cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.17162759
title: Additional file 12 of Genome-wide characterization, evolution, structure, and expression analysis of the F-box genes in Caenorhabditis

description: Additional file 12 Supplementary Datasets (S1-S6) provide the identified F-box protein sequences for C. brenneri, C. briggsae, C. elegans, C. japonica, C. remanei, and P. pacificus, respectively.
DOI: 10.6084/m9.figshare.11401506.v1
title: Syntheses, structures and properties of two zinc(II) coordination complexes based on two bis(pyridyl)-bis(amide) ligands and 1,2-phenylenediacetic acid

description: Two new zinc(II) coordination complexes [Zn(pda)(3-bpcd)<sub>0.5</sub>] (<b>1</b>) and [Zn(pda)(3-bpoa)]·H<sub>2</sub>O (<b>2</b>) have been synthesized by self-assembly of 1,2-phenylenediacetic acid (H<sub>2</sub>pda), semi-rigid/or flexible bis(pyridyl)-bis(amide) ligands [3-bpcd = N,N′-bis(pyridin-3-yl)cyclohexane-1,4-dicarboxamide, 3-bpoa = N,N'-bis(3-pyridyl)octandiamide] and zinc nitrate. Complex <b>1</b> is a 2 D layered framework derived from the 1 D [Zn(pda)]<sub>2n</sub> ribbon-like chain and the bidentate 3-bpcd, which is a (3,4)-connected (4<sup>2</sup>·6<sup>3</sup>·8)(4<sup>2</sup>·6) topology, then the adjacent layers are linked by hydrogen bonds to build a 3 D supramolecular network. Complex <b>2</b> displays a 3 D framework based on the 1 D [Zn(pda)]<sub>2n</sub> ribbon-like chains and the 1 D [Zn(3-bpoa)]<sub>n</sub> chains, which represents a (3,5)-connected (4<sup>2</sup>.6<sup>5</sup>.8<sup>3</sup>)(4<sup>2</sup>.6) topology. Two bis(pyridyl)-bis(amide) ligands with different flexibilities play an important role in constructing final topological structures for title complexes. Moreover, the fluorescent properties of two zinc(II) complexes and their fluorescent sensing properties toward small solvent molecules have been studied. Additionally, the photocatalytic properties of complexes <b>1 </b>−<b> 2</b> toward the degradation of dyes have been investigated.
DOI: 10.6084/m9.figshare.16638485.v1
title: A systematic scoping review of undergraduate medical ethics education programs from 1990 to 2020

description: Ensuring medical students are equipped with essential knowledge and portable skills to face complex ethical issues underlines the need for ethics education in medical school. Yet such training remains variable amidst evolving contextual, sociocultural, legal and financial considerations that inform training across different healthcare systems. This review aims to map how undergraduate medical schools teach and assess ethics. Guided by the Systematic Evidence-Based Approach (SEBA), two concurrent systematic scoping reviews were carried out, one on ethics teaching and another on their assessment. Searches were conducted on PubMed, Embase, PsycINFO and ERIC between 1 January 1990 and 31 December 2020. Data was independently analysed using thematic and content analysis. Upon scrutinising the two sets of full-text articles, we identified 141 articles on ethics teaching and 102 articles on their assessments. 83 overlapped resulting in 160 distinct articles. Similar themes and categories were identified, these include teaching modalities, curriculum content, enablers and barriers to teaching, assessment methods, and their pros and cons. This review reveals the importance of adopting an interactive, multimodal and interdisciplinary team-teaching approach to ethics education, involving community resource partners and faculty trained in ethics, law, communication, professionalism, and other intertwining healthcare professions. Conscientious effort should also be put into vertically and horizontally integrating ethics into formal medical curricula to ensure contextualisation and application of ethics knowledge, skills and attitudes, as well as protected time and adequate resources. A stage-based multimodal assessment approach should be used to appropriately evaluate knowledge acquisition, application and reflection across various practice settings. To scaffold personalised development plans and remediation efforts, multisource evaluations may be stored in a centralised portfolio. Whilst standardisation of curricula content ensures cross-speciality ethical proficiency, deliberative curriculum inquiry performed by faculty members using a Delphi approach may help to facilitate the narrowing of relevant topics.
DOI: 10.6084/m9.figshare.17162966
title: Additional file 3 of Seasonal epidemiology of gastrointestinal nematodes of cattle in the northern continental climate zone of western Canada as revealed by internal transcribed spacer-2 ribosomal DNA nemabiome barcoding

