cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.21299091.v1
title: DataSI from Frustrated ‘run and tumble’ of swimming Escherichia coli bacteria in nematic liquid crystals

description: In many situations, bacteria move in complex environments, as soils, oceans or the human gut-track, where carrier fluids show complex structures associated with non-Newtonian rheology. Many fundamental questions concerning the ability to navigate in such environments remain unsolved. Recently, it has been shown that the kinetics of bacterial motion in structured fluids as liquid crystals (LCs) is constrained by the orientational molecular order (or director field) and that novel spatio-temporal patterns arise. A question unaddressed so far is how bacteria change swimming direction in such an environment. In this work, we study the swimming mechanism of a single bacterium, <i>Esherichia coli</i>, constrained to move along the director field of a lyotropic chromonic liquid crystal confined to a planar cell. Here, the spontaneous ‘run and tumble’ motion of the bacterium gets frustrated: the elasticity of the LC prevents flagella from unbundling. Interestingly, to change direction, bacteria execute a reversal motion along the director field, driven by the relocation of a single flagellum, a ‘frustrated tumble’. We characterize this phenomenon in detail experimentally, exploiting exceptional spatial and temporal resolution of bacteria I and flagella r dynamics, using a two colour Lagrangian tracking technique. We suggest a possible mechanism accounting for these observations.
DOI: 10.6084/m9.figshare.21299098
title: File S2. A collection of custom scripts for bioinformatic processing, analysis and generating figures from Selection on embryonic haemoglobin in an elevational generalist songbird

description: Commented custom scripts for bioinformatics, analysis and producing figures. See Readme.txt file for a full description of each script.
DOI: 10.6084/m9.figshare.21299110.v1
title: File S3. Genotype verification between low coverage sequencing (this study) and public cDNA sequences from Selection on embryonic haemoglobin in an elevational generalist songbird

description: This document reports the agreement between our low coverage sequencing and previously published cDNA Sanger sequences for identical individuals.
DOI: 10.6084/m9.figshare.21299110
title: File S3. Genotype verification between low coverage sequencing (this study) and public cDNA sequences from Selection on embryonic haemoglobin in an elevational generalist songbird

description: This document reports the agreement between our low coverage sequencing and previously published cDNA Sanger sequences for identical individuals.
DOI: 10.6084/m9.figshare.21299113
title: File S1. Coordinates for autosomal sequence target capture based on Serinus canaria genome (GCA_000534875.1). from Selection on embryonic haemoglobin in an elevational generalist songbird

description: These coordinates specify the regions of the Serinus canaria genome we used to create custom probes for several hundred genome-wide autosomal coding regions. These are included to improve reproducibility of our study. These regions, plus the seven hemoglobin loci, represent the entire set of genomic regions we sequenced.
DOI: 10.6084/m9.figshare.21299113.v1
title: File S1. Coordinates for autosomal sequence target capture based on Serinus canaria genome (GCA_000534875.1). from Selection on embryonic haemoglobin in an elevational generalist songbird

description: These coordinates specify the regions of the Serinus canaria genome we used to create custom probes for several hundred genome-wide autosomal coding regions. These are included to improve reproducibility of our study. These regions, plus the seven hemoglobin loci, represent the entire set of genomic regions we sequenced.
DOI: 10.6084/m9.figshare.21257049.v1
title: Data.xlsx

description: Excel sheet of the dataset
DOI: 10.6084/m9.figshare.21257049
title: Data.xlsx

description: Excel sheet of the dataset
DOI: 10.6084/m9.figshare.21257049.v3
title: Data.xlsx

description: Excel sheet of the dataset
DOI: 10.6084/m9.figshare.21257049.v2
title: Data.xlsx

description: Excel sheet of the dataset
DOI: 10.5517/ccdc.csd.cc21nnr4
title: CCDC 1896696: Experimental Crystal Structure Determination

description: Related Article: Binling Yao, Yi-Quan Zhang, Yi-Fei Deng, Tianran Li, Yuan-Zhu Zhang|2022|Inorg.Chem.|61|15392|doi:10.1021/acs.inorgchem.2c01851
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc21nns5
title: CCDC 1896697: Experimental Crystal Structure Determination

