cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.13018/bmr6530
title: CC45, An Artificial WW Domain Designed Using Statistical Coupling Analysis
DOI: 10.13018/bmr6531
title: Solution structure of Calcium-S100A13 (minimized mean structure)
DOI: 10.13018/bmr6532
title: Solution structure of apo-S100A13
DOI: 10.13018/bmr6533
title: 1H, 13C, and 15N Chemical Shift Assignments for the DNA binding domain of STPA from E. coli
DOI: 10.13018/bmr6535
title: 'Backbone 1H and 15N Chemical Shift Assignments for T antigen origin binding domain in the presence of RPA32C'
DOI: 10.13018/bmr6536
title: 1H,15N,13C backbone and sidechain assignment for human ADAP hSH3-1 domain in reduced form
DOI: 10.13018/bmr6537
title: Small Molecule Ligand Induces Nucleotide Flipping in (CAG)n Trinucleotide Repeats
DOI: 10.13018/bmr6538
title: 1H, 13C, and 15N Chemical Shift Assignments for 2B4
DOI: 10.13018/bmr6539
title: 1H,15N,13C backbone and sidechain assignment for human ADAP hSH3-1 domain in oxidized form
DOI: 10.13018/bmr6540
title: Sequence-specific 1H, 13C and 15N resonance assignments of the winged-helix domain of the human Werner syndrome protein
DOI: 10.13018/bmr6541
title: 1H, 13C and 15N chemical shift assignments for stereo array isotope labeled (SAIL) calmodulin
DOI: 10.13018/bmr6542
title: Main Chain 1H, 13C, and 15N chemical shift assignments for arginine kinase
DOI: 10.5281/zenodo.18781649
title: COVID-ARE-Konsultationsinzidenz

description: Im Datensatz "COVID-ARE-Konsultationsinzidenz" des Robert Koch-Instituts werden wöchentliche Inzidenzen von ambulanten Konsultationen mit akuter respiratorischer Erkrankung (ARE) und zusätzlicher COVID-19-Diagnose in Deutschland bereitgestellt. Über das syndromische Surveillance-Modul SEED-ARE werden aus Sentinelpraxen Daten von gesetzlich versicherten Patientinnen und Patienten mit einer akuten Atemwegserkrankung inklusive der jeweiligen ICD-10-Diagnosecodes elektronisch übermittelt. Die COVID-ARE-Konsultationsinzidenz wird pro 100.000 Einwohner und nach Altersgruppen ausgewiesen. Der Datensatz ermöglicht eine zeitnahe Einschätzung der Krankheitslast und unterstützt evidenzbasierte Entscheidungen im Infektionsgeschehen mit COVID-19.
DOI: 10.13018/bmr6543
title: HIV-1 frameshift inducing element RNA
DOI: 10.13018/bmr6546
title: 1H, 13C, and 15N Chemical Shift Assignments for Human Protein CGI-126(HSPC155): the Northeast Structural Genomics Consortium Target HR41
DOI: 10.13018/bmr6547
title: structure-function relationships of the polyhistidine-rich peptide LAH4 in micellar environments; pH dependent mode of antibiotic action & DNA transfection
DOI: 10.13018/bmr6549
title: Sequential Backbone Assignment and Secondary Structure of Peroxisome Proliferator-Activated Receptor g Ligand Binding Domain
DOI: 10.13018/bmr6551
title: Solution structure of the C-terminal domain of ERCC1 complexed with the C-terminal domain of XPF
DOI: 10.5281/zenodo.7221096
title: COVID-ARE-Konsultationsinzidenz

description: Im Datensatz "COVID-ARE-Konsultationsinzidenz" des Robert Koch-Instituts werden wöchentliche Inzidenzen von ambulanten Konsultationen mit akuter respiratorischer Erkrankung (ARE) und zusätzlicher COVID-19-Diagnose in Deutschland bereitgestellt. Über das syndromische Surveillance-Modul SEED-ARE werden aus Sentinelpraxen Daten von gesetzlich versicherten Patientinnen und Patienten mit einer akuten Atemwegserkrankung inklusive der jeweiligen ICD-10-Diagnosecodes elektronisch übermittelt. Die COVID-ARE-Konsultationsinzidenz wird pro 100.000 Einwohner und nach Altersgruppen ausgewiesen. Der Datensatz ermöglicht eine zeitnahe Einschätzung der Krankheitslast und unterstützt evidenzbasierte Entscheidungen im Infektionsgeschehen mit COVID-19.
DOI: 10.15468/dl.wfbxsc
title: Occurrence Download

description: A dataset containing 32 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is (Table 1) Proportion of Toxoplasma gondii seropositive arctic foxes (Alopex lagopus) by age group and geographic area"
 ]
}

