these specimens were collected up to 60 years ago and preserved dry in museum collections, but nonetheless produced genomes as complete as fresh samples. Phylogenetic trees reconstructed using the whole mitochondrial and nuclear genomes were incongruent. While USA Calycopis with atypical barcodes grouped with Central American species C. quintana by mitochondria, nuclear genome trees placed them within typical USA C. cecrops in agreement with morphology, suggesting mitochondrial introgression. Nuclear genomes also show introgression, especially between C. cecrops and C. isobeon. About 2.3% of each C. cecrops genome has probably (p-value C. isobeon and about 3.4% of each C. isobeon genome may have come from C. cecrops. The introgressed regions are enriched in genes encoding transmembrane proteins, mitochondria-targeting proteins and components of the larval cuticle. This study provides the first example of mitochondrial introgression in Lepidoptera supported by complete genome sequencing. Our results caution about relying solely on COI barcodes and mitochondrial DNA for species identification or discovery.
Park et al Low frequency hearing preceded the evolution of giant body size and filter feeding in baleen whales_ESM
Creators: name: Park, Travis
name: Evans, Alistair R.
name: Gallagher, Stephen J.
name: Fitzgerald, Erich M. G.
Publisher: name: The Royal Society
Year: 2017
Subjects: subject: Evolutionary Biology
subject: FOS: Biological sciences

description: ESM for Park et al toothed mysticete cochlea paper
Calycopis_supplemental_figures from When COI barcodes deceive: complete genomes reveal introgression in hairstreaks
Creators: name: Cong, Qian
name: Jinhui Shen
name: Borek, Dominika
name: Robbins, Robert K.
name: Opler, Paul A.
name: Zbyszek Otwinowski
name: Grishin, Nick V.
Publisher: name: The Royal Society
Year: 2017
Subjects: subject: Evolutionary Biology
subject: FOS: Biological sciences
subject: 60102 Bioinformatics
subject: FOS: Computer and information sciences
subject: 60408 Genomics

description: Two species of Hairstreak butterflies from the genus Calycopis are known in the United States: C. cecrops and C. isobeon. Analysis of mitochondrial COI barcodes of Calycopis revealed cecrops-like specimens from the eastern US with atypical barcodes that were 2.6% different from either USA species, but similar to Central American Calycopis species. To address the possibility that the specimens with atypical barcodes represent an undescribed cryptic species, we sequenced complete genomes of 27 Calycopis specimens of four species: C. cecrops, C. isobeon, C. quintana and C. bactra. Some of these specimens were collected up to 60 years ago and preserved dry in museum collections, but nonetheless produced genomes as complete as fresh samples. Phylogenetic trees reconstructed using the whole mitochondrial and nuclear genomes were incongruent. While USA Calycopis with atypical barcodes grouped with Central American species C. quintana by mitochondria, nuclear genome trees placed them within typical USA C. cecrops in agreement with morphology, suggesting mitochondrial introgression. Nuclear genomes also show introgression, especially between C. cecrops and C. isobeon. About 2.3% of each C. cecrops genome has likely (p-value C. isobeon and about 3.4% of each C. isobeon genome may have come from C. cecrops. The introgressed regions are enriched in genes encoding transmembrane proteins, mitochondria-targeting proteins and components of the larval cuticle. This study provides the first example of mitochondrial introgression in Lepidoptera supported by complete genome sequencing. Our results caution about relying solely on COI barcodes and mitochondrial DNA for species identification or discovery.
MOESM2 of A RecET-assisted CRISPRâ Cas9 genome editing in Corynebacterium glutamicum
Creators: name: Wang, Bo
name: Hu, Qitiao
name: Zhang, Yu
name: Shi, Ruilin
name: Chai, Xin
name: Liu, Zhe
name: Shang, Xiuling
name: Zhang, Yun
name: Wen, Tingyi
Publisher: name: figshare
Year: 2018
Subjects: subject: Biochemistry
subject: Space Science
subject: Microbiology
subject: FOS: Biological sciences
subject: Genetics
subject: Molecular Biology
subject: Evolutionary Biology
subject: Ecology
subject: Biological Sciences not elsewhere classified
subject: Information Systems not elsewhere classified
subject: Marine Biology
subject: Mental Health

