cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.rqhr7x
title: Occurrence Download

description: A dataset containing 223 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Ethiopia",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Brachiaria brizantha (A.Rich.) Stapf"
 ]
}

 The dataset includes 223 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022163-241007104925546/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.3t34p6
title: Occurrence Download

description: A dataset containing 834 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
 },
 "TaxonKey is Patrobus assimilis Chaudoir, 1844",
 "PhylumKey is Arthropoda",
 "Year is greater than or equal to 1992",
 "Year is less than or equal to 2012",
 "Geometry POLYGON((-26 34, 42 34, 42 70, -26 70, -26 34))"
 ]
}

 The dataset includes 834 records from 38 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022164-241007104925546/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.mb5z2d
title: Occurrence Download

description: A dataset containing 7740 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is Darling Scarp Survey",
 "Geometry POLYGON((114.47640 -32.73214,117.80257 -32.73214,117.80257 -31.40338,114.47640 -31.40338,114.47640 -32.73214))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 7740 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022165-241007104925546/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.k8hygp
title: Occurrence Download

description: A dataset containing 63 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Strabomantis necerus (Lynch, 1975)"
 ]
}

 The dataset includes 63 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022167-241007104925546/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.5azx6d
title: Occurrence Download

description: A dataset containing 169 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
 },
 "TaxonKey is Pterostichus cupreus (Linnaeus, 1758)",
 "PhylumKey is Arthropoda",
 "Year is greater than or equal to 1992",
 "Year is less than or equal to 2012",
 "Geometry POLYGON((-26 34, 42 34, 42 70, -26 70, -26 34))"
 ]
}

 The dataset includes 169 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022166-241007104925546/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.yqyngb
title: Occurrence Download

description: A dataset containing 59 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
 },
 "TaxonKey is Pterostichus versicolor (Sturm, 1824)",
 "PhylumKey is Arthropoda",
 "Year is greater than or equal to 1992",
 "Year is less than or equal to 2012",
 "Geometry POLYGON((-26 34, 42 34, 42 70, -26 70, -26 34))"
 ]
}

 The dataset includes 59 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022168-241007104925546/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5517/ccdc.csd.cc2k71hc
title: CCDC 2360262: Experimental Crystal Structure Determination

description: Related Article: Paul G. Waddell, Michael R. Probert, Natalie T. Johnson|2024|J.Chem.Educ.|101|4276|doi:10.1021/acs.jchemed.4c00797
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: 10.5281/zenodo.11489141
title: RODIN X-ray Diffraction Data 2360259

description: This dataset is part of the Resource of Diffraction Images Newcastle (RODIN), intended for the teaching of crystallography. More information about RODIN can be found on the CCDC website, as well as in the following article: 

J. Chem. Educ. 2024, 101, 10, 4276–4281 DOI: 10.1021/acs.jchemed.4c00797  

RODIN was created for educational purposes and is ideal for teaching at secondary school and University level. We also encourage its use for teaching early-stage researchers crystallographic data processing and training new diffractometer users. The diffraction images from this project can be downloaded from Zenodo and used in teaching. You can use this resource to help students understand how to go from diffraction images to a solved crystal structure. Please note that structures from these datasets are already in the Cambridge Structural Database (CSD) and you should not submit your final structure solution to the CSD or publish them, they are intended for teaching purposes only. The diffraction images are provided under a CC-BY license. 

The zip file contains X-ray diffraction images of L-cysteine. A final structure solution for this data can be found in the CSD.

The tables below summarise the data collection parameters for the experiment.

