cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.c.3628991_d7
title: Additional file 3 of Profound impact of sample processing delay on gene expression of multiple myeloma plasma cells

description: Table S2 - Altered Pathways. KEGG Pathways significantly enriched in deregulated genes of shipped samples. (XLSX 11.5 KB)
DOI: 10.6084/m9.figshare.c.3629027_d3
title: Additional file 4: of Tryptophan metabolism, its relation to inflammation and stress markers and association with psychological and cognitive functioning: Tasmanian Chronic Kidney Disease pilot study

description: Raw Data in five data sheets including Patients relevant metadata, quantified metabolites (given at Îźg/L as well as Îźmol/L), psychology measures, common medication and comorbidities. (XLS 58Â kb)
DOI: 10.6084/m9.figshare.c.3628991_d8
title: Additional file 2 of Profound impact of sample processing delay on gene expression of multiple myeloma plasma cells

description: Table S1 - Differentially Expressed Genes. Table listing the 6802 genes differentially expressed between shipped and in-house samples. (XLSX 554 KB)
DOI: 10.6084/m9.figshare.c.3629027_d4
title: Additional file 1: of Tryptophan metabolism, its relation to inflammation and stress markers and association with psychological and cognitive functioning: Tasmanian Chronic Kidney Disease pilot study

description: Table S1. Concentration range of spiked analytes in calibration mix. (XLS 20Â kb)
DOI: 10.6084/m9.figshare.c.3629099_d1
title: Additional file 1: of A missense mutation in TUBD1 is associated with high juvenile mortality in Braunvieh and Fleckvieh cattle

description: Genotype distribution of 52 sequence variants in LD with BH2. Non-reference allele frequency and genotype distribution of 52 variants in LD with BH2 in 290 animals representing nine cohorts (number of animals homozygous for the reference allele | number of heterozygous animals | number of animals homozygous for the non-reference allele). Grey background highlights a synonymous variant in PPM1E.). Bold type indicates five variants that were located within the 1.14Â Mb BH2 haplotype. Blue background indicates three variants that were not homozygous among 1682 animals that had been sequenced in the 1000 bull genomes project. Red color highlights a missense variant (rs383232842) in the TUBD1 gene. (XLSX 45Â kb)
DOI: 10.6084/m9.figshare.c.3629084_d3
title: Additional file 1: of Simultaneous transcriptional profiling of Leishmania major and its murine macrophage host cell reveals insights into host-pathogen interactions

description: Experimental design. (XLSX 14Â kb)
DOI: 10.6084/m9.figshare.c.3629084_d4
title: Additional file 4: of Simultaneous transcriptional profiling of Leishmania major and its murine macrophage host cell reveals insights into host-pathogen interactions

description: Enriched KEGG pathways and corresponding murine differentially expressed genes. (XLS 228Â kb)
DOI: 10.6084/m9.figshare.c.3629084_d5
title: Additional file 7: of Simultaneous transcriptional profiling of Leishmania major and its murine macrophage host cell reveals insights into host-pathogen interactions

description: Enriched GO categories and corresponding L. major differentially expressed genes. (XLS 178Â kb)
DOI: 10.6084/m9.figshare.c.3629099_d5
title: Additional file 6: of A missense mutation in TUBD1 is associated with high juvenile mortality in Braunvieh and Fleckvieh cattle

description: Haplotype analysis in Braunvieh, Fleckvieh and Holstein cattle. The BH2 and BH2FV haplotypes were detected using 777Â K and 50Â K genotyping data, respectively. Yellow and red color highlights eight common SNPs in Braunvieh and Fleckvieh cattle and the missense variant in TUBD1, respectively. Note that the BH2 haplotype version in Holstein cattle does not contain the rs383232842 C-allele. (XLSX 62Â kb)
DOI: 10.6084/m9.figshare.c.3629084_d6
title: Additional file 3: of Simultaneous transcriptional profiling of Leishmania major and its murine macrophage host cell reveals insights into host-pathogen interactions

description: Differentially expressed gene lists for uninfected vs. L. major -infected murine macrophages within and across time using limma. (XLS 2631Â kb)
DOI: 10.6084/m9.figshare.c.3629099_d7
title: Additional file 5: of A missense mutation in TUBD1 is associated with high juvenile mortality in Braunvieh and Fleckvieh cattle

description: Genotype distribution of three variants in LD with BH2. (XLSX 28Â kb)
DOI: 10.6084/m9.figshare.c.3629084_d7
title: Additional file 5: of Simultaneous transcriptional profiling of Leishmania major and its murine macrophage host cell reveals insights into host-pathogen interactions

description: Comparison of differentially expressed murine gene lists with published literature. (XLS 267Â kb)
DOI: 10.6084/m9.figshare.c.3629129_d1
title: Additional file 1: of Scrapie incidence and PRNP polymorphisms: rare small ruminant breeds of Sicily with TSE protecting genetic reservoirs

description: Total number of analysed animals for each Sicilian sheep breed with allele frequencies and percentages. (XLS 56Â kb)
DOI: 10.15468/dl.nnn5g4
title: Occurrence Download

description: A dataset containing 43974 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Geranium phaeum L."
 ]
}

