cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5883/bold:aef6192
title: Overview of Barcode Index Number - BOLD:AEF6192

description: DNA barcode data hosted in the Data Portal of the Barcode of Life Data Systems. Records consist of specimen metadata, specimen images, and sequence data.
DOI: 10.5883/bold:aef6199
title: Overview of Barcode Index Number - BOLD:AEF6199

description: DNA barcode data hosted in the Data Portal of the Barcode of Life Data Systems. Records consist of specimen metadata, specimen images, and sequence data.
DOI: 10.5883/bold:aef6212
title: Overview of Barcode Index Number - BOLD:AEF6212

description: DNA barcode data hosted in the Data Portal of the Barcode of Life Data Systems. Records consist of specimen metadata, specimen images, and sequence data.
DOI: 10.5883/bold:aef6225
title: Overview of Barcode Index Number - BOLD:AEF6225

description: DNA barcode data hosted in the Data Portal of the Barcode of Life Data Systems. Records consist of specimen metadata, specimen images, and sequence data.
DOI: 10.5883/bold:aef6273
title: Overview of Barcode Index Number - BOLD:AEF6273

description: DNA barcode data hosted in the Data Portal of the Barcode of Life Data Systems. Records consist of specimen metadata, specimen images, and sequence data.
DOI: 10.5883/bold:aef6293
title: Overview of Barcode Index Number - BOLD:AEF6293

description: DNA barcode data hosted in the Data Portal of the Barcode of Life Data Systems. Records consist of specimen metadata, specimen images, and sequence data.
DOI: 10.5883/bold:aef6294
title: Overview of Barcode Index Number - BOLD:AEF6294

description: DNA barcode data hosted in the Data Portal of the Barcode of Life Data Systems. Records consist of specimen metadata, specimen images, and sequence data.
DOI: 10.5883/bold:aef6329
title: Overview of Barcode Index Number - BOLD:AEF6329

description: DNA barcode data hosted in the Data Portal of the Barcode of Life Data Systems. Records consist of specimen metadata, specimen images, and sequence data.
DOI: 10.5883/bold:aef6341
title: Overview of Barcode Index Number - BOLD:AEF6341

description: DNA barcode data hosted in the Data Portal of the Barcode of Life Data Systems. Records consist of specimen metadata, specimen images, and sequence data.
DOI: 10.5883/bold:aef6344
title: Overview of Barcode Index Number - BOLD:AEF6344

description: DNA barcode data hosted in the Data Portal of the Barcode of Life Data Systems. Records consist of specimen metadata, specimen images, and sequence data.
DOI: 10.5883/bold:aef6355
title: Overview of Barcode Index Number - BOLD:AEF6355

description: DNA barcode data hosted in the Data Portal of the Barcode of Life Data Systems. Records consist of specimen metadata, specimen images, and sequence data.
DOI: 10.5883/bold:aef6369
title: Overview of Barcode Index Number - BOLD:AEF6369

description: DNA barcode data hosted in the Data Portal of the Barcode of Life Data Systems. Records consist of specimen metadata, specimen images, and sequence data.
DOI: 10.5883/bold:aef6380
title: Overview of Barcode Index Number - BOLD:AEF6380

description: DNA barcode data hosted in the Data Portal of the Barcode of Life Data Systems. Records consist of specimen metadata, specimen images, and sequence data.
DOI: 10.5883/bold:aef6397
title: Overview of Barcode Index Number - BOLD:AEF6397

description: DNA barcode data hosted in the Data Portal of the Barcode of Life Data Systems. Records consist of specimen metadata, specimen images, and sequence data.
DOI: 10.5883/bold:aef6404
title: Overview of Barcode Index Number - BOLD:AEF6404

description: DNA barcode data hosted in the Data Portal of the Barcode of Life Data Systems. Records consist of specimen metadata, specimen images, and sequence data.
DOI: 10.5883/bold:aef6434
title: Overview of Barcode Index Number - BOLD:AEF6434

description: DNA barcode data hosted in the Data Portal of the Barcode of Life Data Systems. Records consist of specimen metadata, specimen images, and sequence data.
DOI: 10.5883/bold:aef6476
title: Overview of Barcode Index Number - BOLD:AEF6476

description: DNA barcode data hosted in the Data Portal of the Barcode of Life Data Systems. Records consist of specimen metadata, specimen images, and sequence data.
DOI: 10.5883/bold:aef6522
title: Overview of Barcode Index Number - BOLD:AEF6522