description: Additional file 3: Table S2. The proportion of L3 migrating out of fecal pats over the course of the entire grazing period was estimated by X/(X + Y), where X is the sum of the mean number of L3 on grass per pat at each sampling point over the grazing season and Y is the mean number of L3 remaining in each fecal pat at the end of the grazing season.
DOI: 10.6084/m9.figshare.16633187
title: Additional file 1 of The hepatic senescence-associated secretory phenotype promotes hepatocarcinogenesis through Bcl3-dependent activation of macrophages

description: Additional file 1: Table S1. PCR prime.
DOI: 10.6084/m9.figshare.16638485
title: A systematic scoping review of undergraduate medical ethics education programs from 1990 to 2020

description: Ensuring medical students are equipped with essential knowledge and portable skills to face complex ethical issues underlines the need for ethics education in medical school. Yet such training remains variable amidst evolving contextual, sociocultural, legal and financial considerations that inform training across different healthcare systems. This review aims to map how undergraduate medical schools teach and assess ethics. Guided by the Systematic Evidence-Based Approach (SEBA), two concurrent systematic scoping reviews were carried out, one on ethics teaching and another on their assessment. Searches were conducted on PubMed, Embase, PsycINFO and ERIC between 1 January 1990 and 31 December 2020. Data was independently analysed using thematic and content analysis. Upon scrutinising the two sets of full-text articles, we identified 141 articles on ethics teaching and 102 articles on their assessments. 83 overlapped resulting in 160 distinct articles. Similar themes and categories were identified, these include teaching modalities, curriculum content, enablers and barriers to teaching, assessment methods, and their pros and cons. This review reveals the importance of adopting an interactive, multimodal and interdisciplinary team-teaching approach to ethics education, involving community resource partners and faculty trained in ethics, law, communication, professionalism, and other intertwining healthcare professions. Conscientious effort should also be put into vertically and horizontally integrating ethics into formal medical curricula to ensure contextualisation and application of ethics knowledge, skills and attitudes, as well as protected time and adequate resources. A stage-based multimodal assessment approach should be used to appropriately evaluate knowledge acquisition, application and reflection across various practice settings. To scaffold personalised development plans and remediation efforts, multisource evaluations may be stored in a centralised portfolio. Whilst standardisation of curricula content ensures cross-speciality ethical proficiency, deliberative curriculum inquiry performed by faculty members using a Delphi approach may help to facilitate the narrowing of relevant topics.
DOI: 10.6084/m9.figshare.17162982.v1
title: Additional file 5 of Public transcriptome database-based selection and validation of reliable reference genes for breast cancer research

description: Additional file 5: Table S3. Ct values of the 16 candidate RGs in all samples.
DOI: 10.6084/m9.figshare.17162985.v1
title: Additional file 6 of Public transcriptome database-based selection and validation of reliable reference genes for breast cancer research

description: Additional file 6: Table S4. Gene expression stability calculated by 5 algorithms in all BC tissue and cell line samples.
DOI: 10.7910/dvn/5b8ym8/f7heff
title: us_metro_death_cases.tab

description: :unav
DOI: 10.6084/m9.figshare.17162994.v1
title: Additional file 9 of Public transcriptome database-based selection and validation of reliable reference genes for breast cancer research

description: Additional file 9: Table S7. P-value of t-test of target gene expression levels between different 11 levels of BC tissue samples.
DOI: 10.7910/dvn/5b8ym8/eqqeah
title: us_metro_deaths_cases_cdl.tab

description: Updated to May 5, 2020. The basemap is from China Data Institute.
DOI: 10.7910/dvn/5b8ym8/h8zyhc
title: us_metro_confirmed_cases_cdl.tab

description: Updated to May 5, 2020. The basemap is from China Data Institute.
DOI: 10.7910/dvn/5b8ym8/hj14qa
title: us_metro_confirmed_cases.tab

description: :unav
DOI: 10.6084/m9.figshare.16633268
title: Additional file 11 of Transcriptomic analysis of salt tolerance-associated genes and diversity analysis using indel markers in yardlong bean (Vigna unguiculata ssp. sesquipedialis)