 The dataset includes 32 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006125-180730143533302/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.8ube5m
title: Occurrence Download

description: A dataset containing 1673 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Stenotritidae"
 ]
}

 The dataset includes 1673 records from 19 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0068992-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.wc94hd
title: Occurrence Download

description: A dataset containing 361429888 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is EOD – eBird Observation Dataset"
 ]
}

 The dataset includes 361429888 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0023899-181108115102211/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.rirc4j
title: Occurrence Download

description: A dataset containing 361429888 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is EOD – eBird Observation Dataset"
 ]
}

 The dataset includes 361429888 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006138-180730143533302/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.tjyusv
title: Occurrence Download

description: A dataset containing 8 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is (Table 1) Proportion of Toxoplasma gondii seropositive arctic foxes (Alopex lagopus) by age group and geographic area"
 ]
}

 The dataset includes 8 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040916-160910150852091/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.u9phkb
title: Occurrence Download

description: A dataset containing 248557 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Human Observation",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Asteroidea"
 ]
}

 The dataset includes 248557 records from 313 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0250023-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.wajq9t
title: Occurrence Download

description: A dataset containing 32 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is (Table 1) Proportion of Toxoplasma gondii seropositive arctic foxes (Alopex lagopus) by age group and geographic area"
 ]
}

 The dataset includes 32 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006259-180730143533302/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.opmjin
title: Occurrence Download

description: A dataset containing 32 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is (Table 1) Proportion of Toxoplasma gondii seropositive arctic foxes (Alopex lagopus) by age group and geographic area"
 ]
}

 The dataset includes 32 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0023902-181108115102211/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.7t8ump
title: Occurrence Download

description: A dataset containing 7213 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "POLYGON((-9.12833 42.84881,-8.91616 42.84881,-8.91616 43.02871,-9.12833 43.02871,-9.12833 42.84881))"
 ]
}

 The dataset includes 7213 records from 63 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0250258-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.k3ni9a
title: Occurrence Download

description: A dataset containing 32 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is (Table 1) Proportion of Toxoplasma gondii seropositive arctic foxes (Alopex lagopus) by age group and geographic area"
 ]
}

 The dataset includes 32 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006214-180730143533302/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.l76yhz
title: Occurrence Download

description: A dataset containing 8 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is (Table 1) Proportion of Toxoplasma gondii seropositive arctic foxes (Alopex lagopus) by age group and geographic area"
 ]
}

 The dataset includes 8 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040923-160910150852091/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.4m6ryh
title: Occurrence Download

description: A dataset containing 24641164 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Norwegian Species Observation Service"
 ]
}

 The dataset includes 24641164 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0250353-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.carh3c
title: Occurrence Download

description: A dataset containing 32 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is (Table 1) Proportion of Toxoplasma gondii seropositive arctic foxes (Alopex lagopus) by age group and geographic area"
 ]
}

 The dataset includes 32 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006363-180730143533302/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.v7ruw7
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON ((138.5586 53.9713, 138.2156 53.4918, 138.4392 53.5137, 138.5586 53.9713))",
 "Geometry POLYGON ((14.1204 53.8507, 14.5906 53.5984, 14.6306 53.8515, 14.1204 53.8507))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0250188-200613084148143/datasets/export for details.
DOI: 10.5281/zenodo.11637509
title: Mecp2 duplication iNeurons RNAseq data tables

description: Genomic copy-number variations (CNVs) that can cause neurodevelopmental disorders often encompass many genes, which complicates our understanding of how individual genes within a CNV contribute to pathology. MECP2 duplication syndrome (MDS or MRXSL in OMIM; OMIM#300260) is one such CNV disorder caused by duplications spanning methyl CpG-binding protein 2 (MECP2) and other genes on Xq28. Using an antisense oligonucleotide (ASO) to normalize MECP2 dosage is sufficient to rescue abnormal neurological phenotypes in mouse models overexpressing MECP2 alone, implicating the importance of increased MECP2 dosage within CNVs of Xq28. However, because MDS CNVs span MECP2 and additional genes, we generated human neurons from multiple MDS patient-derived induced pluripotent cells (iPSCs) to evaluate the benefit of using an ASO against MECP2 in a MDS human neuronal context,. Importantly, we identified a signature of genes that is partially rescued upon ASO treatment and pinpointed genes sensitive to MeCP2 function and in models of Rett syndrome, a neurological disorder caused by loss of MeCP2 function. Furthermore, the signature contained genes that are aberrantly induced in unaffected control human neurons upon MeCP2 depletion, revealing gene expression programs sensitive to MeCP2 levels in human neurons. This repository contains the raw raws, processed reads, and processed RNA-seq analyses (DESeq2, limmavoom) from this study.