description: DNA barcode data hosted in the Data Portal of the Barcode of Life Data Systems. Records consist of specimen metadata, specimen images, and sequence data.
DOI: 10.5883/bold:aef6560
title: Overview of Barcode Index Number - BOLD:AEF6560

description: DNA barcode data hosted in the Data Portal of the Barcode of Life Data Systems. Records consist of specimen metadata, specimen images, and sequence data.
DOI: 10.5883/bold:aef6570
title: Overview of Barcode Index Number - BOLD:AEF6570

description: DNA barcode data hosted in the Data Portal of the Barcode of Life Data Systems. Records consist of specimen metadata, specimen images, and sequence data.
DOI: 10.5883/bold:aef6620
title: Overview of Barcode Index Number - BOLD:AEF6620

description: DNA barcode data hosted in the Data Portal of the Barcode of Life Data Systems. Records consist of specimen metadata, specimen images, and sequence data.
DOI: 10.5883/bold:aef6622
title: Overview of Barcode Index Number - BOLD:AEF6622

description: DNA barcode data hosted in the Data Portal of the Barcode of Life Data Systems. Records consist of specimen metadata, specimen images, and sequence data.
DOI: 10.5883/bold:aef6626
title: Overview of Barcode Index Number - BOLD:AEF6626

description: DNA barcode data hosted in the Data Portal of the Barcode of Life Data Systems. Records consist of specimen metadata, specimen images, and sequence data.
DOI: 10.5883/bold:aef6635
title: Overview of Barcode Index Number - BOLD:AEF6635

description: DNA barcode data hosted in the Data Portal of the Barcode of Life Data Systems. Records consist of specimen metadata, specimen images, and sequence data.
DOI: 10.5883/bold:aef6644
title: Overview of Barcode Index Number - BOLD:AEF6644

description: DNA barcode data hosted in the Data Portal of the Barcode of Life Data Systems. Records consist of specimen metadata, specimen images, and sequence data.
DOI: 10.5883/bold:aef6645
title: Overview of Barcode Index Number - BOLD:AEF6645

description: DNA barcode data hosted in the Data Portal of the Barcode of Life Data Systems. Records consist of specimen metadata, specimen images, and sequence data.
DOI: 10.5883/bold:aef6664
title: Overview of Barcode Index Number - BOLD:AEF6664

description: DNA barcode data hosted in the Data Portal of the Barcode of Life Data Systems. Records consist of specimen metadata, specimen images, and sequence data.
DOI: 10.5883/bold:aef6704
title: Overview of Barcode Index Number - BOLD:AEF6704

description: DNA barcode data hosted in the Data Portal of the Barcode of Life Data Systems. Records consist of specimen metadata, specimen images, and sequence data.
DOI: 10.5883/bold:aef6729
title: Overview of Barcode Index Number - BOLD:AEF6729

description: DNA barcode data hosted in the Data Portal of the Barcode of Life Data Systems. Records consist of specimen metadata, specimen images, and sequence data.
DOI: 10.5883/bold:aef6731
title: Overview of Barcode Index Number - BOLD:AEF6731

description: DNA barcode data hosted in the Data Portal of the Barcode of Life Data Systems. Records consist of specimen metadata, specimen images, and sequence data.
DOI: 10.5883/bold:aef6749
title: Overview of Barcode Index Number - BOLD:AEF6749

description: DNA barcode data hosted in the Data Portal of the Barcode of Life Data Systems. Records consist of specimen metadata, specimen images, and sequence data.
DOI: 10.5883/bold:aef6780
title: Overview of Barcode Index Number - BOLD:AEF6780

description: DNA barcode data hosted in the Data Portal of the Barcode of Life Data Systems. Records consist of specimen metadata, specimen images, and sequence data.
DOI: 10.5883/bold:aef6788
title: Overview of Barcode Index Number - BOLD:AEF6788

description: DNA barcode data hosted in the Data Portal of the Barcode of Life Data Systems. Records consist of specimen metadata, specimen images, and sequence data.
DOI: 10.5883/bold:aef6795
title: Overview of Barcode Index Number - BOLD:AEF6795

description: DNA barcode data hosted in the Data Portal of the Barcode of Life Data Systems. Records consist of specimen metadata, specimen images, and sequence data.
DOI: 10.5883/bold:aef6801
title: Overview of Barcode Index Number - BOLD:AEF6801

description: DNA barcode data hosted in the Data Portal of the Barcode of Life Data Systems. Records consist of specimen metadata, specimen images, and sequence data.
DOI: 10.5281/zenodo.13373774
title: GEOLAB-InstaLatPile-Deltares: Small-scale experiments on Influence of installation effects on the performance of laterally loaded pile groups

description: InstaLatPile

This dataset includes measurements from six small-scale tests on a 3x3 pile group with fixed-headed conditions, conducted in the Deltares laboratory. The aim of the test program is to quantify the impact of the pile group installation effects on the performance of laterally loaded groups. Therefore, two types of piles were modelled, replacement piles and displacement piles.
description: GEOLAB

