cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.16389586
title: 101-the-cost-of-time.docx
DOI: 10.15468/dl.u7tygn
title: Occurrence Download

description: A dataset containing 6388 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Nabalus albus"
 ]
}

 The dataset includes 6388 records from 157 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035965-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.qzwcr4
title: Occurrence Download

description: A dataset containing 4 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Canna indica",
 "Country is Seychelles",
 "HasCoordinate is true"
 ]
}

 The dataset includes 4 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035966-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.8b4tcm
title: Occurrence Download

description: A dataset containing 9 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Canna indica",
 "Country is Singapore",
 "HasCoordinate is true"
 ]
}

 The dataset includes 9 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035967-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.jxzfkz
title: Occurrence Download

description: A dataset containing 2258 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Nabalus serpentarius"
 ]
}

 The dataset includes 2258 records from 111 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035968-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.yt982w
title: Occurrence Download

description: A dataset containing 368 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Najas indica"
 ]
}

 The dataset includes 368 records from 48 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035969-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.m9mapx
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Stachytarpheta urticaefolia",
 "Country is Indonesia",
 "HasCoordinate is true"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035972-250717081556266/datasets/export for details.
DOI: 10.15468/dl.pww9dd
title: Occurrence Download

description: A dataset containing 2 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Canna indica",
 "Country is Solomon Islands",
 "HasCoordinate is true"
 ]
}

 The dataset includes 2 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035971-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.2ckb4w
title: Occurrence Download

description: A dataset containing 255 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Najas oguraensis"
 ]
}

 The dataset includes 255 records from 40 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035973-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.hga2ve
title: Occurrence Download

description: A dataset containing 356 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Canna indica",
 "Country is Spain",
 "HasCoordinate is true"
 ]
}

 The dataset includes 356 records from 21 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035974-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.zapzwp
title: Occurrence Download

description: A dataset containing 2 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Canna indica",
 "Country is Suriname",
 "HasCoordinate is true"
 ]
}

 The dataset includes 2 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035975-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.9hjeer
title: Occurrence Download

description: A dataset containing 2173 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Najas gracillima"
 ]
}

 The dataset includes 2173 records from 180 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035977-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ew77hf
title: Occurrence Download

description: A dataset containing 82 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Gaura parviflora",
 "Country is China",
 "HasCoordinate is true"
 ]
}

 The dataset includes 82 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035978-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.b5ugtw
title: Occurrence Download

description: A dataset containing 12584 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Najas minor"
 ]
}

 The dataset includes 12584 records from 466 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035976-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.kxpq33
title: Occurrence Download

description: A dataset containing 2529 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Najas graminea"
 ]
}

 The dataset includes 2529 records from 168 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035979-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.852g8w
title: Occurrence Download

description: A dataset containing 144 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Broussonetia papyrifera",
 "Country is Bulgaria",
 "HasCoordinate is true"
 ]
}

 The dataset includes 144 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035980-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.14037441
title: Patient derived data objects for LEGO-teknik manuscript

description: Patient derived RNA-seq data objects associated with Berthelet et al. "LeGO-Teknik reveals that the neurogenesis pathway is a clone-specific hallmark of brain metastasis in breast cancer"

Analysis code: https://github.com/tphlab/legoteknik_paper

See <paper link and doi> for details on data generation. 



Seurat object of exp4 (5 PDX models with single colour leg-teknik barcoding)
DOI: 10.5281/zenodo.14037442
title: Patient derived data objects for LEGO-teknik manuscript

description: Patient derived RNA-seq data objects associated with Berthelet et al. "LeGO-Teknik reveals that the neurogenesis pathway is a clone-specific hallmark of brain metastasis in breast cancer"

Analysis code: https://github.com/tphlab/legoteknik_paper

See <paper link and doi> for details on data generation. 



Seurat object of exp4 (5 PDX models with single colour leg-teknik barcoding)
DOI: 10.5281/zenodo.16299294
title: MDA-MB-231 derived data objects for LEGO-teknik manuscript

description: Cell line RNA-seq data objects associated with Berthelet et al. "LeGO-Teknik reveals that the neurogenesis pathway is a clone-specific hallmark of brain metastasis in breast cancer"

Analysis code: https://github.com/tphlab/legoteknik_paper

See <paper link and doi> for details on data generation. 