 

General information






Project



Resource of Diffraction Images Newcastle (RODIN)





Collection Site



 Newcastle University





Sample Label



 pgw240004





Linked CCDC number

2360259




CSD Refcode



LCYSTN37





 

Instrument information






Instrument

XtaLAB Synergy  Single source at home/near  HyPix-Arc 100




Instrument manufacturer



Rigaku





Detector

HyPix-Arc 100




X-ray source

Enhance (Cu) X-ray Source




X-ray monochromator

graphite




 

Experimental information






Collection probe

x-ray




Radiation type

CuK\a




Wavelength (Å)

1.54184




Collection temperature (K)

150.0(2)




Collection pressure



Sample was collected at atmospheric pressure





 

Crystal information






Chemical name

L-cysteine




Chemical formula

C3 H7 N O2 S




Crystal max size (mm)

0.27




Crystal mid size (mm)

0.07




Crystal min size (mm)

0.05




Crystal colour

colourless




Crystal habit

block




Sample preparation



As purchased, without need for recrystallisation





 

Software information






Software for data collection

CrysAlisPro 1.171.42.90a (Rigaku OD  2023)




 

File information

The .par file in the folder has been modified from the original version (the unit cell is set to 10 10 10 90 90 90 to require the user to determine the unit cell when processing the data). The original .par file (along with *_peakhunt.tabbin and *_proffitpeak.tabbin files) can be found in the folder named ‘original’.






Image folders



.frames/xxx.rodhypix





Image format



.rodhypix (Rigaku proprietary image format)





Additional files



CrysAlisPro input files:

./expinfo/

./CrysalisExpSettings.ini

./pgw240004.par

./pgw240004.run

 

Crystal Images:

./movie/
DOI: 10.5281/zenodo.11489142
title: RODIN X-ray Diffraction Data 2360259

description: This dataset is part of the Resource of Diffraction Images Newcastle (RODIN), intended for the teaching of crystallography. More information about RODIN can be found on the CCDC website, as well as in the following article: 

J. Chem. Educ. 2024, 101, 10, 4276–4281 DOI: 10.1021/acs.jchemed.4c00797  

RODIN was created for educational purposes and is ideal for teaching at secondary school and University level. We also encourage its use for teaching early-stage researchers crystallographic data processing and training new diffractometer users. The diffraction images from this project can be downloaded from Zenodo and used in teaching. You can use this resource to help students understand how to go from diffraction images to a solved crystal structure. Please note that structures from these datasets are already in the Cambridge Structural Database (CSD) and you should not submit your final structure solution to the CSD or publish them, they are intended for teaching purposes only. The diffraction images are provided under a CC-BY license. 

The zip file contains X-ray diffraction images of L-cysteine. A final structure solution for this data can be found in the CSD.

The tables below summarise the data collection parameters for the experiment.

 

General information






Project



Resource of Diffraction Images Newcastle (RODIN)





Collection Site



 Newcastle University





Sample Label



 pgw240004





Linked CCDC number

2360259




CSD Refcode



LCYSTN37





 

Instrument information






Instrument

XtaLAB Synergy  Single source at home/near  HyPix-Arc 100




Instrument manufacturer



Rigaku





Detector

HyPix-Arc 100




X-ray source

Enhance (Cu) X-ray Source




X-ray monochromator

graphite




 

Experimental information






Collection probe

x-ray




Radiation type

CuK\a




Wavelength (Å)

1.54184




Collection temperature (K)

150.0(2)




Collection pressure



Sample was collected at atmospheric pressure





 

Crystal information






Chemical name

L-cysteine




Chemical formula

C3 H7 N O2 S




Crystal max size (mm)

0.27




Crystal mid size (mm)

0.07




Crystal min size (mm)

0.05




Crystal colour

colourless




Crystal habit

block




Sample preparation



As purchased, without need for recrystallisation





 

Software information






Software for data collection

CrysAlisPro 1.171.42.90a (Rigaku OD  2023)




 

File information

The .par file in the folder has been modified from the original version (the unit cell is set to 10 10 10 90 90 90 to require the user to determine the unit cell when processing the data). The original .par file (along with *_peakhunt.tabbin and *_proffitpeak.tabbin files) can be found in the folder named ‘original’.