MDS_iNeurons_rawcounts_STAR.txt - raw counts from experiment

MDS_iNeurons_sample_information.txt - information describing sample conditions (genotype, ASO treatment, dose, etc).

SupplementalTable1.xlsx - DESeq2 and limmavoom results comparing MDS and unaffected controls; DESeq2 results comparing ASO treatments within a genotype

SupplementalTable2.xlsx - gene lists of genes altered by changes in MECP2 dosage

SupplementalTable3.xlsx - HOMER motif results of gene lists sensitive to MECP2 dosage
DOI: 10.5281/zenodo.11637510
title: Mecp2 duplication iNeurons RNAseq data tables

description: Genomic copy-number variations (CNVs) that can cause neurodevelopmental disorders often encompass many genes, which complicates our understanding of how individual genes within a CNV contribute to pathology. MECP2 duplication syndrome (MDS or MRXSL in OMIM; OMIM#300260) is one such CNV disorder caused by duplications spanning methyl CpG-binding protein 2 (MECP2) and other genes on Xq28. Using an antisense oligonucleotide (ASO) to normalize MECP2 dosage is sufficient to rescue abnormal neurological phenotypes in mouse models overexpressing MECP2 alone, implicating the importance of increased MECP2 dosage within CNVs of Xq28. However, because MDS CNVs span MECP2 and additional genes, we generated human neurons from multiple MDS patient-derived induced pluripotent cells (iPSCs) to evaluate the benefit of using an ASO against MECP2 in a MDS human neuronal context,. Importantly, we identified a signature of genes that is partially rescued upon ASO treatment and pinpointed genes sensitive to MeCP2 function and in models of Rett syndrome, a neurological disorder caused by loss of MeCP2 function. Furthermore, the signature contained genes that are aberrantly induced in unaffected control human neurons upon MeCP2 depletion, revealing gene expression programs sensitive to MeCP2 levels in human neurons. This repository contains the raw raws, processed reads, and processed RNA-seq analyses (DESeq2, limmavoom) from this study.

MDS_iNeurons_rawcounts_STAR.txt - raw counts from experiment

MDS_iNeurons_sample_information.txt - information describing sample conditions (genotype, ASO treatment, dose, etc).

SupplementalTable1.xlsx - DESeq2 and limmavoom results comparing MDS and unaffected controls; DESeq2 results comparing ASO treatments within a genotype

SupplementalTable2.xlsx - gene lists of genes altered by changes in MECP2 dosage

SupplementalTable3.xlsx - HOMER motif results of gene lists sensitive to MECP2 dosage
DOI: 10.15468/dl.alqsbm
title: Occurrence Download

description: A dataset containing 8 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is (Table 1) Proportion of Toxoplasma gondii seropositive arctic foxes (Alopex lagopus) by age group and geographic area"
 ]
}

 The dataset includes 8 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040937-160910150852091/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.vjdyq8
title: Occurrence Download

description: A dataset containing 32 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is (Table 1) Proportion of Toxoplasma gondii seropositive arctic foxes (Alopex lagopus) by age group and geographic area"
 ]
}

 The dataset includes 32 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006312-180730143533302/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.t9za9t
title: Occurrence Download

description: A dataset containing 551974926 species occurrences available in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "TaxonKey is Passeriformes"
 ]
}

 The dataset includes 551974926 records from 3221 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0250454-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.7f4jee
title: Occurrence Download

description: A dataset containing 4039 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Ceratopipra chloromeros)",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "License is one of (CC-BY 4.0, CC0 1.0)"
 ]
}

 The dataset includes 4039 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0086206-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.10791151
title: cigChannel: A large-scale 3D seismic dataset with labeled paleochannels for advancing deep learning in seismic interpretation

description: Assorted channel subset of the cigChannel dataset (V1.0)

Expansion package of folded and faulted structures



This version includes the last 100 samples (400 samples in total) of the assorted channel subset. Each sample features folded and faulted structures. Explanations of the uploaded zip files are listed below: 




Assorted_Channel_Ip_xx-xx.zip: Seismic impedance volumes of sample No.xx to No.xx.