Seurat object of exp6 (MDA-MB-231 with lego-teknik barcoding and single cell sorting)

Summarised experiment object of bulk in vivo MDA-MB-231 3,6,16

Summarised experiment object of bulk in vitro MDA-MB-231 3,6,16

Summarised experiment object of bulk in vitro MDA-MB-231 clones 3 and 6. Clone 6 is WT, clone 3 is WT, SOX4 overexpressing or SOX4 control
DOI: 10.5281/zenodo.16299295
title: MDA-MB-231 derived data objects for LEGO-teknik manuscript

description: Cell line RNA-seq data objects associated with Berthelet et al. "LeGO-Teknik reveals that the neurogenesis pathway is a clone-specific hallmark of brain metastasis in breast cancer"

Analysis code: https://github.com/tphlab/legoteknik_paper

See <paper link and doi> for details on data generation. 



Seurat object of exp6 (MDA-MB-231 with lego-teknik barcoding and single cell sorting)

Summarised experiment object of bulk in vivo MDA-MB-231 3,6,16

Summarised experiment object of bulk in vitro MDA-MB-231 3,6,16

Summarised experiment object of bulk in vitro MDA-MB-231 clones 3 and 6. Clone 6 is WT, clone 3 is WT, SOX4 overexpressing or SOX4 control
DOI: 10.15468/dl.6u4scx
title: Occurrence Download

description: A dataset containing 13 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Canna indica",
 "Country is Thailand",
 "HasCoordinate is true"
 ]
}

 The dataset includes 13 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035981-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.jv7ccj
title: Occurrence Download

description: A dataset containing 113 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Broussonetia papyrifera",
 "Country is Croatia",
 "HasCoordinate is true"
 ]
}

 The dataset includes 113 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035982-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.fn5uxg
title: Occurrence Download

description: A dataset containing 209 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Limnobium laevigatum",
 "Country is Colombia",
 "HasCoordinate is true"
 ]
}

 The dataset includes 209 records from 26 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035983-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.15776370
title: Vesta Dataset

description: This dataset was composed as part of the VESTA project, that can be accessed on: https://itea4.org/project/vesta.htmlThe data has been collected from:



TREC-05

TREC-06

TREC-07

Nazario Phishing Corpus

Nigerian Fraud


It contains 220932 samples, labelled as benign/phishing.
DOI: 10.5281/zenodo.15776371
title: Vesta Dataset

description: This dataset was composed as part of the VESTA project, that can be accessed on: https://itea4.org/project/vesta.htmlThe data has been collected from:



TREC-05

TREC-06

TREC-07

Nazario Phishing Corpus

Nigerian Fraud


It contains 220932 samples, labelled as benign/phishing.
DOI: 10.15468/dl.5u6tt5
title: Occurrence Download

description: A dataset containing 370 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Nama stenocarpa"
 ]
}

 The dataset includes 370 records from 57 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035984-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.qf9fwj
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Broussonetia papyrifera",
 "Country is Gambia",
 "HasCoordinate is true"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035986-250717081556266/datasets/export for details.
DOI: 10.15468/dl.u78u4v
title: Occurrence Download

description: A dataset containing 2036 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Nama jamaicensis"
 ]
}

 The dataset includes 2036 records from 93 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035985-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5517/cc4mffl
title: CCDC 137839: Experimental Crystal Structure Determination

description: Related Article: C.A.Christensen, M.R.Bryce, A.S.Batsanov, J.A.K.Howard, J.O.Jeppesen, J.Becher|1999|Chem.Commun.||2433|doi:10.1039/a907768e
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/cc41g9x
title: CCDC 120568: Experimental Crystal Structure Determination

description: Related Article: C.Lambert, W.Gaschler, M.Zabel, R.Matschiner, R.Wortmann|1999|J.Organomet.Chem.|592|109|doi:10.1016/S0022-328X(99)00497-0
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/cc4mfgm
title: CCDC 137840: Experimental Crystal Structure Determination

description: Related Article: C.A.Christensen, M.R.Bryce, A.S.Batsanov, J.A.K.Howard, J.O.Jeppesen, J.Becher|1999|Chem.Commun.||2433|doi:10.1039/a907768e
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.17322890
title: Reprocessed data for training and benchmarking Deep Amino acid Selection Models

description: This consists of reprocessed data from various sources for training and benchmarking. This data is meant to be consumed by the dasm-experiments repository.

Benchmark datasets:



Koenig et al. (2017) - Anti-VEGF antibody deep mutational scanning

Shanehsazzadeh et al. (2023) - Trastuzumab binding data from generative models

Petersen et al. (2024) - MAGMA-seq data (2 antibody systems)

Kirby et al. (2025) - MAGMA-seq data (4 antibody systems, SARS-CoV-2)


Note: the first two data sets are from FLAb; data is from commit 67738ee (April 17, 2024). The FLAb repository has continued to receive updates; we use this specific commit for reproducibility.

