cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.12939479
title: Eukaryota_ProteinSequences_Part2

description: Part 2 of 2. Each file contains the proteome (in FASTA format) corresponding to a single organism. Files ending in "_additional" represent additional isoforms and translation products associated with that organism. All eukaryotic proteomes were downloaded from the UniProt FTP site (ftp://ftp.uniprot.org/pub/databases/uniprot/) on 8/21/2020 and are included here to ensure that LCDs correctly map to sequence locations. Please see the LICENSE_UniProt file for license information regarding UniProt sequence data.
DOI: 10.6084/m9.figshare.12939479.v1
title: Eukaryota_ProteinSequences_Part2

description: Part 2 of 2. Each file contains the proteome (in FASTA format) corresponding to a single organism. Files ending in "_additional" represent additional isoforms and translation products associated with that organism. All eukaryotic proteomes were downloaded from the UniProt FTP site (ftp://ftp.uniprot.org/pub/databases/uniprot/) on 8/21/2020 and are included here to ensure that LCDs correctly map to sequence locations. Please see the LICENSE_UniProt file for license information regarding UniProt sequence data.
DOI: 10.6084/m9.figshare.12923177.v1
title: Archaea_LCDs_tab-delimited

description: LCD-Composer results are stored in a separate file for each organism. Each file is in a tab-delimited format. Columns are ordered as follows:1) The protein identifier (header in the FASTA proteome file),2) the LCD sequence,3) the location of the LCD within the protein,4) the LCD class (i.e. the amino acid of interest used in the LCD-Composer search criteria),5) the percent composition of the amino acid of interest within the LCD,6) the linear dispersion of the amino acid of interest within the LCD
DOI: 10.6084/m9.figshare.12923177
title: Archaea_LCDs_tab-delimited

description: LCD-Composer results are stored in a separate file for each organism. Each file is in a tab-delimited format. Columns are ordered as follows:1) The protein identifier (header in the FASTA proteome file),2) the LCD sequence,3) the location of the LCD within the protein,4) the LCD class (i.e. the amino acid of interest used in the LCD-Composer search criteria),5) the percent composition of the amino acid of interest within the LCD,6) the linear dispersion of the amino acid of interest within the LCD
DOI: 10.6084/m9.figshare.12939812
title: Bacteria_ProteinSequences_Part1

description: Part 1 of 2. Each file contains the proteome (in FASTA format) corresponding to a single organism. Files ending in "_additional" represent additional isoforms and translation products associated with that organism. All bacterial proteomes were downloaded from the UniProt FTP site (ftp://ftp.uniprot.org/pub/databases/uniprot/) on 8/21/2020 and are included here to ensure that LCDs correctly map to sequence locations. Please see the LICENSE_UniProt file for license information regarding UniProt sequence data.
DOI: 10.6084/m9.figshare.12939812.v1
title: Bacteria_ProteinSequences_Part1

description: Part 1 of 2. Each file contains the proteome (in FASTA format) corresponding to a single organism. Files ending in "_additional" represent additional isoforms and translation products associated with that organism. All bacterial proteomes were downloaded from the UniProt FTP site (ftp://ftp.uniprot.org/pub/databases/uniprot/) on 8/21/2020 and are included here to ensure that LCDs correctly map to sequence locations. Please see the LICENSE_UniProt file for license information regarding UniProt sequence data.
DOI: 10.6084/m9.figshare.12939980.v1
title: Bacteria_ProteinSequences_Part2

description: Part 2 of 2. Each file contains the proteome (in FASTA format) corresponding to a single organism. Files ending in "_additional" represent additional isoforms and translation products associated with that organism. All bacterial proteomes were downloaded from the UniProt FTP site (ftp://ftp.uniprot.org/pub/databases/uniprot/) on 8/21/2020 and are included here to ensure that LCDs correctly map to sequence locations. Please see the LICENSE_UniProt file for license information regarding UniProt sequence data.
DOI: 10.6084/m9.figshare.12939980
title: Bacteria_ProteinSequences_Part2

description: Part 2 of 2. Each file contains the proteome (in FASTA format) corresponding to a single organism. Files ending in "_additional" represent additional isoforms and translation products associated with that organism. All bacterial proteomes were downloaded from the UniProt FTP site (ftp://ftp.uniprot.org/pub/databases/uniprot/) on 8/21/2020 and are included here to ensure that LCDs correctly map to sequence locations. Please see the LICENSE_UniProt file for license information regarding UniProt sequence data.
DOI: 10.6084/m9.figshare.12942362.v1
title: Viruses_ProteinSequences