description: Additional file 2: Standard protocol of a RecET-assisted CRISPR-Cas9 genome editing in Corynebacterium glutamicum.
Perinatal Stroke : Distinct Causes, Diverse Outcomes
Creators: name: Fluss, Joel Victor
Publisher: name: Université de Genève
Year: 2016
Subjects: info:eu-repo/classification/ddc/618

description: Perinatal stroke is a generic term that encompasses distinct disorders which differ either from the point of view of causality, timing or mode of onset. The overall prevalence at term is around 20-60/100000 live births, mostly term neonates. Classically, one distinguishes: - Neonatal arterial ischemic stroke (NAIS) and neonatal cerebral sinovenous thrombosis (NCSVT) that manifest soon after birth; -Presumed perinatal ischemic stroke (PPIS) that is also divided into arterial presumed stroke (APPIS) and venous stroke (PVI), and that manifests after the neonatal period, most often with motor asymmetry; and - Perinatal primary hemorrhagic stroke (PHS). Rarely, fetal strokes are diagnosed on antenatal imaging or on autopsy in stillbirths.
Additional file 1: of Prevalence, risk factors and associated adverse pregnancy outcomes of anaemia in Chinese pregnant women: a multicentre retrospective study
Creators: name: Lin, Li
name: Wei, Yumei
name: Zhu, Weiwei
name: Wang, Chen
name: Su, Rina
name: Feng, Hui
name: Yang, Huixia
Publisher: name: figshare
Year: 2018
Subjects: subject: Medicine
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Pharmacology
subject: Biotechnology
subject: Immunology
subject: FOS: Clinical medicine
subject: Biological Sciences not elsewhere classified
subject: Mathematical Sciences not elsewhere classified
subject: Developmental Biology
subject: Science Policy
subject: Infectious Diseases
subject: FOS: Health sciences
subject: Computational Biology

description: Questionnaire. (DOCX 104Â kb)
Electronic supplementary material from Egg discrimination along a gradient of natural variation in eggshell coloration
Creators: name: Hanley, Daniel
name: Tomáš Grim
name: Igic, Branislav
name: Samaš, Peter
name: López, Analía V.
name: Shawkey, Matthew D.
name: Hauber, Mark E.
Publisher: name: The Royal Society
Year: 2017
Subjects: subject: Ecology
subject: FOS: Biological sciences
subject: 170299 Cognitive Science not elsewhere classified
subject: FOS: Psychology
subject: 60801 Animal Behaviour

description: Extended Materials and Methods
ESM provide information about supplementary methods and results, along with tables from the statistical analyses described in the main manuscript. from Acquisition and functional consequences of social knowledge in macaques
Creators: name: Tiddi, Barbara
name: Sorrentino, Eugenia Polizzi Di
name: Fischer, Julia
name: Schino, Gabriele
Publisher: name: The Royal Society
Year: 2017
Subjects: subject: Evolutionary Biology
subject: FOS: Biological sciences
subject: 170299 Cognitive Science not elsewhere classified
subject: FOS: Psychology
subject: 60801 Animal Behaviour

description: To manoeuvre in complex societies, it is beneficial to acquire knowledge about the social relationships existing among group mates, so as to better predict their behaviour. Although such knowledge has been firmly established in a variety of animal taxa, how animals acquire such knowledge, as well as its functional significance, remains poorly understood. In order to understand how primates acquire and use their social knowledge, we studied kin-biased redirected aggression in Japanese macaques (Macaca fuscata) relying on a large database of over 15 000 aggressive episodes. Confirming previous research, macaques redirected aggression preferentially to the kin of their aggressor. An analysis that controlled for the rate of affiliation between aggressors and targets of redirection showed that macaques identified the relatives of group mates on the basis of the frequency of their ongoing associations. By contrast, having observed group mates interact with their mother as infants did not increase the monkeys' success in correctly identifying kin relationships among third parties. Inter-individual variation in the successful identification of the kin of aggressors and in redirecting aggression accordingly translated into differences in the amount of aggression received, highlighting a selective advantage for those individuals that were better able to acquire and use social knowledge.
Additional file 1: of Characterization, treatment and prognosis of retinoblastoma with central nervous system metastasis
Creators: name: Hu, Huimin
name: Zhang, Weiling
name: Wang, Yizhuo
name: Huang, Dongsheng
name: Shi, Jitong
name: Li, Bin
name: Zhang, Yi
name: Zhou, Yan
Publisher: name: figshare
Year: 2018
Subjects: Medicine
Chemical Sciences not elsewhere classified
Biological Sciences not elsewhere classified
Developmental Biology
Cancer