description: Additional file 11: Supplementary Table S11. The number and distribution ratios of InDels identified in yardlong bean.
DOI: 10.6084/m9.figshare.17162991.v1
title: Additional file 8 of Public transcriptome database-based selection and validation of reliable reference genes for breast cancer research

description: Additional file 8: Table S6. Relative expression levels of FAAH and HIF1A genes normalized by 13 types of single or multiple gene combinations of RGs in 21 BC cell strain samples.
DOI: 10.7910/dvn/5b8ym8/kdf4sg
title: us_metro_death_cases.tab

description: :unav
DOI: 10.7910/dvn/5b8ym8/sxlcwr
title: us_metro_deaths_cases_cdl.tab

description: :unav
DOI: 10.7910/dvn/5b8ym8/tc0hua
title: us_metro_confirmed_cases_cdl.tab

description: :unav
DOI: 10.7910/dvn/5b8ym8/uo72oy
title: us_metro_confirmed_cases.tab

description: :unav
DOI: 10.6084/m9.figshare.16633187.v1
title: Additional file 1 of The hepatic senescence-associated secretory phenotype promotes hepatocarcinogenesis through Bcl3-dependent activation of macrophages

description: Additional file 1: Table S1. PCR prime.
DOI: 10.6084/m9.figshare.17162891.v1
title: Additional file 4 of Genome-wide association of single nucleotide polymorphism loci and candidate genes for frogeye leaf spot (Cercospora sojina) resistance in soybean

description: Additional file 4: Table S2. Resistance-related SNPs and adjacent SNPs formed two haplotype blocks on chromosomes 5 and 20
DOI: 10.6084/m9.figshare.17162960
title: Additional file 1 of Seasonal epidemiology of gastrointestinal nematodes of cattle in the northern continental climate zone of western Canada as revealed by internal transcribed spacer-2 ribosomal DNA nemabiome barcoding

description: Additional file 1: Table S1. Grass sampling dates for each pasture during the whole study period.
DOI: 10.7910/dvn/5b8ym8/esbczz
title: us_metro_deaths_cases_cdl.tab

description: Updated to May 19, 2020
DOI: 10.7910/dvn/5b8ym8/sexzrt
title: us_metro_confirmed_cases_esri.tab

description: Updated to May 19, 2020
DOI: 10.7910/dvn/5b8ym8/v5pgvt
title: us_metro_confirmed_cases_cdl.tab

description: Updated to May 19, 2020
DOI: 10.7910/dvn/5b8ym8/xke94s
title: us_metro_deaths_cases_esri.tab

description: Updated to May 19, 2020
DOI: 10.7910/dvn/5b8ym8/pchtbu
title: us_metro_confirmed_cases_esri.tab

description: Updated to June 8, 2020
DOI: 10.7910/dvn/5b8ym8/rztwxd
title: us_metro_deaths_cases_cdl.tab

description: Updated to June 8, 2020
DOI: 10.6084/m9.figshare.16633280
title: Additional file 14 of Transcriptomic analysis of salt tolerance-associated genes and diversity analysis using indel markers in yardlong bean (Vigna unguiculata ssp. sesquipedialis)

description: Additional file 14: Supplementary Table S14. Genetic diversity of yardlong bean based on 26 InDel markers.
DOI: 10.6084/m9.figshare.19254687.v1
title: Additional file 1 of Epigenetic regulation of seed-specific gene expression by DNA methylation valleys in castor bean

description: Additional file 1: Table S1. Summary of RNA-seq data generated from 16 diverse tissues in castor bean. Table S2. Genes’ expression level (FPKM) in 16 different tissues of castor bean. Table S3. All tissue-specific genes in castor bean. Table S4. Seed stage-specific genes in castor bean. Table S5. Seed-specific genes related to lipid biosynthesis pathways in castor bean. Table S6. Conserved DNA methylation valleys (DMVs) in castor bean. Table S7. DMV genes in castor bean. Table S8. Conserved DMV genes among Arabidopsis, Soybean and Castor bean. Table S9. Differential histone modification regions between leaf and endosperm. Table S10. Seed-specific DMV genes potentially regulated by histone modifications. Table S11. Leaf-specific DMV genes potentially regulated by histone modifications. Table S12. Distal DMVs and the nearest genes in castor bean. Table S13. Distal DMVs of seed-specific genes potentially regulated by H3K27ac and/or H3K27me3. Table S14. All primers used in this study.
DOI: 10.15151/esrf-es-1117951138
title: Paris Rive-Gauche BAG: from structure to drug design