description: Each file contains the proteome (in FASTA format) corresponding to a single organism. Files ending in "_additional" represent additional isoforms and translation products associated with that organism. All virus proteomes were downloaded from the UniProt FTP site (ftp://ftp.uniprot.org/pub/databases/uniprot/) on 8/23/2020-8/24/2020 and are included here to ensure that LCDs correctly map to sequence locations. Please see the LICENSE_UniProt file for license information regarding UniProt sequence data.
DOI: 10.6084/m9.figshare.12942362
title: Viruses_ProteinSequences

description: Each file contains the proteome (in FASTA format) corresponding to a single organism. Files ending in "_additional" represent additional isoforms and translation products associated with that organism. All virus proteomes were downloaded from the UniProt FTP site (ftp://ftp.uniprot.org/pub/databases/uniprot/) on 8/23/2020-8/24/2020 and are included here to ensure that LCDs correctly map to sequence locations. Please see the LICENSE_UniProt file for license information regarding UniProt sequence data.
DOI: 10.18112/openneuro.ds003029.v1.0.2
title: iEEG-Multicenter-Dataset
DOI: 10.6084/m9.figshare.13322558
title: C2 geometry

description: The geometry file of the stable intermediate C2 in the catalytic reaction network of SABRE. It was obtained from electronic structure calculations at PBE+TS level of density functional theory through the FHI-aims code package. <br>Data is in the FHI-aims geometry input/output file format (.in file).
DOI: 10.6084/m9.figshare.13322552
title: A3* geometry

description: The geometry file of the stable intermediate A3* in the catalytic reaction network of SABRE. It was obtained from electronic structure calculations at PBE+TS level of density functional theory through the FHI-aims code package. <br>Data is in the FHI-aims geometry input/output file format (.in file).
DOI: 10.6084/m9.figshare.13322552.v1
title: A3* geometry

description: The geometry file of the stable intermediate A3* in the catalytic reaction network of SABRE. It was obtained from electronic structure calculations at PBE+TS level of density functional theory through the FHI-aims code package. <br>Data is in the FHI-aims geometry input/output file format (.in file).
DOI: 10.6084/m9.figshare.13322528
title: A3 geometry

description: The geometry file of the stable intermediate A3 in the catalytic reaction network of SABRE. It was obtained from electronic structure calculations at PBE+TS level of density functional theory through the FHI-aims code package. <br>Data is in the FHI-aims geometry input/output file format (.in file).
DOI: 10.6084/m9.figshare.13322528.v1
title: A3 geometry

description: The geometry file of the stable intermediate A3 in the catalytic reaction network of SABRE. It was obtained from electronic structure calculations at PBE+TS level of density functional theory through the FHI-aims code package. <br>Data is in the FHI-aims geometry input/output file format (.in file).
DOI: 10.6084/m9.figshare.13322522
title: A2' geometry

description: The geometry file of the stable intermediate A2' in the catalytic reaction network of SABRE. It was obtained from electronic structure calculations at PBE+TS level of density functional theory through the FHI-aims code package. <br>Data is in the FHI-aims geometry input/output file format (.in file).
DOI: 10.6084/m9.figshare.13322522.v1
title: A2' geometry

description: The geometry file of the stable intermediate A2' in the catalytic reaction network of SABRE. It was obtained from electronic structure calculations at PBE+TS level of density functional theory through the FHI-aims code package. <br>Data is in the FHI-aims geometry input/output file format (.in file).
DOI: 10.6084/m9.figshare.13322519
title: A2 geometry

description: The geometry file of the stable intermediate A2 in the catalytic reaction network of SABRE. It was obtained from electronic structure calculations at PBE+TS level of density functional theory through the FHI-aims code package. <br>Data is in the FHI-aims geometry input/output file format (.in file).
DOI: 10.6084/m9.figshare.13322519.v1
title: A2 geometry

description: The geometry file of the stable intermediate A2 in the catalytic reaction network of SABRE. It was obtained from electronic structure calculations at PBE+TS level of density functional theory through the FHI-aims code package. <br>Data is in the FHI-aims geometry input/output file format (.in file).
DOI: 10.6084/m9.figshare.13322516
title: A1 geometry

description: The geometry file of the stable intermediate A1 in the catalytic reaction network of SABRE. It was obtained from electronic structure calculations at PBE+TS level of density functional theory through the FHI-aims code package. <br>Data is in the FHI-aims geometry input/output file format (.in file).
DOI: 10.6084/m9.figshare.13322516.v1
title: A1 geometry

