cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.17292895
title: Experimental Setups and Results for "BiasCast: Learning and adjusting real time biases from meteorological forecasts to enhance runoff predictions"

description: Version 1.1: Please be aware that this version of the dataset is NOT the final revised one! The paper is currently still in progress.



This record contains the complete experimental setup and test results for the paper "BiasCast: Learning and adjusting real time biases from meteorological forecasts to enhance runoff predictions".


Data Structure

1. Baseline - Reference models trained on a standard CUDA LSTM



Forecast - models using forecast data only

Reanalysis- models using reanalysis data only

ForecastAndReanalysis - models combinining forecast and reanalysis data sources


2. CrossDomain - Cross domain evaluation experiments based on CUDA LSTM



CrossDomain_Reanalysis - model trained on 5 reanalysis variables

CrossDomain_Forecast - model from the CrossDomain_Reanalysis infered with same variables from forecast data source


3. Encoder_Decoder_LSTM - Handoff forecasting architecture



Variants with/ without discharge (q) as input in the hindcast model phase

Simple and Complex embedding configurations

RA (Reanalysis) and FCRA (Forecast+Reanalysis) input combinations in the hindcast phase of the model


4. Sequential_Forecast_LSTM - Sequential LSTM architecture



Variants with/ without discharge (q) as input in the hindcast model phase

Simple and Complex embedding configurations

RA (Reanalysis) and FCRA (Forecast+Reanalysis) input combinations in the hindcast phase of the model


5. TransferLearning - Domain adaption experiments



TL_AllWeights - Transfer of all model weights

TL_EmbeddingNet - Retraining only embedding net while all other weights are frozen


File Types and Contents



config.yml - Model configuration and hyperparameters

best_model.pt - Trained PyTorch model weights

train_data/train_data_scaler.yml - Data normalization parameters

test/best_model/ - Test results



test_metrics.csv - Per-basin performance metrics (NSE, KGE for 451 basins)

test_results.p - Detailed prediction results (pickle format)




Usage notes

For a detailled description on how to run the experiments, we refer to the BiasCast GitHub repo

Data requirements

Models require access to the Extended LamaH-CE dataset with meteorological forcings and catchment attributes

Citation

When using this data or a pre-trained model, we kindly ask you to cite the associated paper: "BiasCast: Learning and adjusting real time biases from meteorological forecasts to enhance runoff predictions"
DOI: 10.5281/zenodo.17241922
title: Experimental Setups and Results for "BiasCast: Learning and adjusting real time biases from meteorological forecasts to enhance runoff predictions"

description: Version 1.1: Please be aware that this version of the dataset is NOT the final revised one! The paper is currently still in progress.



This record contains the complete experimental setup and test results for the paper "BiasCast: Learning and adjusting real time biases from meteorological forecasts to enhance runoff predictions".


Data Structure

1. Baseline - Reference models trained on a standard CUDA LSTM



Forecast - models using forecast data only

Reanalysis- models using reanalysis data only

ForecastAndReanalysis - models combinining forecast and reanalysis data sources


2. CrossDomain - Cross domain evaluation experiments based on CUDA LSTM



CrossDomain_Reanalysis - model trained on 5 reanalysis variables

CrossDomain_Forecast - model from the CrossDomain_Reanalysis infered with same variables from forecast data source


3. Encoder_Decoder_LSTM - Handoff forecasting architecture



Variants with/ without discharge (q) as input in the hindcast model phase

Simple and Complex embedding configurations

RA (Reanalysis) and FCRA (Forecast+Reanalysis) input combinations in the hindcast phase of the model


4. Sequential_Forecast_LSTM - Sequential LSTM architecture



Variants with/ without discharge (q) as input in the hindcast model phase

Simple and Complex embedding configurations

RA (Reanalysis) and FCRA (Forecast+Reanalysis) input combinations in the hindcast phase of the model


5. TransferLearning - Domain adaption experiments



TL_AllWeights - Transfer of all model weights

TL_EmbeddingNet - Retraining only embedding net while all other weights are frozen


File Types and Contents



config.yml - Model configuration and hyperparameters

best_model.pt - Trained PyTorch model weights

train_data/train_data_scaler.yml - Data normalization parameters

test/best_model/ - Test results



test_metrics.csv - Per-basin performance metrics (NSE, KGE for 451 basins)

test_results.p - Detailed prediction results (pickle format)