 The dataset includes 43974 records from 510 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0033780-241126133413365/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.c.3629153_d3
title: Additional file 7 of FlexFlux: combining metabolic flux and regulatory network analyses

description: Fibroblast regulatory network [ 44 ] in the SBML format. (TXT 505 kb)
DOI: 10.6084/m9.figshare.c.3629150_d4
title: Additional file 3 of Functional networks inference from rule-based machine learning models

description: Disease-associated genes. Complete list of the disease-associated genes for each dataset. (XZ 46 kb)
DOI: 10.6084/m9.figshare.c.3629153_d4
title: Additional file 2 of FlexFlux: combining metabolic flux and regulatory network analyses

description: Reconstructed regulatory network of E. coli containing catabolite repression of lactose and maltose in the SBML-qual format. (TXT 35 kb)
DOI: 10.6084/m9.figshare.c.3629150_d5
title: Additional file 5 of Functional networks inference from rule-based machine learning models

description: Enrichment Score. Complete list of Enrichment Score values for each dataset and network. (XZ 4 kb)
DOI: 10.6084/m9.figshare.c.3629177_d1
title: Additional file 3: of Transcriptome sequencing, annotation and polymorphism detection in the hop bush, Dodonaea viscosa

description: Gene Ontology terms assigned to the contigs with significant BLAST hits to plant genes,listed under the categories 'biological processes', 'cellular components', and 'molecular functions'. (XLSX 13Â kb)
DOI: 10.6084/m9.figshare.c.3629153_d5
title: Additional file 3 of FlexFlux: combining metabolic flux and regulatory network analyses

description: Constraint file used to run FlexFlux simulations of the lactose operon. (TXT 484 bytes)
DOI: 10.6084/m9.figshare.c.3629177_d2
title: Additional file 1: of Transcriptome sequencing, annotation and polymorphism detection in the hop bush, Dodonaea viscosa

description: Lists of contigs with significant BLAST hits (e-value &lt; 1e-5) to abscisic acid andaquaporin related genes. (XLSX 49Â kb)
DOI: 10.6084/m9.figshare.c.3629177_d3
title: Additional file 2: of Transcriptome sequencing, annotation and polymorphism detection in the hop bush, Dodonaea viscosa

description: Output from KEGG analysis of contigs, listing identified pathways that gene products areinvolved in. (XLSX 120Â kb)
DOI: 10.6084/m9.figshare.c.3629180_d2
title: Additional file 6 of Meta-analytic estimation of measurement variability and assessment of its impact on decision-making: the case of perioperative haemoglobin concentration monitoring

description: noweb (knitr) source of this paper. Includes data, R and Stan code, bibliographic database. (RNW 182 kb)
DOI: 10.6084/m9.figshare.c.3629183_d2
title: Additional file 1: Table S1. of Nano-risk Science: application of toxicogenomics in an adverse outcome pathway framework for risk assessment of multi-walled carbon nanotubes

description: Particle physicochemical properties and exposure information. (XLSX 10Â kb)
DOI: 10.15468/cd6x6z
title: UEL - Coleção de Peixes - Museu de Zoologia da Universidade Estadual de Londrina

description: The Fish Collection was started in 1991. Currently it is composed by fishes from different hydrographic basins such as Upper rio Paraná, rio Paraguay, Amazon, and northeastern Brazil.
DOI: 10.6084/m9.figshare.c.3629180_d3
title: Additional file 2 of Meta-analytic estimation of measurement variability and assessment of its impact on decision-making: the case of perioperative haemoglobin concentration monitoring

description: (Unix) text file: how to reproduce this paper (incl.software requirements). (TXT 1.70 kb)
DOI: 10.6084/m9.figshare.c.3629183_d3
title: Additional file 2: Table S2. of Nano-risk Science: application of toxicogenomics in an adverse outcome pathway framework for risk assessment of multi-walled carbon nanotubes