description: The geometry file of the stable intermediate A1 in the catalytic reaction network of SABRE. It was obtained from electronic structure calculations at PBE+TS level of density functional theory through the FHI-aims code package. <br>Data is in the FHI-aims geometry input/output file format (.in file).
DOI: 10.6084/m9.figshare.13219970
title: Reaction i MEP

description: The minimum energy path (MEP) of reaction #i in the catalytic reaction network of SABRE. It was obtained from electronic structure calculations at PBE+TS level of density functional theory through the FHI-aims code package.<br>Data is in the xyz file format. Each image in the MEP is described as one frame of the xyz file.
DOI: 10.6084/m9.figshare.13219970.v1
title: Reaction i MEP

description: The minimum energy path (MEP) of reaction #i in the catalytic reaction network of SABRE. It was obtained from electronic structure calculations at PBE+TS level of density functional theory through the FHI-aims code package.<br>Data is in the xyz file format. Each image in the MEP is described as one frame of the xyz file.
DOI: 10.6084/m9.figshare.13219949
title: Reaction h MEP

description: The minimum energy path (MEP) of reaction #h in the catalytic reaction network of SABRE. It was obtained from electronic structure calculations at PBE+TS level of density functional theory through the FHI-aims code package.<br>Data is in the xyz file format. Each image in the MEP is described as one frame of the xyz file.
DOI: 10.6084/m9.figshare.13219949.v1
title: Reaction h MEP

description: The minimum energy path (MEP) of reaction #h in the catalytic reaction network of SABRE. It was obtained from electronic structure calculations at PBE+TS level of density functional theory through the FHI-aims code package.<br>Data is in the xyz file format. Each image in the MEP is described as one frame of the xyz file.
DOI: 10.6084/m9.figshare.13219931
title: Reaction g MEP

description: The minimum energy path (MEP) of reaction #g in the catalytic reaction network of SABRE. It was obtained from electronic structure calculations at PBE+TS level of density functional theory through the FHI-aims code package.<br>Data is in the xyz file format. Each image in the MEP is described as one frame of the xyz file.
DOI: 10.6084/m9.figshare.13219931.v1
title: Reaction g MEP

description: The minimum energy path (MEP) of reaction #g in the catalytic reaction network of SABRE. It was obtained from electronic structure calculations at PBE+TS level of density functional theory through the FHI-aims code package.<br>Data is in the xyz file format. Each image in the MEP is described as one frame of the xyz file.
DOI: 10.6084/m9.figshare.13219763
title: Reaction f MEP

description: The minimum energy path (MEP) of reaction #f in the catalytic reaction network of SABRE. It was obtained from electronic structure calculations at PBE+TS level of density functional theory through the FHI-aims code package.<br>Data is in the xyz file format. Each image in the MEP is described as one frame of the xyz file.
DOI: 10.6084/m9.figshare.13219763.v1
title: Reaction f MEP

description: The minimum energy path (MEP) of reaction #f in the catalytic reaction network of SABRE. It was obtained from electronic structure calculations at PBE+TS level of density functional theory through the FHI-aims code package.<br>Data is in the xyz file format. Each image in the MEP is described as one frame of the xyz file.
DOI: 10.6084/m9.figshare.13219757
title: Reaction e MEP

description: The minimum energy path (MEP) of reaction #e in the catalytic reaction network of SABRE. It was obtained from electronic structure calculations at PBE+TS level of density functional theory through the FHI-aims code package.<br>Data is in the xyz file format. Each image in the MEP is described as one frame of the xyz file.
DOI: 10.6084/m9.figshare.13219757.v1
title: Reaction e MEP

description: The minimum energy path (MEP) of reaction #e in the catalytic reaction network of SABRE. It was obtained from electronic structure calculations at PBE+TS level of density functional theory through the FHI-aims code package.<br>Data is in the xyz file format. Each image in the MEP is described as one frame of the xyz file.
DOI: 10.6084/m9.figshare.13219745
title: Reaction d MEP

description: The minimum energy path (MEP) of reaction #d in the catalytic reaction network of SABRE. It was obtained from electronic structure calculations at PBE+TS level of density functional theory through the FHI-aims code package.<br>Data is in the xyz file format. Each image in the MEP is described as one frame of the xyz file.
DOI: 10.6084/m9.figshare.13219697.v1
title: Reaction c MEP