description: Our BAG was created in 2006 to federate well-established structural biology laboratories from south Paris. At present, several projects are investigated by different teams from 5 Institutes: (1) I2BC (Institut de Biologie Inte#grative de la Cellule), (2) IBPC (Institut de Biologie Physico-Chimique), (3) INSERM (Institut National de la Sante# et de la Recherche Me#dicale), (4) LBPA (Laboratoire de Biologie et Pharmacologie Applique#e) and (5) CiTCoM (CiblesTherapeutiques et Conception de Medicaments, ex-name LCRB). Our research area focuses on many important biological systems involved in human pathology or infectious diseases, including molecular chaperones, DNA recombination, RNA maturation, ribosome biogenesis, telomerase assembly, bacterial toxins, malaria disease, neurodegenerative disease, drugs resistance and cell-signalling.
DOI: 10.15151/esrf-es-1118686084
title: Munich Crystallography BAG

description: The diverse groups of the Munich Crystallography BAG study a far range of subjects, reaching from structural aspects of fundamental cellular processes - such as RNA processing, protein folding and degradation, DNA repair, chromatin remodelling, enzymes - to the design of foldamers. The research groups are located at the LMU and TUM universities in Munich, at the Max-Planck-Institute of Biochemistry, Martinsried, and the Helmholtz Center, Neuherberg. Out-groups are located at the universities in Darmstadt and Ulm, Germany. The research groups use X-ray crystallography, single-particle cryo-EM, SAXS, NMR, Alphafold and HDX and XL-MS mass-spectrometry for structural studies.
DOI: 10.15151/esrf-es-1118696478
title: Molecular machines in energy transduction, cellular signaling and defense processes

description: Since this BAG is composed of seven different working groups from three different locations (university of Cologne, university of Bochum, university of Düsseldorf), the projects for this proposal are of rather heterogeneous nature. Nonetheless, we are focusing on 5 main topics: 1.) proteins involved in transport processes, transporters or channels, either embedded in the membrane or acting in the cytosol (e.g. ABC transporters, fusion proteins, regulators) 2.) proteins involved in the immune system, pathogen invasion or defense/resistance processes (dehydratases, toxins, binding proteins) 3.) proteins involved or associated with diseases like cancer or developmental disorders (e.g. protein kinase, toxins, antibodies) 4.) enzymes of putative industrial use to encounter increasing environmental pollution (e.g. transaminases, estereases) 5.) proteins involved in light harvesting, photosynthesis (C3/C4 pathways) and chromophore binding proteins (e.g. synthases, photosensor domains)
DOI: 10.15151/esrf-es-1119942202
title: Structural biology at Umeå University

description: The BAG consists out of 7 groups that are heavily involved in macromolecular crystallography, as well as other structural biology techniques, at Umeå University, Sweden. We work on a diverse set of biological questions, ranging from understanding the structure and function of Gram-positive Type 4 Secretion Systems, mobile genetic elements in Staphylococcus aureus, DNA and RNA polymerases, effector protein in Type 6 Secretion Systems and transcriptional regulators.
DOI: 10.15151/esrf-es-1120143952
title: Structural Biology of Macromolecules and Macromolecular complexes from India

description: Structural biology research groups located in India constitute the INDIA-BAG and will utilize MX & SAXS to study different biological macromolecules. The non-proprietary agreement signed between ESRF and the Department of Biotechnology (DBT) enables studies that provide fundamental mechanistic insight regarding different biological processes. A brief description of over 50 research groups is provided in the global summary and a summary of their research contributions involving data collected at ESRF is provided in the 2 year BAG report. The ESRF-India partnership is supported by a single grant provided to the RCB by the DBT. Please note that a report listing no. of shifts utilized, details of users and the research output from these visits has to be sent to the DBT to obtain release of funds to pay ESRF membership dues. Consequently, all the structural biologists from India are grouped in a single BAG to enable monitoring of progress to collect the required statistics.
DOI: 10.15151/esrf-es-1186974300
title: Resonant x-ray scattering at the Ta L-III edge and Co K-edge for quantum applications