Usage notes

For a detailled description on how to run the experiments, we refer to the BiasCast GitHub repo

Data requirements

Models require access to the Extended LamaH-CE dataset with meteorological forcings and catchment attributes

Citation

When using this data or a pre-trained model, we kindly ask you to cite the associated paper: "BiasCast: Learning and adjusting real time biases from meteorological forecasts to enhance runoff predictions"
DOI: 10.15468/dl.2sv3kt
title: Occurrence Download

description: A dataset containing 738 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is United Kingdom of Great Britain and Northern Ireland",
 "TaxonKey is Martes martes (Linnaeus, 1758)",
 "Year 2015-2015"
 ]
}

 The dataset includes 738 records from 19 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0241058-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.gqb8q3
title: Occurrence Download

description: A dataset containing 2635 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Dendropsophus ebraccatus (Cope, 1874)"
 ]
}

 The dataset includes 2635 records from 61 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0242632-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.3nenrp
title: Occurrence Download

description: A dataset containing 88 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Hieracium cinderella (Ley) Ley"
 ]
}

 The dataset includes 88 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0243320-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.p4zj3m
title: Occurrence Download

description: A dataset containing 92 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Oxeoschistus simplex Butler, 1868"
 ]
}

 The dataset includes 92 records from 21 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011107-230828120925497/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ke3689
title: Occurrence Download

description: A dataset containing 87 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Hermas ciliata L.fil."
 ]
}

 The dataset includes 87 records from 16 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0241059-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.rnu6w5
title: Occurrence Download

description: A dataset containing 432 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Paralichthys olivaceus (Temminck & Schlegel, 1846)",
 "Geometry POLYGON((170 20, 170 50, 120 50, 120 20, 170 20))",
 "HasCoordinate is true"
 ]
}

 The dataset includes 432 records from 26 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0069509-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.sf437z
title: Occurrence Download

description: A dataset containing 743 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Labisia pumila (Blume) Fern.-Vill."
 ]
}

 The dataset includes 743 records from 25 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0019378-230530130749713/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.b6zufn
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Hieracium cinerellisquamum (Litv. & Zahn) Schljakov"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0243321-230224095556074/datasets/export for details.
DOI: 10.15468/dl.9tvktq
title: Occurrence Download

description: A dataset containing 20 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-104.06659 25.18111,-103.56465 25.18111,-103.56465 25.77766,-104.06659 25.77766,-104.06659 25.18111))",
 "HasGeospatialIssue is false",
 "TaxonKey is Ambrosia ambrosioides (Cav.) W.W.Payne"
 ]
}

 The dataset includes 20 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011111-230828120925497/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.xxtmr4
title: Occurrence Download

description: A dataset containing 51 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Hieracium acidophorum Omang"
 ]
}

 The dataset includes 51 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0242634-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.nrrdwg
title: Occurrence Download

description: A dataset containing 15 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Hermbstaedtia angolensis C.B.Clarke"
 ]
}

 The dataset includes 15 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0241061-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.g9kqm4
title: Occurrence Download

description: A dataset containing 4 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Hieracium circulare Wiinst."
 ]
}

 The dataset includes 4 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0243324-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.xdaxxq
title: Occurrence Download

description: A dataset containing 17 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-103.96603 25.18666,-103.49735 25.18666,-103.49735 25.84512,-103.96603 25.84512,-103.96603 25.18666))",
 "HasGeospatialIssue is false",
 "TaxonKey is Arundo donax L."
 ]
}

 The dataset includes 17 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011110-230828120925497/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.25466890.v1
title: Ruiz et al. (2024) - eDNA epigenetic clock for seabass

description: While acquiring age information is crucial for efficient stock management and biodiversity conservation, traditional aging methods fail to offer a universal, non-invasive, and precise way of estimating a wild animal’s age. DNA methylation from tissue DNA (tDNA) was recently proposed as a method to overcome these issues, and showed more accurate results than telomere-length-based age assessments. Here, we used environmental DNA (eDNA) for the first time as a template for age estimation, focusing on the larval phase (10–24 days post-hatch) of cultured <i>Dicentrarchus labrax </i>(seabass), a species of major economic and conservation interest. We were able to directly detect various modification types (<i>e.g.,</i> cytosine and adenosine methylation in all contexts) across the whole genome using amplification-free nanopore sequencing. However, aging sites were only present in the mitogenome, which could be a specific feature of eDNA methylation or the consequence of better DNA protection within mitochondria. By considering qualitative and quantitative information about aging sites according to an objective model selection framework, our epigenetic clock reached a training accuracy of 2.6 days (Median Absolute Error) and provided excellent age estimates afterwards (R² = 0.99). Such performances surpass those of previously established clocks, notably for adult <i>D. labrax</i> even when scaling MAE to the age range, which could be linked to a more dynamic epigenome during early life stages. Overall, our study demonstrates that eDNA can be used for precise age and biodiversity assessments involving third-generation sequencing of mitogenomes, although further methodological developments are needed before field applications can be envisaged.
DOI: 10.15468/dl.3gd9ud
title: Occurrence Download