description: The minimum energy path (MEP) of reaction #c in the catalytic reaction network of SABRE. It was obtained from electronic structure calculations at PBE+TS level of density functional theory through the FHI-aims code package.<br>Data is in the xyz file format. Each image in the MEP is described as one frame of the xyz file.
DOI: 10.6084/m9.figshare.13219697
title: Reaction c MEP

description: The minimum energy path (MEP) of reaction #c in the catalytic reaction network of SABRE. It was obtained from electronic structure calculations at PBE+TS level of density functional theory through the FHI-aims code package.<br>Data is in the xyz file format. Each image in the MEP is described as one frame of the xyz file.
DOI: 10.6084/m9.figshare.13219691
title: Reaction b MEP

description: The minimum energy path (MEP) of reaction #b in the catalytic reaction network of SABRE. It was obtained from electronic structure calculations at PBE+TS level of density functional theory through the FHI-aims code package.<br>Data is in the xyz file format. Each image in the MEP is described as one frame of the xyz file.
DOI: 10.6084/m9.figshare.13219691.v1
title: Reaction b MEP

description: The minimum energy path (MEP) of reaction #b in the catalytic reaction network of SABRE. It was obtained from electronic structure calculations at PBE+TS level of density functional theory through the FHI-aims code package.<br>Data is in the xyz file format. Each image in the MEP is described as one frame of the xyz file.
DOI: 10.6084/m9.figshare.13185641
title: Reaction a MEP

description: The minimum energy path (MEP) of reaction #a in the catalytic reaction network of SABRE. It was obtained from electronic structure calculations at PBE+TS level of density functional theory through the FHI-aims code package. <br>Data is in the xyz file format. Each image in the MEP is described as one frame of the xyz file.
DOI: 10.6084/m9.figshare.13185641.v2
title: Reaction a MEP

description: The minimum energy path (MEP) of reaction #a in the catalytic reaction network of SABRE. It was obtained from electronic structure calculations at PBE+TS level of density functional theory through FHI-aims. <br>Data is in the xyz file format. Each image in the MEP is described as one frame of the xyz file.
DOI: 10.18430/m37ao0
title: X-ray diffraction data for the crystal structure of CotB2 variant F107A in complex with alendronate (7AO0)
DOI: 10.12751/g-node.eey1nz
title: Automated movement analysis of mouse beam walking using neural networks

description: This storage contains the whole data and results of the evaluation whether the software package DeepLabCut (DLC) is able to sufficiently label and thus automate the analysis of videos of mice performing the behavior test Rotating Beam. The post-processing was performed via R. The software package DeepLabCut is able to collect all important data for the automated analysis of the behavior test Rotating Beam and has sufficient accuracy to use the collected data to provide results to a scientific study. The comparison to the manual raters showed that the predictions of DeepLabCut are a good generalization not influenced by human bias. This allows to extend the usage to advanced analyses with more complex parameters.
DOI: 10.18430/m37ao1
title: X-ray diffraction data for the crystal structure of CotB2 variant W288F in complex with alendronate (7AO1)
DOI: 10.18430/m37ao2
title: X-ray diffraction data for the crystal structure of CotB2 variant W288G in complex with alendronate (7AO2)
DOI: 10.18430/m37ao4
title: X-ray diffraction data for the crystal structure of CotB2 variant W288G (7AO4)
DOI: 10.18430/m37ao5
title: X-ray diffraction data for the crystal structure of CotB2 variant W288F (7AO5)
DOI: 10.6073/pasta/d07773b06b3b7deb41afce56b670960c
title: Invasive buffel grass (Cenchrus ciliaris) increases water stress and reduces growth of native foothills palo verde (Parkinsonia microphylla) seedlings in pot experiments

description: Although buffel grass (Cenchrus ciliaris) invasions on several continents have significant ecological impacts, little information is available on its effect on seedling emergence and establishment of native vegetation. In highly impacted areas of the Sonoran Desert of North America, perennial plants are particularly vulnerable during their seedling stage. We studied the impact of buffel grass on the emergence, survival, and water stress in the seedlings of a locally dominant native tree, the foothills palo verde (Parkinsonia microphylla), using two pot experiments. In the first experiment, we compared the germination, growth, and survival of concentric rings of palo verde seedlings around mature individuals of buffel grass, a native shrub of a similar diameter and height to buffel grass, or in a pot with bare soil. In the second experiment, we compared the competitive effects of buffel grass seedlings on palo verde seedlings with the effects of conspecific seedlings, again using germination, growth, and survival as metrics. We followed up both experiments by quantifying the ratio of stable carbon isotopes in the tissues of the palo verde seedlings, which can be an indicator of water stress. We found evidence of relatively greater water stress in palo verde seedlings grown with buffel grass seedlings in pots than those grown with no competitor, and reduced survival of palo verde seedlings when grown with mature buffel grass. Our results highlight the need for more manipulative studies of density to improve mechanistic understanding of population dynamics, and to forecast how populations and communities will respond in the long term to perturbations such as invasion.
DOI: 10.5517/ccdc.csd.cc25trzr
title: CCDC 2020765: Experimental Crystal Structure Determination