GEOLAB is a project of the European Union’s Horizon 2020 research and innovation program under Grant Agreement No. 101006512, addressing Europe's Critical Infrastructure (CI) challenges in the water, energy, urban, and transport sectors.

The GEOLAB Research Infrastructure (RI) consists of 11 unique installations across Europe to study subsurface behavior and its interaction with structural CI elements and the environment. During the GEOLAB Transnational Access (TA), users outside the consortium gained access to the GEOLAB installations to perform research and innovation.
description: Dataset of six small-scale tests

Here, we share the measurement data from the centrifuge tests from the GEOLAB project: InstaLatPile. 9 piles (diameter 0.15 mm, centre to centre 0.45mm) were installed in-flight (displacement piles) through a aluminium plate and loaded laterally in dry Bascarp No. 15 sand. For the replacement piles, the piles were installed at 1g.

In total, 6 tests were conducted. Test 1 and 2 were single pile tests. Test 3 to 6 were pile groups of 3x3 piles. The first test (Test 1) failed. Due to limited time, a repetition was not possible.
DOI: 10.5883/bold:aef6805
title: Overview of Barcode Index Number - BOLD:AEF6805

description: DNA barcode data hosted in the Data Portal of the Barcode of Life Data Systems. Records consist of specimen metadata, specimen images, and sequence data.
DOI: 10.5883/bold:aef6816
title: Overview of Barcode Index Number - BOLD:AEF6816

description: DNA barcode data hosted in the Data Portal of the Barcode of Life Data Systems. Records consist of specimen metadata, specimen images, and sequence data.
DOI: 10.5281/zenodo.13741706
title: Data for DIMet Galaxy (Bioprotocol)

description: Dataset for the DIMet Galaxy step-by-step use case, in preparation for submission to the Bioprotocol journal.

This dataset was originally published by Guyon J, et al., 2022. The subset of it, with exclusively LDHAB KO and Control samples at 0h, 24h and 48h,  is the main file of the present Zenodo record. Also, the Differentially expressed genes (DEG) when comparing LDHAB KO vs. Control at 0 h and 48 h are available and explained in the 'Instructions for users' below.

The present dataset serves for demonstrating the step-by-step usage of the Galaxy versions of TraceGroomer and DIMet tools.

Instructions for users:



Please download and unzip the entire folder, in your machine.

Take into account the files description below



'dimet_bioprotocol/' folder:  




Type of file
File name


Labeled metabolomics data as received from Metabolomics facility (main file)
isocor_LDHABKO_Ctrl.tsv


Samples metadata (the file that explains the experimental setup)
metadata_LDHABKO_Ctrl.tsv





'dimet_bioprotocol/metabologram_data/' subfolder: 




Type of file
File name


file of DEG at T0 (0 h)
LDHABKO_Ctrl_0h_DEG.tsv


file of DEG at T48 (48 h)
LDHABKO_Ctrl_48h_DEG.tsv


file with pathways* for metabolites
pathways_metabolites_custom.tsv


file with pathways* for transcripts (or genes)
pathways_genes_list_custom.tsv



*the lists of pathways in the file are disposed in columns, for each column: the top cell is the name of the pathway, whereas the rest of the cells are the elements belonging to that pathway.




For any inquiries or help, contact Johanna Galvis.

 
description: version 0.2 modifies the files of pathways: Glycolysis_custom is added, that has fewer gene symbols so renders better in the metabologram.

version 0.3 modifies sgLDHAB to LDHAB-KO string in the metadata file.
DOI: 10.5883/bold:aef6843
title: Overview of Barcode Index Number - BOLD:AEF6843

description: DNA barcode data hosted in the Data Portal of the Barcode of Life Data Systems. Records consist of specimen metadata, specimen images, and sequence data.
DOI: 10.5281/zenodo.12742457
title: Data for DIMet Galaxy (Bioprotocol)

description: Dataset for the DIMet Galaxy step-by-step use case, in preparation for submission to the Bioprotocol journal.

