cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15151/esrf-es-1971022462
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 and HDX and
XL-MS mass-spectrometry for structural studies.
DOI: 10.15151/esrf-es-1975519241
title: IBS BAG

description: The IBS BAG includes in this proposal IBS teams and external groups from 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-2498 proposal and can be grouped into different topics as follows: host-pathogen interaction, new therapy targets, fundamental cellular mechanisms, membrane proteins, biotechnological applications and methodology. Some of these projects use integrative approaches (X-ray crystallography, cryo-EM, SAXS and NMR), together with other biophysical and biochemical studies, and very recently the use of AI, with the aim to fully understand the complexity of the biological macromolecular systems under study.
DOI: 10.15151/esrf-es-2006254231
title: BAG for Signal transduction, DNA repair, marine & structural glycobiology, bacterial polyketide synthases, starch biosynthesis, regulation o

description: BAG regrouping small crystallographic teams at Lille, Orléans, Roscoff, Nancy and Marseille. For all projects both SAXS and MX-crystallography studies are
required to cover different aspects and scales of these often multimodular proteins. The projects in Lille concern Type V secretion systems, Sars-Cov proteins,
regulatory networks of signal transduction, starch metabolism (synthesis) and structural glycobiology. In Roscoff the projects concern marine glycobiology
and marine phage proteins, deciphering functions of 'unknown' proteins and PUL assemblages. The projects treated in Orléans are DNA structure and repair,
transcription regulation, molecular mechanisms of oxidative stress; in Nancy the studies concern the regulation and mechanisms of prokaryotic polyketide
syntheses. The subjects of Marseille are SAXS studies of ordered and disordered proteins involved in regulation of CO2 assimilation in microalgae.
DOI: 10.15151/esrf-es-2045390253
title: In operando Structural Phase mapping of photosensitive neuristive devices under light excitation

description: Artificial neural networks (ANNs) are inspired by the biological neural networks of the human brain, aiming to replicate its ability to learn, adapt, and process
information in a parallel and flexible manner. The study of VO2 is particularly interesting for the development of ANNs due to its unique physical properties. In
particular, VO2 undergoes a reversible phase transition from an insulator subjected to electrical or optical stimuli. This transition is fast and reversible, making
VO2 an excellent candidate for mimicking the binary or analogue switching behaviour observed in biological synapses. This proposal aims to use scanning X-ray
diffraction microscopy at the ID01 beamline to conduct an in-depth examination of the phase transition in VO2 films. We propose to monitor specific diffraction
peaks of VO2, which are sensitive to unit cell distortion caused by phase transitions induced by Vis-IR light irradiation, in proximity to arrays of plasmonic
nanoheaters.
DOI: 10.60707/j6qr-yf56
title: 40Ar/39Ar geochronology and thermochronology
DOI: 10.15151/esrf-es-2044455482
title: In-situ annealing of thin films

description: The goal of this proposal is to measure how thin films crystallize epitaxially on a monocrystalline substrate as they are annealed. To do so, we will use a furnace designed by Sample Environment and previously used in ID28 with controlled temperature and atmosphere. The range of temperatures studied will be RT-900 deg C with a constant flow of synthetic air. The measurement will be done by GIWAXS with the Pilatus detector.
DOI: 10.15151/esrf-es-2060891997
title: Orientation of silica-nickel Janus particles in a magnetic field

description: The orientation dynamics of silica-nickel Janus particles in water will be studied as a function of applied magnetic field.
DOI: 10.15151/esrf-es-1999194495
title: Correlative imaging for additive manufacturing of metallic alloys

description: Additive manufacturing of metallic alloys is an innovative process but several scientific issues need to be overcome for a strong development in industry. In this field, relevant scales are ranging from several centimenters down to submicron requiring the development of a multi-scale correlative imaging approach. We propose a dual strategy on ID16B and BM18 to extent their application domains: (i) an experimental approach linking in situ tests at several scales with dedicated sample environment and technical developments; (ii) a numerical approach based on artificial intelligence algorithms to reduce data acquisition (low number of projections, automatic segmentation) and increase quality (enhanced resolution, noise and rings removal). The multi-scale correlative imaging strategy will benefit to other imaging beamlines (BM05, ID19), will be transferable to other materials science fields leading to more industry participation at ESRF, thanks to an associated long life learning project.
DOI: 10.15151/esrf-es-2009543197
title: Correlative microscopy to explore the Canal of Hering