description: Related Article: Binling Yao, Yi-Quan Zhang, Yi-Fei Deng, Tianran Li, Yuan-Zhu Zhang|2022|Inorg.Chem.|61|15392|doi:10.1021/acs.inorgchem.2c01851
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc21nnt6
title: CCDC 1896698: Experimental Crystal Structure Determination

description: Related Article: Binling Yao, Yi-Quan Zhang, Yi-Fei Deng, Tianran Li, Yuan-Zhu Zhang|2022|Inorg.Chem.|61|15392|doi:10.1021/acs.inorgchem.2c01851
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc23sh9q
title: CCDC 1959953: Experimental Crystal Structure Determination

description: Related Article: Zhantao Yang, Shenyin Hou, Yunfan Cheng, Li Sun, Chun-Hua Yang|2022|J.Org.Chem.|87|13339|doi:10.1021/acs.joc.2c01345
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.15151/esrf-es-874760025
title: Proteins and protein/DNA/RNA complexes involved in biosynthesis, protein folding and degradation, splicing, cancer, host pathogen interacti

description: Pathogenesis and immune responses are very complex, multi-component processes. Understanding the molecular mechanisms underlying these processes is essential for their regulation and the development of new therapies. Our Life Sciences Block Allocation Group (BAG) for synchrotron research at the ESRF includes groups from Georg-August University of Göttingen (Germany), Helmholtz Centre for Infection Research Structural Biology, Braunschweig (Germany), Rudolf Virchow Center for Biomedical Research, Würzburg (Germany), University of Bielefeld (Germany), Hannover Medical School (Germany) and University of the Western Cape, Cape Town (South Africa). The research of our BAG is focused on the structural, mechanistic, and functional studies of a broad range of medically relevant biological systems, with an aim to develop new therapies in the areas of emerging infections, antimicrobial resistance, chronic inflammatory conditions, and oncogenesis.
DOI: 10.15151/esrf-es-874769954
title: Danish Biochemistry and Structural biology BAG

description: This BAG application gathers many danish esrf users with the area of structural biochemistry (including both crystallography, cryoEM and SAXS). Some of the work focuses on carbohydrate active enzymes of all classes, with particular focus on biotechnological applications. Several PIs work in the important membrane proteins area, with both receptors and transporters as main focus, almost all potential or current drug targets. Other groups work on non membrane proteins which are also potential drug targets or in some way known to potentially be involved in disease - enzymes, bacterial antibiotic resistance and survival, DNA binding proteins and other regulators, immune system components. One crystallographic method development project is also included as are two principally bioSAXS projects. BioSAXS in addition contributes to several of the other projects, and infact we ask in this round for less Xtal beamtime and more bioSAXS beamtime.
DOI: 10.15151/esrf-es-874772493
title: IBS BAG

description: The IBS BAG includes in this proposal IBS teams and external groups from iRTSV/CEA (Grenoble), CEA-Cadarache (St Paul lez Durance) and IRBA (Brétigny-sur-Orge). We study structure-function relationships of proteins emphasizing in human health, biotechnology and methodology. Most of the projects are a continuation of the MX-2329 proposal and can be grouped in different topics as follows: host-pathogen interaction, new drug targets, fundamental cellular mechanisms, membrane proteins, intrinsically disordered proteins, biotechnological applications and methodology. Some of these projects use integrative approaches (X-ray crystallography, SAXS, NMR (and cryo-EM), together with other biophysical studies) with the aim to fully understand the complexity of the biological macromolecular systems on study. Some teams are dedicated to serial crystallography and its developments, for which the ESRF-EBS has become the perfect tool.
DOI: 10.15151/esrf-es-874802183
title: Belgian BAG