description: A dataset containing 230 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Hermbstaedtia odorata (Burch.) T.Cooke"
 ]
}

 The dataset includes 230 records from 30 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0241072-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.fe7h3f
title: Occurrence Download

description: A dataset listing the 357 species recorded in GBIF matching the query:
{
 "and" : [
 "Country is Botswana",
 "TaxonKey is Hemiptera"
 ]
}

 The dataset's 357 records were derived from 29 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0242607-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.7910/dvn/mqbora
title: Replication Data for: Interstate Conflict Increases the Appeal of Undemocratic Candidates

description: This repository contains the data and scripts necessary for reproducing the results in the article "Interstate Conflict Increases the Appeal of Undemocratic Candidates" by Kristian Frederiksen and Lasse Laustsen, published in the British Journal of Political Science.
DOI: 10.15468/dl.najgag
title: Occurrence Download

description: A dataset containing 12 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Human Observation, Specimen, Living Specimen)",
 "TaxonKey is Hemidactylus sataraensis"
 ]
}

 The dataset includes 12 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004511-251025141854904/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.3611366_d1
title: Additional file 1: of Vitamin D status is associated with skin autofluorescence in patients with type 2 diabetes mellitus: a preliminary report

description: Linear regression analysis of serum 25 (OH)D as independent variable and skin auto fluorescence as dependent variable. Model 1: crude analysis. Model 2: as model 1 + age, ethnicity, season, smoking, and BMI. Model 3: as model 2 + sun exposure, diabetes duration, CVD, HbA1c, eGFR, AF (this should be AP), and LDL cholesterol. 25(OH)D 25-hydroxyvitamin D, AGE advanced glycation end product, AP alkaline phosphatase, BMI body mass index, CVD cardiovascular disease, LDL low density lipoprotein.
DOI: 10.15468/dl.639s3n
title: Occurrence Download

description: A dataset containing 80534 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Zosteraceae",
 "Geometry POLYGON((170 20, 170 50, 120 50, 120 20, 170 20))",
 "HasCoordinate is true"
 ]
}

 The dataset includes 80534 records from 63 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0033103-241126133413365/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.3611375_d10
title: Additional file 11 of Coevolutionary analyses require phylogenetically deep alignments and better null models to accurately detect inter-protein contacts within and between species

description: Mann-Whitney tests for difference in precision between MI and other methods for N eff /L &gt; 1.6 and FPR &lt; 0.1 % in the HisKA-RR sub-alignments, with contacts defined from experimental studies. (CSV 0.48 kb)
DOI: 10.6084/m9.figshare.c.3611375_d11
title: Additional file 3 of Coevolutionary analyses require phylogenetically deep alignments and better null models to accurately detect inter-protein contacts within and between species

description: HisKA-RR master alignment. (ZIP 1136 kb)
DOI: 10.6084/m9.figshare.c.3611408_d3
title: Additional file 2: Table S1. of An ultra-high-density map as a community resource for discerning the genetic basis of quantitative traits in maize

description: Summary of Mo17 production and alignment results. (XLSX 9 kb)
DOI: 10.15468/dl.a2t7zb
title: Occurrence Download

description: A dataset containing 1163 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((22.04563 48.40008,22.14274 48.40008,22.14274 48.49231,22.04563 48.49231,22.04563 48.40008))",
 "OccurrenceStatus is Present",
 "TaxonKey is Tracheophyta"
 ]
}