description: The liver is a major organ that possesses a very complex architecture. It is organized in hexagonal lobules in which hepatocytes are arranged in cords separated by adjacent sinusoids. Besides, within each cord and between apical surfaces of adjacent hepatocytes, bile canaliculi are formed and constitute a network of micrometer-sized channels. Bile is collected in bile duct thanks to connection with bile canaliculi at the periphery of the lobule. This connection, named canal of Hering, is enigmatic but should be the source of liver progenitor cells. The study of the architecture of the canal of Hering remains a challenge since it is expected to be positioned every ~10 µm along the bile duct. Our aim is to locate and reconstruct it in 3D. To reach this goal, we aim to use X-ray tomography to image large volumes at a resolution of 25 nm allowing to identify the Hering’s canal. Then, FIB-SEM data of the Hering’s canal will be acquired to reconstruct its structure at nm resolution.
DOI: 10.6084/m9.figshare.28150904
title: The d’Oignies herbarium: contents and origins of an early 18th-century plant collection from the Netherlands

description: A little over 200 years ago, an anonymous 18th-century herbarium was bought at auction by the National Library in The Hague, the Netherlands. Until recently, nobody knew where this herbarium originated, with its carefully dried plant specimens accompanied by ornamental urns and garbled names. In 1868, it was handed over to the National Herbarium, an institution that later became part of the Naturalis Biodiversity Center. The lack of scientific attention seemed at odds with the beauty and the possible historic relevance of this herbarium. We studied the 796 digitised specimens and identified 618 unique plant species. The high number of exotic, and non-medicinal Dutch plants was remarkable. By determining the species’ native range, comparing the herbarium with other contemporary collections, studying the paper and bindings, tracing the identity of one-time owner Simone d’Oignies, and in particular tracing the origin of the plant names, we were able to assess when the herbarium was made and its scientific and societal value. Jakob Ligtvoet (1686–1752), head gardener of the Leiden botanic garden, owned a herbarium with all the characteristics of the d’Oignies collection at the time of his death. Comparison with the very similar Zierikee herbarium, convinced us that the d’Oignies herbarium matched the description of the herbarium once owned by Ligtvoet. Both collections were created and kept by the gardeners of the Leiden botanic garden and are of great scientific and societal value.
DOI: 10.6084/m9.figshare.28150904.v1
title: The d’Oignies herbarium: contents and origins of an early 18th-century plant collection from the Netherlands

description: A little over 200 years ago, an anonymous 18th-century herbarium was bought at auction by the National Library in The Hague, the Netherlands. Until recently, nobody knew where this herbarium originated, with its carefully dried plant specimens accompanied by ornamental urns and garbled names. In 1868, it was handed over to the National Herbarium, an institution that later became part of the Naturalis Biodiversity Center. The lack of scientific attention seemed at odds with the beauty and the possible historic relevance of this herbarium. We studied the 796 digitised specimens and identified 618 unique plant species. The high number of exotic, and non-medicinal Dutch plants was remarkable. By determining the species’ native range, comparing the herbarium with other contemporary collections, studying the paper and bindings, tracing the identity of one-time owner Simone d’Oignies, and in particular tracing the origin of the plant names, we were able to assess when the herbarium was made and its scientific and societal value. Jakob Ligtvoet (1686–1752), head gardener of the Leiden botanic garden, owned a herbarium with all the characteristics of the d’Oignies collection at the time of his death. Comparison with the very similar Zierikee herbarium, convinced us that the d’Oignies herbarium matched the description of the herbarium once owned by Ligtvoet. Both collections were created and kept by the gardeners of the Leiden botanic garden and are of great scientific and societal value.
DOI: 10.15468/dl.7qz48d
title: Occurrence Download

description: A dataset listing the 14527 species recorded in GBIF matching the query:
{
 "DatasetKey" : [
 "is Taxon occurrence data for the FungalRoot database"
 ]
}

 The dataset's 14527 records were derived from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000381-250226211154957/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.wdq8ng
title: Occurrence Download

description: A dataset containing 40955 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is Asia",
 "Country is Indonesia",
 "GadmGid is IDN.29.1_1"
 ]
}

