cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5517/ccdc.csd.cc1326bq
title: CCDC 1015012: Experimental Crystal Structure Determination

description: Related Article: Ai Hua Zhang, Wen Liu, Nan Jiang, Xin Lei Wang, Gang Wang, Qiang Xu, Ren Xiang Tan|2017|Org.Lett.|19|2142|doi:10.1021/acs.orglett.7b00786
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.cc1326cr
title: CCDC 1015013: Experimental Crystal Structure Determination

description: Related Article: Ai Hua Zhang, Wen Liu, Nan Jiang, Xin Lei Wang, Gang Wang, Qiang Xu, Ren Xiang Tan|2017|Org.Lett.|19|2142|doi:10.1021/acs.orglett.7b00786
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.cc1326ds
title: CCDC 1015014: Experimental Crystal Structure Determination

description: Related Article: Ai Hua Zhang, Wen Liu, Nan Jiang, Xin Lei Wang, Gang Wang, Qiang Xu, Ren Xiang Tan|2017|Org.Lett.|19|2142|doi:10.1021/acs.orglett.7b00786
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.cc1326ft
title: CCDC 1015015: Experimental Crystal Structure Determination

description: Related Article: Ai Hua Zhang, Wen Liu, Nan Jiang, Xin Lei Wang, Gang Wang, Qiang Xu, Ren Xiang Tan|2017|Org.Lett.|19|2142|doi:10.1021/acs.orglett.7b00786
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.cc1326gv
title: CCDC 1015016: Experimental Crystal Structure Determination

description: Related Article: Ai Hua Zhang, Wen Liu, Nan Jiang, Xin Lei Wang, Gang Wang, Qiang Xu, Ren Xiang Tan|2017|Org.Lett.|19|2142|doi:10.1021/acs.orglett.7b00786
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/cc132dm6
title: CCDC 1015207: Experimental Crystal Structure Determination

description: Related Article: Veerapandian Velkannan, Puttaiah Bhyrappa|2015|Polyhedron|87|170|doi:10.1016/j.poly.2014.10.033
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/cc132dn7
title: CCDC 1015208: Experimental Crystal Structure Determination

description: Related Article: Veerapandian Velkannan, Puttaiah Bhyrappa|2015|Polyhedron|87|170|doi:10.1016/j.poly.2014.10.033
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/cc132dp8
title: CCDC 1015209: Experimental Crystal Structure Determination

description: Related Article: Veerapandian Velkannan, Puttaiah Bhyrappa|2015|Polyhedron|87|170|doi:10.1016/j.poly.2014.10.033
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/cc12b4wf
title: CCDC 992864: Experimental Crystal Structure Determination

description: Related Article: Xiaoyan Ren, Qinhe Pan, Jiancong Liu, Yi Li, Fuxiang Wang, Jiyang Li, Yan Xu, Li Li|2014|CrystEngComm|16|9545|doi:10.1039/C4CE00671B
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/cc1329p5
title: CCDC 1015116: Experimental Crystal Structure Determination

description: Related Article: Chun Gao , Li Han , Dan Zheng , Hongwei Jin , Chunyan Gai , Jianbin Wang , Hao Zhang , Liangren Zhang , and Hongzheng Fu|2015|J.Nat.Prod.|78|630|doi:10.1021/np500746n
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/cc12b4zj
title: CCDC 992867: Experimental Crystal Structure Determination

description: Related Article: Xiaoyan Ren, Qinhe Pan, Jiancong Liu, Yi Li, Fuxiang Wang, Jiyang Li, Yan Xu, Li Li|2014|CrystEngComm|16|9545|doi:10.1039/C4CE00671B
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/cc132byg
title: CCDC 1015155: Experimental Crystal Structure Determination

description: Related Article: Jordan F. Corbey, Ming Fang, Joseph W. Ziller, William J. Evans|2015|Inorg.Chem.|54|801|doi:10.1021/ic501753x
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/cc132bzh
title: CCDC 1015156: Experimental Crystal Structure Determination

description: Related Article: Jordan F. Corbey, Ming Fang, Joseph W. Ziller, William J. Evans|2015|Inorg.Chem.|54|801|doi:10.1021/ic501753x
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/cc132c0k
title: CCDC 1015157: Experimental Crystal Structure Determination

description: Related Article: Jordan F. Corbey, Ming Fang, Joseph W. Ziller, William J. Evans|2015|Inorg.Chem.|54|801|doi:10.1021/ic501753x
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/cc132c1l
title: CCDC 1015158: Experimental Crystal Structure Determination