 The dataset includes 1163 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0033105-241126133413365/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.3611375_d12
title: Additional file 12 of Coevolutionary analyses require phylogenetically deep alignments and better null models to accurately detect inter-protein contacts within and between species

description: Mann-Whitney tests for difference in power between MI J and other methods for N eff /L &gt; 1.6 and FPR &lt; 5 % in the HisKA-RR sub-alignments, with contacts defined from experimental studies. (CSV 0.47 kb)
DOI: 10.6084/m9.figshare.c.3611429_d7
title: Additional file 1: Table S1. of Effect of room temperature transport vials on DNA quality and phylogenetic composition of faecal microbiota of elderly adults and infants

description: Summary of the significantly altered genera after 1 and 2 weeks’ storage in the DNA Genotek OMNIgene gut kit as determined by paired DESeq analysis. Statistically significant increases in relative abundance are shown in red and significant reductions are shown in green. Both log fold change and adjusted p values are presented. (XLSX 13 kb)
DOI: 10.6084/m9.figshare.c.3611408_d19
title: Additional file 5: Table S3. of An ultra-high-density map as a community resource for discerning the genetic basis of quantitative traits in maize

description: SNPs annotation in CDS region. (XLSX 13382 kb)
DOI: 10.6084/m9.figshare.c.3611408_d21
title: Additional file 21: Table S13. of An ultra-high-density map as a community resource for discerning the genetic basis of quantitative traits in maize

description: Fine mapping the cloned and candidate genes for flowering time and plant height in Syn4 and Syn10. (XLSX 19 kb)
DOI: 10.6084/m9.figshare.c.3611465_d7
title: Additional file 2: of The highly expressed 5’isomiR of hsa-miR-140-3p contributes to the tumor-suppressive effects of miR-140 by reducing breast cancer proliferation and migration

description: Clinical data and miR/isomiR expression of patients from the TCGA breast cancer cohort [48]. (XLS 7116 kb)
DOI: 10.6084/m9.figshare.c.3611510_d2
title: Additional file 3: Table S2. of A kinome siRNA screen identifies HGS as a potential target for liver cancers with oncogenic mutations in CTNNB1

description: List of the 52 genes identified among the 687 tested genes in HT screening as important for the cellular fitness of parental HuH6 cells. (XLSX 18 kb)
DOI: 10.6084/m9.figshare.c.3611585_d1
title: Additional file 6: of Mapping the genomic mosaic of two ‘Afro-Bolivians’ from the isolated Yungas valleys

description: Ancestry memberships as computed using the unsupervised clustering algorithm from ADMIXTURE using the 1000G datasets and the Tocaña, for an optimum value of K = 5. (XLSX 57 kb)
DOI: 10.15468/dl.aqngmw
title: Occurrence Download

description: A dataset containing 5774 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Laminariaceae",
 "Geometry POLYGON((170 20, 170 50, 120 50, 120 20, 170 20))",
 "HasCoordinate is true"
 ]
}

 The dataset includes 5774 records from 32 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0033108-241126133413365/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.3611597_d2
title: Additional file 3: Table S4. of Pangenome analysis of Bifidobacterium longum and site-directed mutagenesis through by-pass of restriction-modification systems

description: Summary of the B. longum classification. An .xls document describing the classification of the three B. longum subspecies, B. longum subsp. longum, B. longum subsp. infantis and B. longum subsp. suis. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.c.3611597_d6
title: Additional file 2: Table S3. of Pangenome analysis of Bifidobacterium longum and site-directed mutagenesis through by-pass of restriction-modification systems

description: B. longum subsp. longum NCIMB 8809 episome. An .xls document listing the predicted protein function of episomal ORFs located within the genome sequence of B. longum subsp. longum NCIMB 8809. (XLSX 9 kb)
DOI: 10.6084/m9.figshare.c.3611642_d1
title: Additional file 2: of Sound production and associated behavior of tagged fin whales (Balaenoptera physalus) in the Southern California Bight

description: Acoustic audit file listing the calls that were manually identified in the acoustic record for tagged whale bp13_257b. The whale name signifies the species name, Balaenoptera physalus (bp), the two digit year of deployment, the three digit Julian day of deployment, and a letter representing the successive number deployment for that day. The file has three columns: time cue of the call in seconds since deployment; duration of the call in seconds; and a label indicating whether the call was produced by the tagged whale (‘1’) or a different whale (‘0’).
DOI: 10.15468/dl.4bw7g9
title: Occurrence Download

description: A dataset containing 30966 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Human Observation, Occurrence evidence)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Azadirachta indica A.Juss."
 ]
}

 The dataset includes 30966 records from 153 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0033106-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.