description: List of all significant pathways associated with the molecular initiating event (MIE), each key event (KE), and each associative event (AE) including the benchmark dose (BMD) value (BMDL values included in parentheses) for each MWCNT investigated at each time-point. n.a. indicates the BMD(L) could not be calculated due to poor model fit. (XLSX 18Â kb)
DOI: 10.6084/m9.figshare.c.3629243_d1
title: MOESM1 of Simple SNP-based minimal marker genotyping for Humulus lupulus L. identification and variety validation

description: Additional file 1. Supplementary data file consisting of the hapmap flat file of the 32,206 SNP markers used to identify the minimal set of seven SNP markers
DOI: 10.6084/m9.figshare.c.3629246_d1
title: Additional file 2: Table S1. of Transposable element detection from whole genome sequence data

description: List of known or predicted germline insertions derived from several publications. (BED 1239 kb)
DOI: 10.6084/m9.figshare.c.3629252_d1
title: Additional file 2 of Pooling across cells to normalize single-cell RNA sequencing data with many zero counts

description: Enriched GO terms for deconvolution. This file is in a tab-separated format and contains the top 200 GO terms that were enriched in the set of DE genes unique to deconvolution. The identifier and name of each term is shown along with the total number of genes associated with the term, the number of associated genes that are also DE, the expected number under the null hypothesis, and the Fisher p value. (13 KB PDF)
DOI: 10.6084/m9.figshare.c.3629255_d1
title: Additional file 1: Dataset S1. of The intracellular bacterium Anaplasma phagocytophilum selectively manipulates the levels of vertebrate host proteins in the tick vector Ixodes scapularis

description: Digestion of sheep host hemoglobin in tick midguts and salivary glands. (XLS 55 kb)
DOI: 10.6084/m9.figshare.c.3629258_d1
title: Additional file 5: Table S10. of Eligibility of real-life patients with COPD for inclusion in trials of inhaled long-acting bronchodilator therapy

description: Overview of inclusion and exclusion criteria of RCTs testing combined treatments. (XLSX 16Â kb)
DOI: 10.6084/m9.figshare.c.3629252_d2
title: Additional file 3 of Pooling across cells to normalize single-cell RNA sequencing data with many zero counts

description: Enriched GO terms for library size normalization. This file is in a tab-separated format and contains the top 200 GO terms that were enriched in the set of DE genes unique to library size normalization. The fields are the same as described for Additional file 2. (13 KB PDF)
DOI: 10.6084/m9.figshare.c.3629297_d1
title: Additional file 2: of Transcriptome analysis of the Holly mangrove Acanthus ilicifolius and its terrestrial relative, Acanthus leucostachyus, provides insights into adaptation to intertidal zones

description: Pairwise synonymous substitution rate (Ks) of the three nuclear loci for the six Acanthus species. The abbreviations were listed in Additional file 9. (XLSX 9Â kb)
DOI: 10.6084/m9.figshare.c.3629297_d2
title: Additional file 7: of Transcriptome analysis of the Holly mangrove Acanthus ilicifolius and its terrestrial relative, Acanthus leucostachyus, provides insights into adaptation to intertidal zones

description: List of the 99 candidate positively selected genes (PSGs) in Acanthus ilicifolius . â   indicates that the gene cannot find their orthologous genes in Arabidopsis. Gene ID of the 23 PSGs involved in salt, high temperature and UV stress tolerance, seedling germination and embryo development is shown in bold. (XLSX 14Â kb)
DOI: 10.6084/m9.figshare.c.3629297_d3
title: Additional file 9: of Transcriptome analysis of the Holly mangrove Acanthus ilicifolius and its terrestrial relative, Acanthus leucostachyus, provides insights into adaptation to intertidal zones

description: Sampling information and GenBank accession numbers of the six Acanthus species and the outgroup Avicennia marina used in this study. The sequences of the three nuclear genes of Av. marina were obtained from the unpublished genomic data set of Av. marina and were not deposited in Genbank. (XLSX 9Â kb)
DOI: 10.5281/zenodo.8246128
title: Model Output of GPT-3.5 and GPT-4 for ECHR-AM

description:  "gpt3.5-gpt4-input-output-echram.zip" :



Input and output to GPT-3.5 and GPT-4 based on ECHR dataset published in JSON format in this paper for argument component classification only i.e. clauses that are argumentative (conclusion/premise), extracted from the JSON file


Note: Output of the model is under OpenAI Terms & policies.

 

Please cite our paper also if you use this dataset: Performance analysis of large language models in the domain of legal argument mining

You can click here for BibTex or copy the text below. 