Assorted_Channel_Label_xx-xx.zip: Binary-class label volumes of sample No.xx to No.xx, where the value 0 represents the background (non-channel areas) and 1 represents the channel.

Assorted_Channel_Seismic_xx-xx.zip: Seismic (amplitude) volumes of sample No.xx to No.xx.


Portal to the assorted channel subset (main package, the first 300 samples):



Assorted channel subset: https://doi.org/10.5281/zenodo.11044512


Portals to the other subsets:



Submarine canyon subset: https://doi.org/10.5281/zenodo.11079950

Meandering channel subset: https://doi.org/10.5281/zenodo.11078794

Tributary channel network subset: https://doi.org/10.5281/zenodo.11073030
DOI: 10.15468/dl.g2bm2f
title: Occurrence Download

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

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0086209-250717081556266/datasets/export for details.
DOI: 10.5281/zenodo.16684866
title: AMIRIS Examples

description: Example configurations built for AMIRIS 3.6.0. Requires amirispy>=3.3.0 or fameio>=3.5.1. See the individual licence information in the respective scenarios.

How-to

Please use the latest version of AMIRIS-Py to run AMIRIS-Examples. Follow these very few instructions in its README to have AMIRIS running in no time.

Scenarios

The example scenarios are spread across subfolders grouped by use case.

Demo

This folder covers small scenarios that demonstrate how to parametrise AMIRIS:



Simple: running for one day using dummy data

SimpleCoupled: coupling two markets running for one day using dummy data


Backtest

This folder contains historical simulations for different market zones and years:



Austria2019: Austrian day-ahead market in 2019

Germany2015: German day-ahead market in 2015

Germany2016: German day-ahead market in 2016

Germany2017: German day-ahead market in 2017

Germany2018: German day-ahead market in 2018

Germany2019: German day-ahead market in 2019


Future

This folder will contain scenarios to analyse possible energy market futures. Currently, no future scenario is available.

Citing AMIRIS Examples

If you use AMIRIS Examples in your scientific work please cite:

Kristina Nienhaus, Christoph Schimeczek, Ulrich Frey, Evelyn Sperber, Seyedfarzad Sarfarazi, Felix Nitsch, Johannes Kochems & A. Achraf El Ghazi (2023). AMIRIS Examples. Zenodo. doi: 10.5281/zenodo.7789049

Acknowledgments

We thank those who contributed to enhancing the AMIRIS examples:



v1.1 Dr. Tom Bauermann, for pointing out errors in historical fuel prices
DOI: 10.5517/cc9d8db
title: CCDC 279911: Experimental Crystal Structure Determination

description: Related Article: E.Klimova, T.Klimova, S.B.Lara, J.D.Chavez, S.Hernandez-Ortega, T.Alfredo, M.M.Garcia|2006|J.Organomet.Chem.|691|1|doi:10.1016/j.jorganchem.2005.08.038
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/cc9dthz
title: CCDC 280441: Experimental Crystal Structure Determination

description: Related Article: Kiat Hwa Chan, Weng Kee Leong, G.Jaouen, L.Leclerq, S.Top, A.Vessieres|2006|J.Organomet.Chem.|691|9|doi:10.1016/j.jorganchem.2005.08.041
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/cc9dtk1
title: CCDC 280443: Experimental Crystal Structure Determination

description: Related Article: Kiat Hwa Chan, Weng Kee Leong, G.Jaouen, L.Leclerq, S.Top, A.Vessieres|2006|J.Organomet.Chem.|691|9|doi:10.1016/j.jorganchem.2005.08.041
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/cc9c53x
title: CCDC 278848: Experimental Crystal Structure Determination

description: Related Article: L.Dostal, R.Jambor, A.Ruzicka, I.Cisarova, J.Holecek, M.Biesemans, R.Willem, F.De Proft, P.Geerlings|2007|Organometallics|26|6312|doi:10.1021/om700576n
description: Related Article: L.Dostal, R.Jambor, A.Ruzicka, R.Jirasko, I.Cisarova, J.Holecek|2006|J.Organomet.Chem.|691|35|doi:10.1016/j.jorganchem.2005.08.043
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/cc9c54y
title: CCDC 278849: Experimental Crystal Structure Determination

description: Related Article: L.Dostal, R.Jambor, A.Ruzicka, R.Jirasko, I.Cisarova, J.Holecek|2006|J.Organomet.Chem.|691|35|doi:10.1016/j.jorganchem.2005.08.043
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.