 The dataset includes 40955 records from 71 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000387-250226211518916/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ac4y7w
title: Occurrence Download

description: A dataset containing 40955 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is Asia",
 "Country is Indonesia",
 "GadmGid is IDN.29.1_1"
 ]
}

 The dataset includes 40955 records from 71 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000388-250226211518916/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.28503464
title: Optimization of pour-over coffee extraction

description: This dataset is used for research using reinforcement learning (RL) and compares its performance with the K-Nearest Neighbors (KNN) model
DOI: 10.15468/dl.qn4ejs
title: Occurrence Download

description: A dataset listing the 4031073 species recorded in GBIF matching the query:
{ }

 The dataset's 4031073 records were derived from 71409 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000379-250226211154957/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.fb2eyy
title: Occurrence Download

description: A dataset containing 161 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Lithocarpus fordianus (Hemsl.) Chun"
 ]
}

 The dataset includes 161 records from 14 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000385-250226211154957/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.a9tt3e
title: Occurrence Download

description: A dataset containing 1808 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Dieffenbachia seguine (Jacq.) Schott)",
 "BasisOfRecord is one of (Specimen, Human Observation, Observation, Living Specimen, Machine Observation, Literature Occurrence)",
 "Geometry POLYGON((-180 -90,180 -90,180 90,-180 90,-180 -90))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 1945"
 ]
}

 The dataset includes 1808 records from 140 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000387-250226211154957/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.uwtvxv
title: Occurrence Download

description: A dataset containing 266408 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Observation, Machine Observation, Human Observation, Material sample, Material citation, Living Specimen, Occurrence evidence)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Ochrophyta",
 "Year 2020-2021"
 ]
}

 The dataset includes 266408 records from 241 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000377-250226211154957/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.28503386
title: <b>Phylogenetics and Comparative Mutational Analysis of the Whole Genome of the Identified Variants of the SARS-COV-2 Virus Isolates in Bangladesh</b>

description: A significant percentage of COVID-survived patients are suffering from post-COVID-19 conditions. For this reason, a comprehensive analysis of the genomic mutations of the variants of SARS-CoV-2 virus, and the interaction of the viral and host proteins and other biological components is necessary. In this study, after the collection of the sample specimen, RNA extraction, genome sequencing, and data analysis were performed. The study identified that within the time frame of March 2021 to February 2022, among the 96 virus isolates, 24 (25%) were from the Delta variants (clade 21A (n=21) and 21J (n=3)) and 72 (75%) were from the Omicron variants (clade 20A (n=6), and 20B (n=66)). In both of the variants, the percentages of substitution mutations were higher than the percentages of deletion and insertion mutations. Nucleotide base change patterns were similar (for C&gt;T, and A&gt;G) in both of the variants, but differed in some (i.e., G&gt;T, G&gt;A). Preferences for wild-type and mutant amino acid substitution and amino acid deletion were also observed to vary in different proteins of the Delta and Omicron variants. Phylogenetic analysis showed that the most ancestral viral isolates were from clade 21A of Delta and then the other variants emerged. The findings of the study add some information to the mutational pattern of SARS-CoV-2 variants and it might help in understanding the SARS-CoV-2 viral strategy and mutational preferences. Further analysis potentially can aid in understanding the interaction of the variants of the SARS-CoV-2 virus and the human body system for addressing and treating post-COVID-19 conditions.
DOI: 10.6084/m9.figshare.28503386.v1
title: <b>Phylogenetics and Comparative Mutational Analysis of the Whole Genome of the Identified Variants of the SARS-COV-2 Virus Isolates in Bangladesh</b>

description: A significant percentage of COVID-survived patients are suffering from post-COVID-19 conditions. For this reason, a comprehensive analysis of the genomic mutations of the variants of SARS-CoV-2 virus, and the interaction of the viral and host proteins and other biological components is necessary. In this study, after the collection of the sample specimen, RNA extraction, genome sequencing, and data analysis were performed. The study identified that within the time frame of March 2021 to February 2022, among the 96 virus isolates, 24 (25%) were from the Delta variants (clade 21A (n=21) and 21J (n=3)) and 72 (75%) were from the Omicron variants (clade 20A (n=6), and 20B (n=66)). In both of the variants, the percentages of substitution mutations were higher than the percentages of deletion and insertion mutations. Nucleotide base change patterns were similar (for C&gt;T, and A&gt;G) in both of the variants, but differed in some (i.e., G&gt;T, G&gt;A). Preferences for wild-type and mutant amino acid substitution and amino acid deletion were also observed to vary in different proteins of the Delta and Omicron variants. Phylogenetic analysis showed that the most ancestral viral isolates were from clade 21A of Delta and then the other variants emerged. The findings of the study add some information to the mutational pattern of SARS-CoV-2 variants and it might help in understanding the SARS-CoV-2 viral strategy and mutational preferences. Further analysis potentially can aid in understanding the interaction of the variants of the SARS-CoV-2 virus and the human body system for addressing and treating post-COVID-19 conditions.
DOI: 10.6084/m9.figshare.28074941.v2
title: Replication Materials for "The Pivot Penalty in Research"