@ARTICLE{10.3389/frai.2023.1278796,

AUTHOR={Al Zubaer, Abdullah  and Granitzer, Michael  and Mitrović, Jelena },

TITLE={Performance analysis of large language models in the domain of legal argument mining},

JOURNAL={Frontiers in Artificial Intelligence},

VOLUME={6},

YEAR={2023},

URL={https://www.frontiersin.org/journals/artificial-intelligence/articles/10.3389/frai.2023.1278796},

DOI={10.3389/frai.2023.1278796},

ISSN={2624-8212},

ABSTRACT={<p>Generative pre-trained transformers (GPT) have recently demonstrated excellent performance in various natural language tasks. The development of ChatGPT and the recently released GPT-4 model has shown competence in solving complex and higher-order reasoning tasks without further training or fine-tuning. However, the applicability and strength of these models in classifying legal texts in the context of argument mining are yet to be realized and have not been tested thoroughly. In this study, we investigate the effectiveness of GPT-like models, specifically GPT-3.5 and GPT-4, for argument mining via prompting. We closely study the model's performance considering diverse prompt formulation and example selection in the prompt via semantic search using state-of-the-art embedding models from OpenAI and sentence transformers. We primarily concentrate on the argument component classification task on the legal corpus from the European Court of Human Rights. To address these models' inherent non-deterministic nature and make our result statistically sound, we conducted 5-fold cross-validation on the test set. Our experiments demonstrate, quite surprisingly, that relatively small domain-specific models outperform GPT 3.5 and GPT-4 in the F1-score for premise and conclusion classes, with 1.9% and 12% improvements, respectively. We hypothesize that the performance drop indirectly reflects the complexity of the structure in the dataset, which we verify through prompt and data analysis. Nevertheless, our results demonstrate a noteworthy variation in the performance of GPT models based on prompt formulation. We observe comparable performance between the two embedding models, with a slight improvement in the local model's ability for prompt selection. This suggests that local models are as semantically rich as the embeddings from the OpenAI model. Our results indicate that the structure of prompts significantly impacts the performance of GPT models and should be considered when designing them.</p>}}
DOI: 10.5281/zenodo.8246129
title: Model Output of GPT-3.5 and GPT-4 for ECHR-AM

description:  "gpt3.5-gpt4-input-output-echram.zip" :



Input and output to GPT-3.5 and GPT-4 based on ECHR dataset published in JSON format in this paper for argument component classification only i.e. clauses that are argumentative (conclusion/premise), extracted from the JSON file


Note: Output of the model is under OpenAI Terms & policies.

 

Please cite our paper also if you use this dataset: Performance analysis of large language models in the domain of legal argument mining

You can click here for BibTex or copy the text below. 



@ARTICLE{10.3389/frai.2023.1278796,

AUTHOR={Al Zubaer, Abdullah  and Granitzer, Michael  and Mitrović, Jelena },

TITLE={Performance analysis of large language models in the domain of legal argument mining},

JOURNAL={Frontiers in Artificial Intelligence},

VOLUME={6},

YEAR={2023},

URL={https://www.frontiersin.org/journals/artificial-intelligence/articles/10.3389/frai.2023.1278796},

DOI={10.3389/frai.2023.1278796},

ISSN={2624-8212},

ABSTRACT={<p>Generative pre-trained transformers (GPT) have recently demonstrated excellent performance in various natural language tasks. The development of ChatGPT and the recently released GPT-4 model has shown competence in solving complex and higher-order reasoning tasks without further training or fine-tuning. However, the applicability and strength of these models in classifying legal texts in the context of argument mining are yet to be realized and have not been tested thoroughly. In this study, we investigate the effectiveness of GPT-like models, specifically GPT-3.5 and GPT-4, for argument mining via prompting. We closely study the model's performance considering diverse prompt formulation and example selection in the prompt via semantic search using state-of-the-art embedding models from OpenAI and sentence transformers. We primarily concentrate on the argument component classification task on the legal corpus from the European Court of Human Rights. To address these models' inherent non-deterministic nature and make our result statistically sound, we conducted 5-fold cross-validation on the test set. Our experiments demonstrate, quite surprisingly, that relatively small domain-specific models outperform GPT 3.5 and GPT-4 in the F1-score for premise and conclusion classes, with 1.9% and 12% improvements, respectively. We hypothesize that the performance drop indirectly reflects the complexity of the structure in the dataset, which we verify through prompt and data analysis. Nevertheless, our results demonstrate a noteworthy variation in the performance of GPT models based on prompt formulation. We observe comparable performance between the two embedding models, with a slight improvement in the local model's ability for prompt selection. This suggests that local models are as semantically rich as the embeddings from the OpenAI model. Our results indicate that the structure of prompts significantly impacts the performance of GPT models and should be considered when designing them.</p>}}
DOI: 10.6084/m9.figshare.c.3629300_d2
title: Additional file 3: Table S2. of The endonuclease domain of the LINE-1 ORF2 protein can tolerate multiple mutations