description: Related Article: Jordan F. Corbey, Ming Fang, Joseph W. Ziller, William J. Evans|2015|Inorg.Chem.|54|801|doi:10.1021/ic501753x
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/cc132c2m
title: CCDC 1015159: Experimental Crystal Structure Determination

description: Related Article: Jordan F. Corbey, Ming Fang, Joseph W. Ziller, William J. Evans|2015|Inorg.Chem.|54|801|doi:10.1021/ic501753x
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/cc132c8t
title: CCDC 1015165: Experimental Crystal Structure Determination

description: Related Article: Ke-Li Cao, Yan Xia, Gui-Xian Wang, Yun-Long Feng|2015|Inorg.Chem.Commun.|53|42|doi:10.1016/j.inoche.2015.01.021
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/cc1326v7
title: CCDC 1015028: Experimental Crystal Structure Determination

description: Related Article: S.T. Çelikesir, M. Akkurt, A. Jarrahpour, O. Büyükgüngör|2014|Acta Crystallogr.,Sect.E:Struct.Rep.Online|70|o935|doi:10.1107/S160053681401678X
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.cc132dzk
title: CCDC 1015218: Experimental Crystal Structure Determination

description: Related Article: V.V.Sharutin, O.K.Sharutina, V.S.Senchurin|2015|Zh.Neorg.Khim.|60|1093|doi:10.1134/S0036023615060145
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/cc1327s6
title: CCDC 1015057: Experimental Crystal Structure Determination

description: Related Article: Jennifer Burt, William Grantham, William Levason, Mark E. Light, Gillian Reid|2015|Polyhedron|85|530|doi:10.1016/j.poly.2014.09.016
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/cc132dyj
title: CCDC 1015217: Experimental Crystal Structure Determination

description: Related Article: Junhao Zheng, Yuwen Wang, Zhen Hua Li, Huadong Wang|2015|Chem.Commun.|51|5505|doi:10.1039/C4CC07658C
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/cc1327t7
title: CCDC 1015058: Experimental Crystal Structure Determination

description: Related Article: Jennifer Burt, William Grantham, William Levason, Mark E. Light, Gillian Reid|2015|Polyhedron|85|530|doi:10.1016/j.poly.2014.09.016
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/cc1327v8
title: CCDC 1015059: Experimental Crystal Structure Determination

description: Related Article: Jennifer Burt, William Grantham, William Levason, Mark E. Light, Gillian Reid|2015|Polyhedron|85|530|doi:10.1016/j.poly.2014.09.016
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/cc1327w9
title: CCDC 1015060: Experimental Crystal Structure Determination

description: Related Article: Jennifer Burt, William Grantham, William Levason, Mark E. Light, Gillian Reid|2015|Polyhedron|85|530|doi:10.1016/j.poly.2014.09.016
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/cc1327xb
title: CCDC 1015061: Experimental Crystal Structure Determination

description: Related Article: Jennifer Burt, William Grantham, William Levason, Mark E. Light, Gillian Reid|2015|Polyhedron|85|530|doi:10.1016/j.poly.2014.09.016
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/cc1327yc
title: CCDC 1015062: Experimental Crystal Structure Determination

description: Related Article: Jennifer Burt, William Grantham, William Levason, Mark E. Light, Gillian Reid|2015|Polyhedron|85|530|doi:10.1016/j.poly.2014.09.016
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/cc132f4r
title: CCDC 1015223: Experimental Crystal Structure Determination

description: Related Article: Daniel T. Hog, Florian M. E. Huber, Gonzalo Jiménez-Osés, Peter Mayer, Kendall N. Houk, Dirk Trauner|2015|Chem.-Eur.J.|21|13646|doi:10.1002/chem.201501423
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/cc132f5s
title: CCDC 1015224: Experimental Crystal Structure Determination

description: Related Article: Daniel T. Hog, Florian M. E. Huber, Gonzalo Jiménez-Osés, Peter Mayer, Kendall N. Houk, Dirk Trauner|2015|Chem.-Eur.J.|21|13646|doi:10.1002/chem.201501423
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/cc1327gw
title: CCDC 1015047: Experimental Crystal Structure Determination

description: Related Article: Dominique Miesel, Alexander Hildebrandt, Tobias Rüffer, Dieter Schaarschmidt, Heinrich Lang|2014|Eur.J.Inorg.Chem.|2014|5541|doi:10.1002/ejic.201402686
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/cc132f6t
title: CCDC 1015225: Experimental Crystal Structure Determination

description: Related Article: Daniel T. Hog, Florian M. E. Huber, Gonzalo Jiménez-Osés, Peter Mayer, Kendall N. Houk, Dirk Trauner|2015|Chem.-Eur.J.|21|13646|doi:10.1002/chem.201501423
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: 10.7266/g3260nfn
title: MASTR experiment - Yucatan high frequency radar - 6 km sea surface currents - 2024/01/15 to 2024/05/15 - postprocessed
DOI: 10.15468/dl.vyfk6e
title: Occurrence Download

description: A dataset containing 306 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "TaxonKey is Scaphyglottis sickii Pabst"
 ]
}