Training datasets:



Tang et al. (2022) - DeepSHM heavy chain sequences

Jaffe et al. (2022) - Paired heavy and light chain sequences

Engelbrecht et al. (2025) - Heavy and light chain sequences (kappa and lambda)

Rodriguez et al. (2023) - RACE-seq data for perplexity analysis
DOI: 10.5281/zenodo.17322891
title: Reprocessed data for training and benchmarking Deep Amino acid Selection Models

description: This consists of reprocessed data from various sources for training and benchmarking. This data is meant to be consumed by the dasm-experiments repository.

Benchmark datasets:



Koenig et al. (2017) - Anti-VEGF antibody deep mutational scanning

Shanehsazzadeh et al. (2023) - Trastuzumab binding data from generative models

Petersen et al. (2024) - MAGMA-seq data (2 antibody systems)

Kirby et al. (2025) - MAGMA-seq data (4 antibody systems, SARS-CoV-2)


Note: the first two data sets are from FLAb; data is from commit 67738ee (April 17, 2024). The FLAb repository has continued to receive updates; we use this specific commit for reproducibility.

Training datasets:



Tang et al. (2022) - DeepSHM heavy chain sequences

Jaffe et al. (2022) - Paired heavy and light chain sequences

Engelbrecht et al. (2025) - Heavy and light chain sequences (kappa and lambda)

Rodriguez et al. (2023) - RACE-seq data for perplexity analysis
DOI: 10.5517/cc48y7k
title: CCDC 127758: Experimental Crystal Structure Determination

description: Related Article: J.L.Davidson, H.Richtzenhein, B.J.S.Thiebaut, K.Landskron, G.M.Rosair|1999|J.Organomet.Chem.|592|168|doi:10.1016/S0022-328X(99)00509-4
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/cc4gyzh
title: CCDC 133547: Experimental Crystal Structure Determination

description: Related Article: J.L.Davidson, H.Richtzenhein, B.J.S.Thiebaut, K.Landskron, G.M.Rosair|1999|J.Organomet.Chem.|592|168|doi:10.1016/S0022-328X(99)00509-4
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/cc48y8l
title: CCDC 127759: Experimental Crystal Structure Determination

description: Related Article: J.L.Davidson, H.Richtzenhein, B.J.S.Thiebaut, K.Landskron, G.M.Rosair|1999|J.Organomet.Chem.|592|168|doi:10.1016/S0022-328X(99)00509-4
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/cc4fc41
title: CCDC 132002: Experimental Crystal Structure Determination

description: Related Article: P.D.Woodgate, G.M.Horner, N.P.Maynard, C.E.F.Rickard|1999|J.Organomet.Chem.|592|180|doi:10.1016/S0022-328X(99)00510-0
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/cc42vtv
title: CCDC 121917: Experimental Crystal Structure Determination

description: Related Article: R.A.Fischer, H.Sussek, H.Parala, H.Pritzkow|1999|J.Organomet.Chem.|592|205|doi:10.1016/S0022-328X(99)00515-X
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/cc4fc52
title: CCDC 132003: Experimental Crystal Structure Determination

description: Related Article: P.D.Woodgate, G.M.Horner, N.P.Maynard, C.E.F.Rickard|1999|J.Organomet.Chem.|592|180|doi:10.1016/S0022-328X(99)00510-0
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/cc42vst
title: CCDC 121916: Experimental Crystal Structure Determination

description: Related Article: R.A.Fischer, H.Sussek, H.Parala, H.Pritzkow|1999|J.Organomet.Chem.|592|205|doi:10.1016/S0022-328X(99)00515-X
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/cc4hc98
title: CCDC 133929: Experimental Crystal Structure Determination

description: Related Article: A.J.Deeming, M.K.Shinhmar|1999|J.Organomet.Chem.|592|235|doi:10.1016/S0022-328X(99)00530-6
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/cc4ds9l
title: CCDC 131449: Experimental Crystal Structure Determination

description: Related Article: L.Appelbaum, C.Heinrichs, J.Demtschuk, M.Michman, M.Oron, H.J.Schafer, H.Schumann|1999|J.Organomet.Chem.|592|240|doi:10.1016/S0022-328X(99)00532-X
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/cc4dsbm
title: CCDC 131450: Experimental Crystal Structure Determination

description: Related Article: L.Appelbaum, C.Heinrichs, J.Demtschuk, M.Michman, M.Oron, H.J.Schafer, H.Schumann|1999|J.Organomet.Chem.|592|240|doi:10.1016/S0022-328X(99)00532-X
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/cc4gdhg
title: CCDC 133005: Experimental Crystal Structure Determination

description: Related Article: A.K.Singh, C.V.Amburose, T.S.Kraemer, J.P.Jasinski|1999|J.Organomet.Chem.|592|251|doi:10.1016/S0022-328X(99)00533-1
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.