description: The BAG includes groups situated at four Flemish universities: Antwerp, Brussels, Ghent and Leuven. Several of these groups are part of the elite Flemish Institute of Biotechnology (VIB). The proposed projects are highly diverse, including viral, prokaryotic and eukaryotic proteins with a strong focus on targets and processes of biomedical relevance. Many projects deal with membrane proteins, cell surface receptors and protein-protein complexes. Central to the research in the BAG associated groups is the employment of integrative methods in structural biology combining X-ray crystallography, SAXS, and cryo-electron microscopy. Many crystals in the various proposed projects are small in size and radiation sensitive, requiring the use of the high brilliance MX beam lines, preferably with micro-focused X-rays. This is a continuation of a previous Belgian BAG which has resulted in numerous top-tier publications.
DOI: 10.15151/esrf-es-874804289
title: Heidelberg BAG (HeidelBAG)

description: The HeidelBAG unifies structural efforts of EMBL Heidelberg and the Heidelberg University Biochemistry Center (BZH). Central to all projects are large assemblies involved in chromosome organization and transcription control, in nuclear and cytoplasmic RNA regulation, in translational control by ribosome associated factors or further on in protein targeting, membrane protein insertion or post-translational modification. While Eric Stebbins from DKFZ has left the BAG, Jirka Peschek from BZH will join and adds projects on tRNA ligases and interactors. Nearly all projects make use of integrated structural biology techniques combined with complementary biophysical, biochemical and cell biological approaches, a strategy that warranties the continuous success of the BAG. More and more pathological implications of the studied central cellular processes come into focus. In the 1st year of the proposal the BAG reports on 17 publications and 43 PDB entries and many unpublished results.
DOI: 10.15151/esrf-es-958429547
title: Investigation of structural properties of graphene oxide as a function of relative humidity

description: The structural changes of graphene oxide as a function of relative humidity will be investigated by PDF technique. The powder sample will be confined in a capillary where the humidity will be controlled by an external device with a N2 flow. This experiment is going to complete a set of data performed in May (SC-5225).
DOI: 10.15151/esrf-es-902986774
title: Imaging of ferroelectric domains by coherent scattering

description: This proposal is a continuation of HC-4354. we have studied the spatiotemporal dynamics of the transition from the ferroelectric monoclinic (Mc-)phase to the ferroelectric orthorhombic (c-)phase in KxNa1-xNbO3 (KNN). Spatial ordering phenomena contribute significantly to the systems free energy and thus to the overall stability of an ordered phase in correlated systems. This proposal aims at developing a new method to gain access to spatiotemporal correlation phenomena in solids. Our approach is based on analyzing the speckle patter on an area detector after diffraction of a coherent x-ray beam from ferroelectric domains.
DOI: 10.15151/esrf-es-902987807
title: Suppression of charge-density wave order in 2H-TaSe2 by pressure

description: It is now evident that many materials feature superconducting phases when a CDW phase is suppressed by extrinsic parameters such as pressure or intercalation in layered materials. However, studies in transition-metal dichalcogenides (TMDC) found that the phase space of emergent superconductivity is not close to the CDW quantum critical point. Here, we propose to determine the CDW quantum critical point in 2H-TaSe2 under pressure via x-ray diffraction (XRD). Based on our ambient-pressure study of the soft phonon mode at the CDW transition in 2H-TaSe2 (unpublished) and published resistivity measurements, we argue that this compound likely has a CDW quantum critical point closely connected to the emergent superconducting phase and could be a textbook example where both phases are mediated by the same mechanism, electron-phonon coupling of the CDW soft phonon mode. Our study will determine the CDW phase diagram in its most crucial but still unexplored area.
DOI: 10.15151/esrf-es-902097969
title: Analysis of deformation mechanisms in nanocrystalline NiTi wire under various thermomechanical loads via in-situ synchrotron x-ray diffracti