description: Related Article: Brett A. Vaughn, Alexander M. Brown, Shin Hye Ahn, Jerome R. Robinson, Eszter Boros|2020|Inorg.Chem.|59|16095|doi:10.1021/acs.inorgchem.0c02314
DOI: 10.5517/ccdc.csd.cc25xycf
title: CCDC 2023815: Experimental Crystal Structure Determination

description: Related Article: Xiao-Nan Fan, Wei Deng, Zhen-Jiang Liu, Zi-Jian Yao|2020|Inorg.Chem.|59|16582|doi:10.1021/acs.inorgchem.0c02497
DOI: 10.5281/zenodo.4302613
title: Policy Verification Using Metagraphs

description: Code for the submission Policy Verification Using Metagraphs
DOI: 10.18112/openneuro.ds003097.v1.2.0
title: AOMIC-ID1000
DOI: 10.5281/zenodo.4302580
title: Fluorescent Microglia Images for Analyzing Morphological Changes due to Injury Duration in the Ischemic Rat Brain

description: The image data included in this dataset are the confocal microscope images (converted from original .nd2 file to .tiff form) used for the publication: Joseph, A., Liao, R., Zhang, M., Helmbrecht, H., McKenna, M., Filteau, J. R., & Nance, E. (2020). Nanoparticle-microglial interaction in the ischemic brain is modulated by injury duration and treatment. <em>Bioengineering & translational medicine</em>, <em>5</em>(3), e10175. https://doi.org/10.1002/btm2.10175 The data is organized by brain slice number, region, and image number. There is also an included excel file 'datadescriptions.xlsx' that provides more information about the metadata of the dataset. The data was procured and processed by the Disease Directed Engineering Lab, PI: Elizabeth Nance, at the University of Washington.
DOI: 10.5281/zenodo.4302579
title: Fluorescent Microglia Images for Analyzing Morphological Changes due to Injury Duration in the Ischemic Rat Brain

description: The image data included in this dataset are the confocal microscope images (converted from original .nd2 file to .tiff form) used for the publication: Joseph, A., Liao, R., Zhang, M., Helmbrecht, H., McKenna, M., Filteau, J. R., & Nance, E. (2020). Nanoparticle-microglial interaction in the ischemic brain is modulated by injury duration and treatment. <em>Bioengineering & translational medicine</em>, <em>5</em>(3), e10175. https://doi.org/10.1002/btm2.10175 The data is organized by brain slice number, region, and image number. There is also an included excel file 'datadescriptions.xlsx' that provides more information about the metadata of the dataset. The data was procured and processed by the Disease Directed Engineering Lab, PI: Elizabeth Nance, at the University of Washington.
DOI: 10.25345/c57r3d
title: MassIVE MSV000086545 - In-depth proteomic investigation of isogenic radiation resistant prostate cancer cell lines
title: To model radioresistance, we generated radiation resistant cells using conventional (CF) and hypofractionated (HF) treatment schedules. We then evaluated the proteome of CF, HF and parental cells and discovered over 300 dysregulated proteins in the CF and HF cells relative to parental. Pathway analyses revealed upregulation of PI3K AkT mTOR signaling, oxidative phosphorylation, hypoxia, glycolysis, epithelial to mesenchymal transition (EMT), E2F targets and DNA repair in the radioresistant cells. We validated our proteomic findings that CD44 is enriched in CF and HF cells by western blot and flow cytometry. Finally, treatment with blocking anti-CD44 antibody promoted radiosensitization.
DOI: 10.6084/m9.figshare.13322600.v1
title: CRAVE Exploratory Factor Analysis w/ summed PW move and rest, and RN move and rest scores. CLEANED.(Study 1). PCM12/02/2020

description: CRAVE Exploratory Factor Analysis w/ summed PW move and rest, and RN move and rest scores. CLEANED.(Study 1).All erroneous values and 999's (previously coded for missing values) have been deleted, leaving the value blank.PCM12/02/2020 <br><br>Paul C. McKee