This dataset was originally published by Guyon J, et al., 2022. The subset of it, with exclusively LDHAB KO and Control samples at 0h, 24h and 48h,  is the main file of the present Zenodo record. Also, the Differentially expressed genes (DEG) when comparing LDHAB KO vs. Control at 0 h and 48 h are available and explained in the 'Instructions for users' below.

The present dataset serves for demonstrating the step-by-step usage of the Galaxy versions of TraceGroomer and DIMet tools.

Instructions for users:



Please download and unzip the entire folder, in your machine.

Take into account the files description below



'dimet_bioprotocol/' folder:  




Type of file
File name


Labeled metabolomics data as received from Metabolomics facility (main file)
isocor_LDHABKO_Ctrl.tsv


Samples metadata (the file that explains the experimental setup)
metadata_LDHABKO_Ctrl.tsv





'dimet_bioprotocol/metabologram_data/' subfolder: 




Type of file
File name


file of DEG at T0 (0 h)
LDHABKO_Ctrl_0h_DEG.tsv


file of DEG at T48 (48 h)
LDHABKO_Ctrl_48h_DEG.tsv


file with pathways* for metabolites
pathways_metabolites_custom.tsv


file with pathways* for transcripts (or genes)
pathways_genes_list_custom.tsv



*the lists of pathways in the file are disposed in columns, for each column: the top cell is the name of the pathway, whereas the rest of the cells are the elements belonging to that pathway.




For any inquiries or help, contact Johanna Galvis.

 
description: version 0.2 modifies the files of pathways: Glycolysis_custom is added, that has fewer gene symbols so renders better in the metabologram.

version 0.3 modifies sgLDHAB to LDHAB-KO string in the metadata file.
DOI: 10.5281/zenodo.12742458
title: Data for DIMet Galaxy (Bioprotocol)

description: Dataset for the DIMet Galaxy step-by-step use case, in preparation for submission to the Bioprotocol journal.

This dataset was originally published by Guyon J, et al., 2022. The subset of it, with exclusively LDHAB KO and Control samples at 0h, 24h and 48h,  is the main file of the present Zenodo record. Also, the Differentially expressed genes (DEG) when comparing LDHAB KO vs. Control at 0 h and 48 h are available and explained in the instructions for users below.

The present dataset serves for demonstrating the step-by-step usage of the Galaxy versions of TraceGroomer and DIMet tools.

Instructions for users:



Please download and unzip the entire folder, in your machine.

Take into account the files description below



'dimet_bioprotocol/' folder:  




Type of file
File name


Labeled metabolomics data as received from Metabolomics facility (main file)
isocor_LDHABKO_Ctrl.tsv


Samples metadata (the file that explains the experimental setup)
metadata_LDHABKO_Ctrl.tsv





'dimet_bioprotocol/metabologram_data/' subfolder: 




Type of file
File name


file of DEG at T0 (0 h)
LDHABKO_Ctrl_0h_DEG.tsv


file of DEG at T48 (48 h)
LDHABKO_Ctrl_48h_DEG.tsv


file with pathways* for metabolites
pathways_metabolites_custom.tsv


file with pathways* for transcripts (or genes)
pathways_genes_list_custom.tsv



*the lists of pathways in the file are disposed in columns, for each column: the top cell is the name of the pathway, whereas the rest of the cells are the elements belonging to that pathway.




For any inquiries or help, contact Johanna Galvis.
DOI: 10.5281/zenodo.13379591
title: Data for DIMet Galaxy (Bioprotocol)

description: Dataset for the DIMet Galaxy step-by-step use case, in preparation for submission to the Bioprotocol journal.

This dataset was originally published by Guyon J, et al., 2022. The subset of it, with exclusively LDHAB KO and Control samples at 0h, 24h and 48h,  is the main file of the present Zenodo record. Also, the Differentially expressed genes (DEG) when comparing LDHAB KO vs. Control at 0 h and 48 h are available and explained in the instructions for users below.

The present dataset serves for demonstrating the step-by-step usage of the Galaxy versions of TraceGroomer and DIMet tools.

Instructions for users:



Please download and unzip the entire folder, in your machine.