description: We aim to use resonant x-ray scattering at the Co K-edge (7708 eV) and Ta L-III edge (9980 eV) to isolate the signal and position of Co and Ta in a complex material stack. By acquiring CD-GISAXS pattern at various energy across each edge, we will track the variation in the scattering signal. Since the variation in scattering will mainly come from either the Co or the Ta, we will be able to reconstruct with precision the in-depth stack of material and identify the driving mechanism, such as element migration and so on, during the different stage of the material process.
DOI: 10.15151/esrf-es-1186974303
title: Exploring flexibility of the new Mn(III)-based MOF

description: This proposal aims to solve the structure of a series of new Mn(III)-based metal-organic frameworks (MOFs) with a flexible structure, as well as investigating their guest sorption properties. The series of new MOFs is related to the well-known MIL-53, which possesses a breathing behaviour. The originality of our series of MOFs, apart from the fact that it is based on Mn(III) metal centres, is that it has alkoxy bridging linkers. It is known that both, the nature of the metal centres and of the bridging linkers have an important influence on the breathing behaviour of MIL-53. We aim at solving the structure of several of those MOFs with linkers of various sizes (EtO-, PrO-, etc.) with the help of variable-temperature X-ray synchrotron radiation diffraction experiments; collecting very good quality diffraction data is mandatory. Furthermore, adsorption of guests and possible flexibility of the structure of the new MOFs will be investigated with respect to various solvents and gasses.
DOI: 10.15151/esrf-es-1186977962
title: Molecular structural basis of relaxation in skeletal muscle

description: Rapid relaxation following active contraction is essential to the efficient performance of both skeletal and cardiac muscle, but its mechanistic basis is poorly understood. The well-known decrease in intracellular calcium concentration is necessary but not sufficient for rapid relaxation, and there is likely to be an additional mechanical trigger. This proposal will use time-resolved X-ray diffraction to characterise the molecular structural changes in the muscle filaments during the relaxation of skeletal muscles of mammals, and their dependence on imposed mechanical perturbations. The results will help to elucidate the underlying molecular mechanisms, underpinning the development of novel therapies for disease in both skeletal muscle and in the heart.
DOI: 10.15151/esrf-es-1186978482
title: Characterising the Onset of Crystal Fracture with Scanning-3DXRD

description: As a result of recent developments at the ID11, Scanning Three Dimensional X-ray Diffraction Microscope (S3DXRD) methods for intragranular strain reconstruction has emerged. These methods have been used to reveal the 3D strain tensor field during in-situ loading of an ensemble of quartz grains. It was found that the 3D intragranular deformation fields featured strain localisation. At elevated loads, close to grain fracture, the study of these localisations requires not only a high spatial resolution in terms of narrow x-ray beam, but also, since the fracture transition itself is rapid, the increment between load steps must be small. To meet these requirements, we propose to perform S3DXRD measurements of a single grain during in-situ loading. By limiting the field of view to a single grain rather than an ensemble, we may decrease the beam size and increase the number of load steps for a given scan time. This will allow us to resolve the 3D deformation evolution leading up to fracture.
DOI: 10.15151/esrf-es-1186981316
title: High-Pressure Synthesis of Structurally Diverese BeCN2

description: The aim of this project is the synthesis and investigation of a novel carbonnitride phase, namely BeCN2, by different synthesis methods as metathesis, nitridation and one-step-synthesis in a HP/HT approach. It extends the class of Grimm-Sommerfeld analogous II-IV-V2 semiconductors to the lightest elements. The compound is estimated to show a wide range of properties and possible applications like electrochemical water splitting, nonlinear optics or ferroelectricity.
DOI: 10.15151/esrf-es-1224770946
title: Structural changes during heating of Na-based sulfide solid electrolytes

description: Na-based solid electrolytes are a novel cathegory of solid electrolytes for Na-ion batteries. The goal of the experiment is to study the structural changes upon heating (a crucial step for improving the conductivity).
DOI: 10.25345/c5gh9bk7k
title: MassIVE MSV000092182 - DDA and PRM Data for IR5 WIW and WIW Nanobodies
title: Journal Article: Structure-based design of nanobodies that inhibit seeding of Alzheimer's patient-extracted tau fibrils