description: Replication Package for "The Pivot Penalty in Research"By Ryan Hill, Yian Yin, Carolyn Stein, Xizhao Wang, Dashun Wang, and Benjamin F. JonesAbstract:Scientists and inventors set the direction of their work amidst evolving questions, opportunities, and challenges, yet the extent to which research directions are adaptable remains unclear. Theories of creative search highlight the potential benefits of exploration but also emphasize difficulties in moving beyond one’s expertise. Here we introduce a measurement framework to quantify how far researchers move from their existing work and apply it to millions of papers and patents. We find a pervasive “pivot penalty”, where the impact of new research steeply declines the further a researcher moves from their prior work. The pivot penalty applies nearly universally across science and patenting and has been growing in magnitude over the past five decades. Larger pivots further exhibit weak engagement with established mixtures of prior knowledge, lower publication success rates, and less market impact. Unexpected shocks to the research landscape, which may push researchers away from existing areas or pull them into new ones, further demonstrate substantial pivot penalties, including in the context of the COVID-19 pandemic. The pivot penalty generalizes across fields, career stage, productivity, collaboration, and funding contexts, highlighting both the breadth and depth of the adaptive challenge. Overall, the findings point to large and increasing challenges in adapting to new opportunities and threats, with implications for individual researchers, research organizations, science policy, and the capacity of science and society as a whole to confront emergent demands.
DOI: 10.34965/i53378
title: 20235034-7
DOI: 10.15468/dl.2sndqd
title: Occurrence Download

description: A dataset containing 25 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is one of (Philippines, India, Cambodia, Malaysia, Chinese Taipei, United States of America, Viet Nam, South Africa, Zambia)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Phyllosticta musarum (Cooke) Aa"
 ]
}

 The dataset includes 25 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000390-250226211518916/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.4pe33j
title: Occurrence Download

description: A dataset containing 183 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Lithocarpus garrettianus (Craib) A.Camus"
 ]
}

 The dataset includes 183 records from 11 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000391-250226211518916/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.24hgw8
title: Occurrence Download

description: A dataset containing 9 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is China",
 "TaxonKey is Plagiomnium drummondii (Bruch & Schimp.) T.J.Kop."
 ]
}

 The dataset includes 9 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000390-250226211154957/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.gtyekp
title: Occurrence Download

description: A dataset containing 14 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Lithocarpus gigantophyllus (Hickel & A.Camus) A.Camus"
 ]
}

 The dataset includes 14 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000388-250226211154957/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6pr5aj
title: Occurrence Download

description: A dataset listing the 2089 species recorded in GBIF matching the query:
{
 "and" : [
 "Continent is Asia",
 "Country is Indonesia",
 "GadmGid is IDN.29.1_1"
 ]
}

 The dataset's 2089 records were derived from 71 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000386-250226211154957/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.fruy4y
title: Occurrence Download

description: A dataset containing 987 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Digera muricata (L.) Mart.)",
 "BasisOfRecord is one of (Specimen, Human Observation, Observation, Living Specimen, Machine Observation, Literature Occurrence)",
 "Geometry POLYGON((-180 -90,180 -90,180 90,-180 90,-180 -90))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 1945"
 ]
}

 The dataset includes 987 records from 36 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000392-250226211518916/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.n5t3rz
title: Occurrence Download

description: A dataset containing 20687 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is BRUVS observations at Ningaloo Marine Park, Western Australia (2019)"
 ]
}

 The dataset includes 20687 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000393-250226211518916/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.60707/26c8-v254
title: 40Ar/39Ar geochronology and thermochronology
DOI: 10.60707/w54t-s279
title: 40Ar/39Ar geochronology and thermochronology