description: In engineering materials, martensitic transformation/deformation twinning change the structure/reorient crystal lattice, which is far less understood than dislocation slips. For nanocrystalline NiTi wires, we have recently developed a multiscale approach combining grain-level reconstruction of martensitic/austenitic microstructures deformed by TEM SAED-DF method with deformation analysis from in-situ texture evolution. The former studies deformation in individual grains, while the latter studies the same statistically in thousands of grains upon synchrotron diffraction. We have conducted isothermal tensile tests, in this work we will perform in-situ synchrotron X-ray diffraction texture evolution experiments on two NiTi wires upon heating/cooling/loading. We aim to reveal deformation modes acting upon thermomechanical loads frequently used in engineering applications of NiTi, as thermal actuator cycling, functional fatigue, low temperature shape setting and two way shape memory effect.
DOI: 10.15151/esrf-es-949923977
title: STRUCTURAL BASES OF REGULATION OF SKELETAL MUSCLE

description: Muscle contraction is regulated by both Ca2+ dependent thin filament activation and mechanosensing-based thick filament activation that switches ON the motors in relation to the load. Evidence is growing for the involvement in thick filament regulation of the cytoskeleton protein titin, which runs from the midpoint of the thick filament to the end of the sarcomere, and the myosin binding protein C (MyBP-C), which is bound to the backbone of the thick filament in its central one-third and bridges thin and thick filaments. We use X-ray diffraction to investigate MyBP-C role in inter-filament communication and titin role in thick filament mechanosensing. The experiments, conducted in intact frog skeletal muscle fibres, exploit the finding that X-ray fine structure of myosin based reflections reports the footprints of both MyBP-C and titin and represent a testbed for future investigation on skinned fibres and whole muscles of rodent models with mutations in specific proteins.
DOI: 10.15151/esrf-es-900336638
title: Operando XAS study of Cu-Ga nanoparticles as catalysts for electrochemical CO2 reduction

description: Monitoring changes of catalysts composition and structure during operation is of the uttermost importance to build unambiguous structure/properties relations and to guide the design of more active, selective and stable catalysts. The aim of this project is to follow and to elucidate the changes in the oxidation states, structure and coordination environments of Cu-Ga electrocatalysts during the CO2 reduction reaction (CO2RR) by operando XAS. These materials were recently synthesized in our group, and we have discovered enhanced selectivity and stability compared to monometallic Cu and Ga catalysts. In-house methods are not able to track catalyst changes during operation, and synchrotron-based XAS studies are needed to understand synergistic nature of the performance improvement. The catalysts with enhanced selectivity and stability are strongly desired to make CO2RR technology viable, and discovery of new catalytic material is helpful to target rational design of better catalysts.
DOI: 10.6084/m9.figshare.21257040
title: Data.xlsx

description: Excel file of the data set
DOI: 10.6084/m9.figshare.21299121
title: Figure S2. Three-dimensional surface model from An early nimravid from California and the rise of hypercarnivorous mammals after the middle Eocene climatic optimum

description: Data file for three-dimensional surface model of of SDSNH 60554.
DOI: 10.6084/m9.figshare.21299124.v1
title: Pangurban BEAST file. from An early nimravid from California and the rise of hypercarnivorous mammals after the middle Eocene climatic optimum

description: BEAST run file, in xml format.
DOI: 10.6084/m9.figshare.21299124
title: Pangurban BEAST file. from An early nimravid from California and the rise of hypercarnivorous mammals after the middle Eocene climatic optimum

description: BEAST run file, in xml format.
DOI: 10.6084/m9.figshare.21299127
title: Pangurban phylogenetic matrix from An early nimravid from California and the rise of hypercarnivorous mammals after the middle Eocene climatic optimum

description: Phylogenetic matrix used in the analysis, in nexus format.
DOI: 10.6084/m9.figshare.21299130
title: TABLE S1. Carnivore occurrences from An early nimravid from California and the rise of hypercarnivorous mammals after the middle Eocene climatic optimum

description: Carnivore occurrences in late Uintan–Duchesnean of southern California and western Texas.
DOI: 10.6084/m9.figshare.21299130.v1
title: TABLE S1. Carnivore occurrences from An early nimravid from California and the rise of hypercarnivorous mammals after the middle Eocene climatic optimum

description: Carnivore occurrences in late Uintan–Duchesnean of southern California and western Texas.
DOI: 10.6084/m9.figshare.21299127.v1
title: Pangurban phylogenetic matrix from An early nimravid from California and the rise of hypercarnivorous mammals after the middle Eocene climatic optimum