description: Location of putative phosphorylation sites within the endonuclease domain of L1 ORF2. Putative protein phosphorylation sites within the ORF2 endonuclease domain were identified using the ELM prediction tool [37] and NetPhos 2.0 phosphorylation prediction program [38]. The ELM p-value is a conservative estimate of the probability that an ELM prediction with a given score is a true positive. The significance cut-off is 10e-2. The NetPhos output score is a value in the range of 0.000â  1.000 (the higher the score, the higher the confidence of the prediction). (XLSX 10Â kb)
DOI: 10.6084/m9.figshare.c.3629297_d4
title: Additional file 3: of Transcriptome analysis of the Holly mangrove Acanthus ilicifolius and its terrestrial relative, Acanthus leucostachyus, provides insights into adaptation to intertidal zones

description: Pairwise Kimura two-parameter distances of nrITS for the six Acanthus species. The abbreviations were listed in Additional file 9. (XLSX 9Â kb)
DOI: 10.6084/m9.figshare.c.3629297_d5
title: Additional file 5: of Transcriptome analysis of the Holly mangrove Acanthus ilicifolius and its terrestrial relative, Acanthus leucostachyus, provides insights into adaptation to intertidal zones

description: List of the 13 pairs of orthologs between Acanthus ilicifolius and A. leucostachyus with Ka/Ks ratios significantly larger than 1. â   indicates that the orthologs cannot find their orthologous genes in Arabidopsis. (XLSX 10Â kb)
DOI: 10.15468/dl.667qp7
title: Occurrence Download

description: A dataset containing 19265 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Acanthodactylus Fitzinger, 1834"
 ]
}

 The dataset includes 19265 records from 99 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0033781-241126133413365/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.c.3629339_d2
title: Additional file 2: Table S2. of Midgut proteome of an argasid tick, Ornithodoros erraticus: a comparison between unfed and engorged females

description: Non-redundant tick proteins identified in the midgut of engorged ticks at 48 h post-feeding (fed group). (XLSX 115 kb)
DOI: 10.6084/m9.figshare.c.3629300_d8
title: Additional file 1: Table S1. of The endonuclease domain of the LINE-1 ORF2 protein can tolerate multiple mutations

description: Expanded analysis of mutations in the ORF2 endonuclease domain from full-length human L1 loci. Bioinformatic analysis using L1Base [35] revealed numerous mutations in the ORF2 endonuclease domains of 134 intact, full-length L1 loci. The spreadsheet contains our complete query results from L1Base, including the L1 loci locations and the conservation status of several critical amino acid residues within ORF2. (XLSX 211Â kb)
DOI: 10.6084/m9.figshare.c.3629348_d1
title: Additional file 2: S1. of Assessing Ebola-related web search behaviour: insights and implications from an analytical study of Google Trends-based query volumes

description: Dataset of raw weekly GT data and weekly new cases of Ebola as according to the WHO patient database and situation report at the global level (Sheet 1); in the three main affected West African Ebola countries (Guinea – Sheet 2, Sierra Leone – Sheet 3 and Liberia – Sheet 4); raw weekly GT data in all countries where primary cases of Ebola were registered and Pearson’s correlations (Sheet 5); total GT RSV and the total number of Ebola cases per country (Sheet 6). (XLSX 44 kb)
DOI: 10.6084/m9.figshare.c.3629339_d3
title: Additional file 1: Table S1. of Midgut proteome of an argasid tick, Ornithodoros erraticus: a comparison between unfed and engorged females

description: Non-redundant tick proteins identified in the midgut of unfed ticks. (XLSX 78 kb)
DOI: 10.6084/m9.figshare.c.3629339_d5
title: Additional file 5: Table S4. of Midgut proteome of an argasid tick, Ornithodoros erraticus: a comparison between unfed and engorged females

description: Non-redundant proteins identified only in unfed ticks, classified by their molecular function using the UniProt tools. (XLSX 88 kb)
DOI: 10.6084/m9.figshare.c.3629366_d1
title: MOESM1 of Weight management in obese pets: the tailoring concept and how it can improve results

description: Additional file 1. Tailoring weight management in obese dogsâ  case examples.