Image folders



.frames/xxx.rodhypix





Image format



.rodhypix (Rigaku proprietary image format)





Additional files



CrysAlisPro input files:

./expinfo/

./CrysalisExpSettings.ini

./pgw240004.par

./pgw240004.run

 

Crystal Images:

./movie/
DOI: 10.5517/ccdc.csd.cc2k71d8
title: CCDC 2360259: Experimental Crystal Structure Determination

description: Related Article: Paul G. Waddell, Michael R. Probert, Natalie T. Johnson|2024|J.Chem.Educ.|101|4276|doi:10.1021/acs.jchemed.4c00797
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: 10.15468/dl.zy54wg
title: Occurrence Download

description: A dataset containing 490 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
 },
 "TaxonKey is Trechus rubens (Fabricius, 1792)",
 "PhylumKey is Arthropoda",
 "Year is greater than or equal to 1992",
 "Year is less than or equal to 2012",
 "Geometry POLYGON((-26 34, 42 34, 42 70, -26 70, -26 34))"
 ]
}

 The dataset includes 490 records from 46 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022169-241007104925546/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.qvq8eb
title: Occurrence Download

description: A dataset containing 662 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
 },
 "TaxonKey is Achipteria coleoptrata (Linnaeus, 1758)",
 "PhylumKey is Arthropoda",
 "Year is greater than or equal to 1992",
 "Year is less than or equal to 2012",
 "Geometry POLYGON((-26 34, 42 34, 42 70, -26 70, -26 34))"
 ]
}

 The dataset includes 662 records from 34 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022171-241007104925546/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.2rg5rn
title: Occurrence Download

description: A dataset containing 153812 species occurrences available in GBIF matching the query:
{
 "and" : [
 "SpeciesKey is one of (Arabidopsis thaliana (L.) Heynh.)",
 "BasisOfRecord is one of (Human Observation, Observation, Occurrence evidence)",
 "Year is greater than or equal to 1901",
 "Year is less than or equal to 2019",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 153812 records from 882 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022149-241007104925546/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.27011400
title: Variational Inference based on a Subclass of Closed Skew Normals

description: Gaussian distributions are widely used in Bayesian variational inference to approximate intractable posterior densities, but the ability to accommodate skewness can improve approximation accuracy significantly, when data or prior information is scarce. We study the properties of a subclass of closed skew normals constructed using affine transformation of independent standardized univariate skew normals as the variational density, and illustrate how it provides increased flexibility and accuracy in approximating the joint posterior in various applications, by overcoming limitations in existing skew normal variational approximations. The evidence lower bound is optimized using stochastic gradient ascent, where analytic natural gradient updates are derived. We also demonstrate how problems in maximum likelihood estimation of skew normal parameters occur similarly in stochastic variational inference, and can be resolved using the centered parameterization. Supplementary materials for this article are available online.
DOI: 10.6084/m9.figshare.27011400.v2
title: Variational Inference based on a Subclass of Closed Skew Normals

description: Gaussian distributions are widely used in Bayesian variational inference to approximate intractable posterior densities, but the ability to accommodate skewness can improve approximation accuracy significantly, when data or prior information is scarce. We study the properties of a subclass of closed skew normals constructed using affine transformation of independent standardized univariate skew normals as the variational density, and illustrate how it provides increased flexibility and accuracy in approximating the joint posterior in various applications, by overcoming limitations in existing skew normal variational approximations. The evidence lower bound is optimized using stochastic gradient ascent, where analytic natural gradient updates are derived. We also demonstrate how problems in maximum likelihood estimation of skew normal parameters occur similarly in stochastic variational inference, and can be resolved using the centered parameterization. Supplementary materials for this article are available online.
DOI: 10.6084/m9.figshare.27011400.v1
title: Variational inference based on a subclass of closed skew normals