description: Phylogenetic matrix used in the analysis, in nexus format.
DOI: 10.5281/zenodo.7161839
title: Temp_Data

description: Temp_Data
DOI: 10.5281/zenodo.7161838
title: Temp_Data

description: Temp_Data
DOI: 10.6084/m9.figshare.21295509
title: cross cultural data for statistician latest (1).xlsx

description: Using a cross-sectional research design, OMFI was translated, culturally adapted, and validated in Malayalam. The Malayalam translation of OMFI underwent language validation and was tested on 200 patients at Amritakripa Hospital in Kalpetta. Cronbach's alpha was used to assess reliability, and exploratory factor analysis was performed using principal component analysis with varimax rotation.This is the dataset of 200 patients.
DOI: 10.6084/m9.figshare.21295509.v1
title: cross cultural data for statistician latest (1).xlsx

description: Using a cross-sectional research design, OMFI was translated, culturally adapted, and validated in Malayalam. The Malayalam translation of OMFI underwent language validation and was tested on 200 patients at Amritakripa Hospital in Kalpetta. Cronbach's alpha was used to assess reliability, and exploratory factor analysis was performed using principal component analysis with varimax rotation.This is the dataset of 200 patients.
DOI: 10.5281/zenodo.7160829
title: C-RIDGE: Indoor CO2 Data Collection System for Large Venues Based on Prior Knowledge

description: This CO2 of C-RIDGE system dataset contains the high spatial and temporal resolution of the CO2<br> measures with the corresponding timestamp of static wireless sensors. <br> 45 sensors are densely deployed on the stand in the venue. The id and relative positions of sensors <br> are shown in device message. The sampling rate is adaptively adjusted according to the competition schedule. <br> The sampling interval is 5 minutes during the competition and 15 minutes otherwise. Please refer to <br> the description of the experimental setup in the data descriptor paper. In the process of data collection, the data cleaning process is performed to remove <br> and calibrate outliers and abnormal trend data. The script of data cleaning algorithm is <br> provided in this repository. For details about the data cleaning process, please refer to the script in <br> this repository and data descriptor paper. The dataset in this repository is processed version. The raw dataset is not included in this repository. Data is stored as CSV file. Each device is numbered in order of placement. There are 45 sensors in total,<br> 1 to 45 in the csv file are sensor numbers, timestamp as the China Standard Time (GMT+8), Each timestamp <br> corresponds to 45 CO2 concentration data from different sensors. To access the dataset, any programming language that can access the CSV file is appropriate. Users can <br> also directly open the CSV file. To successfully execute script files, Pycharm with Python 3.0 is required.
DOI: 10.5281/zenodo.7160830
title: C-RIDGE: Indoor CO2 Data Collection System for Large Venues Based on Prior Knowledge

description: This CO2 of C-RIDGE system dataset contains the high spatial and temporal resolution of the CO2<br> measures with the corresponding timestamp of static wireless sensors. <br> 45 sensors are densely deployed on the stand in the venue. The id and relative positions of sensors <br> are shown in device message. The sampling rate is adaptively adjusted according to the competition schedule. <br> The sampling interval is 5 minutes during the competition and 15 minutes otherwise. Please refer to <br> the description of the experimental setup in the data descriptor paper. In the process of data collection, the data cleaning process is performed to remove <br> and calibrate outliers and abnormal trend data. The script of data cleaning algorithm is <br> provided in this repository. For details about the data cleaning process, please refer to the script in <br> this repository and data descriptor paper. The dataset in this repository is processed version. The raw dataset is not included in this repository. Data is stored as CSV file. Each device is numbered in order of placement. There are 45 sensors in total,<br> 1 to 45 in the csv file are sensor numbers, timestamp as the China Standard Time (GMT+8), Each timestamp <br> corresponds to 45 CO2 concentration data from different sensors. To access the dataset, any programming language that can access the CSV file is appropriate. Users can <br> also directly open the CSV file. To successfully execute script files, Pycharm with Python 3.0 is required.