description: Table S1. AJCC TNM Staging System. (DOCX 18 kb)
MOESM1 of Diaphragm function and weaning from mechanical ventilation: an ultrasound and phrenic nerve stimulation clinical study
Creators: name: Dres, Martin
name: Goligher, Ewan
name: Dubé, Bruno-Pierre
name: Morawiec, Elise
name: Dangers, Laurence
name: Reuter, Danielle
name: Mayaux, Julien
name: Similowski, Thomas
name: Demoule, Alexandre
Publisher: name: figshare
Year: 2018
Subjects: Biophysics
Space Science
Medicine
Cell Biology
Molecular Biology
Biological Sciences not elsewhere classified
Developmental Biology

description: Additional file 1. Full description of the Methods. Figure E1. Flow chart of the patients.
Calycopis_supplemental_table_S2 from When COI barcodes deceive: complete genomes reveal introgression in hairstreaks
Creators: name: Cong, Qian
name: Jinhui Shen
name: Borek, Dominika
name: Robbins, Robert K.
name: Opler, Paul A.
name: Zbyszek Otwinowski
name: Grishin, Nick V.
Publisher: name: The Royal Society
Year: 2017
Subjects: subject: Evolutionary Biology
subject: FOS: Biological sciences
subject: 60102 Bioinformatics
subject: FOS: Computer and information sciences
subject: 60408 Genomics

description: Two species of Hairstreak butterflies from the genus Calycopis are known in the United States: C. cecrops and C. isobeon. Analysis of mitochondrial COI barcodes of Calycopis revealed cecrops-like specimens from the eastern US with atypical barcodes that were 2.6% different from either USA species, but similar to Central American Calycopis species. To address the possibility that the specimens with atypical barcodes represent an undescribed cryptic species, we sequenced complete genomes of 27 Calycopis specimens of four species: C. cecrops, C. isobeon, C. quintana and C. bactra. Some of these specimens were collected up to 60 years ago and preserved dry in museum collections, but nonetheless produced genomes as complete as fresh samples. Phylogenetic trees reconstructed using the whole mitochondrial and nuclear genomes were incongruent. While USA Calycopis with atypical barcodes grouped with Central American species C. quintana by mitochondria, nuclear genome trees placed them within typical USA C. cecrops in agreement with morphology, suggesting mitochondrial introgression. Nuclear genomes also show introgression, especially between C. cecrops and C. isobeon. About 2.3% of each C. cecrops genome has likely (p-value C. isobeon and about 3.4% of each C. isobeon genome may have come from C. cecrops. The introgressed regions are enriched in genes encoding transmembrane proteins, mitochondria-targeting proteins and components of the larval cuticle. This study provides the first example of mitochondrial introgression in Lepidoptera supported by complete genome sequencing. Our results caution about relying solely on COI barcodes and mitochondrial DNA for species identification or discovery.
Additional file 1: of Transcriptomic insights into citrus segment membrane’s cell wall components relating to fruit sensory texture
Creators: name: Wang, Xun
name: Lin, Lijin
name: Tang, Yi
name: Xia, Hui
name: Zhang, Xiancong
name: Yue, Maolan
name: Qiu, Xia
name: Xu, Ke
name: Wang, Zhihui
Publisher: name: figshare
Year: 2018
Subjects: subject: Biochemistry
subject: Space Science
subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Cell Biology
subject: Genetics
subject: Molecular Biology
subject: Physiology
subject: Pharmacology
subject: Immunology
subject: FOS: Clinical medicine
subject: Biological Sciences not elsewhere classified
subject: Mathematical Sciences not elsewhere classified
subject: Developmental Biology
subject: Mental Health
subject: Infectious Diseases
subject: FOS: Health sciences
subject: Plant Biology
subject: Computational Biology