description: Gaussian distributions are widely used in Bayesian variational inference to approximate intractable posterior densities, but the ability to accommodate skewness can improve approximation accuracy significantly, when data or prior information is scarce. We study the properties of a subclass of closed skew normals constructed using affine transformation of independent standardized univariate skew normals as the variational density, and illustrate how it provides increased flexibility and accuracy in approximating the joint posterior in various applications, by overcoming limitations in existing skew normal variational approximations. The evidence lower bound is optimized using stochastic gradient ascent, where analytic natural gradient updates are derived. We also demonstrate how problems in maximum likelihood estimation of skew normal parameters occur similarly in stochastic variational inference, and can be resolved using the centered parametrization. Supplemental materials are available online.
DOI: 10.15468/dl.dbgrzf
title: Occurrence Download

description: A dataset containing 53985 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Marine sites, habitats and species data collected during the BioMar survey of Ireland."
 ]
}

 The dataset includes 53985 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022170-241007104925546/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.tme952
title: Occurrence Download

description: A dataset containing 21 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
 },
 "TaxonKey is Achipteria nitens Kishida, 1930",
 "PhylumKey is Arthropoda",
 "Year is greater than or equal to 1992",
 "Year is less than or equal to 2012",
 "Geometry POLYGON((-26 34, 42 34, 42 70, -26 70, -26 34))"
 ]
}

 The dataset includes 21 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022172-241007104925546/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.27131970
title: Data_file_3.pdf

description: Complete report of genome analysis in assembly issues, using QUAST
DOI: 10.6084/m9.figshare.27131970.v1
title: Data_file_3.pdf

description: Complete report of genome analysis in assembly issues, using QUAST
DOI: 10.15468/dl.xr8u2g
title: Occurrence Download

description: A dataset containing 22 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
 },
 "TaxonKey is Adoristes poppei (Oudemans, 1906)",
 "PhylumKey is Arthropoda",
 "Year is greater than or equal to 1992",
 "Year is less than or equal to 2012",
 "Geometry POLYGON((-26 34, 42 34, 42 70, -26 70, -26 34))"
 ]
}

 The dataset includes 22 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022174-241007104925546/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.a55zcc
title: Occurrence Download

description: A dataset containing 44 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Telmatobius bolivianus Parker, 1940"
 ]
}

 The dataset includes 44 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022175-241007104925546/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.rpbakb
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
 },
 "TaxonKey is Allogalumna alamellae (Jacot, 1935)",
 "PhylumKey is Arthropoda",
 "Year is greater than or equal to 1992",
 "Year is less than or equal to 2012",
 "Geometry POLYGON((-26 34, 42 34, 42 70, -26 70, -26 34))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022176-241007104925546/datasets/export for details.
DOI: 10.15468/dl.3nq4hm
title: Occurrence Download

description: A dataset containing 131617 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Iguanidae"
 ]
}

 The dataset includes 131617 records from 552 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022147-241007104925546/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.z75qcq
title: Occurrence Download

description: A dataset containing 33 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Month is one of (January, February, March, April, November, December)",
 "TaxonKey is Brassica oleracea var. botrytis L.",
 "Year 1994-2024"
 ]
}

 The dataset includes 33 records from 15 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0063582-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.mdkkzg
title: Occurrence Download

description: A dataset containing 87 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Month is one of (January, February, March, April, November, December)",
 "TaxonKey is Brassica oleracea var. capitata L.",
 "Year 1994-2024"
 ]
}

 The dataset includes 87 records from 20 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0063583-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.rw32g3
title: Occurrence Download

description: A dataset containing 210 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Rigidoporus crocatus (Pat.) Ryvarden",
 {
 "not" : {
 "DatasetKey" : [
 "is Global database of alien macrofungi"
 ]
 }
 },
 {
 "or" : [
 "Country is United States of America",
 "Country is United States",
 "Country is United States of America",
 "Country is Canada",
 "Continent is North America"
 ]
 }
 ]
}

 The dataset includes 210 records from 21 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0132891-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ebtdhz
title: Occurrence Download

description: A dataset containing 1221 species occurrences available in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "TaxonKey is Pinus tecunumanii Eguiluz & J.P.Perry"
 ]
}

 The dataset includes 1221 records from 49 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0350581-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.