Take into account the files description below



'dimet_bioprotocol/' folder:  




Type of file
File name


Labeled metabolomics data as received from Metabolomics facility (main file)
isocor_LDHABKO_Ctrl.tsv


Samples metadata (the file that explains the experimental setup)
metadata_LDHABKO_Ctrl.tsv





'dimet_bioprotocol/metabologram_data/' subfolder: 




Type of file
File name


file of DEG at T0 (0 h)
LDHABKO_Ctrl_0h_DEG.tsv


file of DEG at T48 (48 h)
LDHABKO_Ctrl_48h_DEG.tsv


file with pathways* for metabolites
pathways_metabolites_custom.tsv


file with pathways* for transcripts (or genes)
pathways_genes_list_custom.tsv



*the lists of pathways in the file are disposed in columns, for each column: the top cell is the name of the pathway, whereas the rest of the cells are the elements belonging to that pathway.




For any inquiries or help, contact Johanna Galvis.

 
description: Note: version 0.2 modifies the files of pathways: Glycolysis_custom is added, that has fewer gene symbols so renders better in the metabologram.
DOI: 10.5281/zenodo.14004881
title: 【outputs_best_number_tokens_to_span_vectors_large_scales】/best_number_tokens_log_part_6 (4), only two 8B LLMs, 30 (span_vectors) = 30 files

description: Part 6 (4)  

only two 8B LLMs,  

only valid results (both MP p value and CI),

all permutation controls,

all seeds,

all linguistic spans,

all 5 tasks, 

30 (span_vectors) = 30 files
DOI: 10.5281/zenodo.14004882
title: 【outputs_best_number_tokens_to_span_vectors_large_scales】/best_number_tokens_log_part_6 (4), only two 8B LLMs, 30 (span_vectors) = 30 files

description: Part 6 (4)  

only two 8B LLMs,  

only valid results (both MP p value and CI),

all permutation controls,

all seeds,

all linguistic spans,

all 5 tasks, 

30 (span_vectors) = 30 files
DOI: 10.5883/bold:aef6904
title: Overview of Barcode Index Number - BOLD:AEF6904

description: DNA barcode data hosted in the Data Portal of the Barcode of Life Data Systems. Records consist of specimen metadata, specimen images, and sequence data.
DOI: 10.5883/bold:aef6905
title: Overview of Barcode Index Number - BOLD:AEF6905

description: DNA barcode data hosted in the Data Portal of the Barcode of Life Data Systems. Records consist of specimen metadata, specimen images, and sequence data.
DOI: 10.5281/zenodo.13861799
title: H̶a̶n̶d̶w̶r̶i̶t̶i̶n̶g̶ - A collection of struck through handwritten word images using various styles

description: # H̶a̶n̶d̶w̶r̶i̶t̶i̶n̶g̶ - A collection of handwritten word images, each struck through using various styles

This database may be used for non-commercial research purposes only. If you publish material based on this database - please cite:Zesch, T., & Gold, C. (2024). H̶a̶n̶d̶w̶r̶i̶t̶i̶n̶g̶ - various struck-through handwritten words [Data set]. Zenodo.

Structure:

There are two types of sources: genuine and semi-genuineWhile genuine includes struck-through handwritten images that are made accidentally, semi-genuine were made on purpose and conducted as the main part of this dataset. 

Genuine:

For the genuine part, only the strike-out_genuine.txt file exists. It links to struck-through words of the datasets: Handwritten ASAP Short Answer Scoring (published at: https://zenodo.org/records/8088866), IAM, and GoBo (published at: https://zenodo.org/records/8085511).The struck-through types were annotated by 2 annotators and a gold version was created. 

The file has the following structure:path status gold a1 a2 a3e.g.:genuine/Handwritten ASAP/SAS_3_6818_0.png ok wa wa? wa? waThe image is part of the Handwritten ASAP dataset and refers to image "AS_3_6818_0.png". The status is ok and the gold label is "wa" which stands for wavy (see list below). The "?" indicates unsure annotation of both annotators independently.

Semi-genuine: 

17 writers participated. 9 male, 8 femaleThe writers were asked to write 12 words for each struck-through type. In sum over 2000 images of handwritten struck-through words (including none) were collected, with 204 images each type. An instruction was presented to the writers including examples. 

types for strike-out: no: none sh: single-horizontal so: single-oblique mh: multiple-horizontal mo: multiple-oblique cr: crossed ci: circled wa: wavy zi: zigzag bl: blackened

Afterward, the writers struck through the handwritten words according to the stated type.The images are published in "boxes", "gray images" and "raw images" in color as scanned. The description file "Strike-out_semi-genuine.txt" references the "boxes" only and describes the path, status, and struck-through type of each image. 

Sidenote:

The writers were asked to note if the struck-through type was their preferred type and if it felt natural to use this type or unnatural. More details regarding this topic can be found in the instruction pdf file.