 The dataset includes 306 records from 59 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007144-250227182400228/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.14983103
title: Sample Dataset for Drug Repurposing Trends – 1985 Subset (Anonymized Version)
DOI: 10.5281/zenodo.14983104
title: Sample Dataset for Drug Repurposing Trends – 1985 Subset (Anonymized Version)
DOI: 10.15468/dl.nhb7tr
title: Occurrence Download

description: A dataset containing 4220 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Megalopta Smith, 1853",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 4220 records from 45 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007145-250227182400228/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.epqcsk
title: Occurrence Download

description: A dataset containing 13895 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Salicornia L., Salicornia, Salicornia de Blainville, 1830, Salicorniaria Schinz, 1825)",
 "BasisOfRecord is one of (Specimen, Literature Occurrence)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 13895 records from 399 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007184-250227182430271/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.18112/openneuro.ds005356.v1.5.0
title: MEG: Major Depression Probabilistic Learning Task
DOI: 10.5281/zenodo.14644029
title: Data and scripts for the "Genomic architecture of the clownfish hybrid Amphiprion leucokranos"

description: Data and scripts used for the analysis of the publication Genomic architecture of the clownfish hybrid Amphiprion leucokranos

Pictures

The "leucokranos_pictures" directory contains the picture of the hybrid (Amphiprion leucokranos) individuals used for the colour pattern analysis. Names of the files match the name of the individual. 

VCF files

filtered_snps_no_outgroup.vcf.gz

Filtered VCF file of 64 individuals, including only A. chrysopterus, A. sandaracinos and A. leucokranos. We hard-filtered the VCF  following the GATK recommendations, since no well-curated training resources are available for base recalibration  (QD < 2.0, MQ < 40.0, FS > 60.0, SOR > 3.0, MQRankSum < -12.5, ReadPosRankSum < -8.0). We performed additional filtering using VCFtools V0.1.16 (Danecek et al. 2011) and kept only biallelic SNPs with a quality above 30 (--minQ 30), which were informative for at least 85% of the individuals (--max-missing 0.85), with a minimum depth of 7 (--minDP 7), a maximum depth of 40 (--maxDP 40) and a minor allele count greater than or equal to 3 (--mac 3). More info about individuals present in the VCF file are available in the vcf_individuals_info.csv file.

filtered_snps_outgroup.vcf.gz

Filtered VCF file of 74 individuals, which includes the outgroup A. clarkii used for the ABBA-BABA analysis. We hard-filtered the VCF  following the GATK recommendations, since no well-curated training resources are available for base recalibration  (QD < 2.0, MQ < 40.0, FS > 60.0, SOR > 3.0, MQRankSum < -12.5, ReadPosRankSum < -8.0). We performed additional filtering using VCFtools V0.1.16 (Danecek et al. 2011) and kept only biallelic SNPs with a quality above 30 (--minQ 30), which were informative for at least 85% of the individuals (--max-missing 0.85), with a minimum depth of 7 (--minDP 7), a maximum depth of 40 (--maxDP 40) and a minor allele count greater than or equal to 3 (--mac 3). More info about individuals present in the VCF file are available in the vcf_individuals_info.csv file.

Scripts

The directory "scripts.zip" contains all the scripts to generate the VCF files as well as the scripts used for the analysis in the paper. All the information about the pipelines and the scripts are in the README in the scripts directory. Content of the directory:

1_filtering_reads/- 1_run_qc_trimming.sh- TruSeq3-PE-2.fa

2_mapping/- 2_1_run_bwa_ref_indexing.sh- 2_2_run_bwa_mapping.sh

3_variant_calling/- 3_1_gatk_preprocessing.py- 3_1_run_gatk_preprocessing.sh- 3_2_index_ref_genome.sh- 3_3_gatk_haplotype_call.sh- 3_4_merge_vcfs.sh- 3_5_genomics_db_import.sh- 3_6_joint_genotyping.sh- 3_7_gather_vcfs.sh

4_variants_filtering:- 4_1_variant_stats.sh- 4_2_individuals_filtering.sh- 4_2_variant_filtering.sh

5_analysis:- 5_1_pca- 5_2_admix- 5_3_mitogenomes- 5_4_elai- 5_5_pop_gen_stats

README.md