description: Figure S1. Heatmap of differentially expressing genes. Figure S2. Verification of RNA-seq by qRT-PCT. Figure S3. Top 30 significantly enriched pathways based on up-expressed genes in ‘Kiyomi’ compared with in ‘Shiranui’ at the first-stage. Figure S4. Top 30 significantly enriched pathways based on up-expressed genes in ‘Shiranui’ compared with in ‘Kiyomi’ at the first-stage. Figure S5. Top 30 significantly enriched pathways based on up-expressed genes in ‘Kiyomi’ compared with in ‘Shiranui’ at the second-stage. Figure S6. Top 30 significantly enriched pathways based on up-expressed genes in ‘Shiranui’ compared with in ‘Kiyomi’ at the second-stage. Table S1. Primers used in quantitative qRT-PCR experiments. Table S2. Top 30 significantly enriched pathways based on up-regulated genes. Table S3. Genes involved in pectin metabolism. Table S4. Genes involved in cellulose metabolism. Table S5. Genes involved in hemicellulose (xyloglucans and xylan) metabolism. (PDF 808 kb)
Additional file 1: of Drinking alcohol is associated with variation in the human oral microbiome in a large study of American adults
Creators: name: Fan, Xiaozhou
name: Peters, Brandilyn
name: Jacobs, Eric
name: Gapstur, Susan
name: Purdue, Mark
name: Freedman, Neal
name: Alekseyenko, Alexander
name: Wu, Jing
name: Yang, Liying
name: Pei, Zhiheng
name: Hayes, Richard
name: Ahn, Jiyoung
Publisher: name: figshare
Year: 2018
Subjects: subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Genetics
subject: Biotechnology
subject: Biological Sciences not elsewhere classified
subject: Inorganic Chemistry
subject: FOS: Chemical sciences
subject: Hematology
subject: Infectious Diseases
subject: FOS: Health sciences

description: Tables S1-S4 and Figures S1-S5. Table S1. Number of sequence reads per sample assigned to reference taxonomy map. Table S2. Mean counts of taxa associated with drinking levels in all study participants and subjects in each cohort. Table S3. Associations between oral bacteria diversity and abundance of order Lactobacillales, genera Actinomyces and Neisseria with alcohol drinking levels in sensitivity analysis. Table S4. Mean counts and fold changes of taxa associated with type of alcoholic beverages in all study participants. Figure S1. Beta-diversity of oral bacterial communities in the paired mouthwash-saliva samples. Figure S2. Distribution of alcohol consumption in the enterotypes. Figure S3. Count boxplots of order Lactobacillales and selected genera that were associated with drinking level. Figure S4. Partial Constrained Analysis of Principal Coordinates plots. Figure S5. Richness and evenness of oral microbiome by alcohol drinking type. (DOCX 1148Â kb)
Biomarkers in Pediatric Emergency Medicine
Creators: name: Manzano, Sergio
Publisher: name: Université de Genève
Year: 2016
Subjects: info:eu-repo/classification/ddc/618
Biomarqueurs
Pédiatrie
Urgences
Tests
Diagnostic
Raisonnement

description: As a result of rapid developments in many fields of medicine in recent years, most pediatric emergency diagnoses can be made while the patient is still in the emergency department. Often, an accurate medical history and a physical examination are all the physician needs to make a diagnosis, but in some situations it is very difficult to identify children with dangerous conditions. Fever is one of these. We demonstrated that measuring levels of either C-reactive protein (CRP) or procalcitonin (PCT) was superior to a clinical evaluation in predicting serious bacterial infection in children aged 1 month to 3 years old. In another study, we showed that levels of proadrenomedullin, but not copeptin, may help to predict complications in children with community-acquired pneumonia and who therefore require a more aggressive therapy. As a omputerized tomography scan (CT scan) is potentially harmful, we found that measuring S100B protein was helpful in decreasing the number of imaging studies needed in the management of children suffering from a mild traumatic brain injury.