cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.14788170
title: Raw data for "Chimera Spectrum Diagnostics for Peptides Using Two-Dimensional Partial Covariance Mass Spectrometry"

description: 1D MS/MS (*_CID_NCE35) and 2D-PC-MS (*_CVscan) data for doubly charged peptide ions of isomers I1 and I2 and their mixtures, as detailed in Table 1. In Xcalibur Raw File format.
DOI: 10.6084/m9.figshare.14788170.v2
title: Raw data for "Chimera Spectrum Diagnostics for Peptides Using Two-Dimensional Partial Covariance Mass Spectrometry"

description: 1D MS/MS (*_CID_NCE35) and 2D-PC-MS (*_CVscan) data for doubly charged peptide ions of isomers I1 and I2 and their mixtures, as detailed in Table 1. In Xcalibur Raw File format.
DOI: 10.6084/m9.figshare.14788170.v1
title: Raw data

description: 1D MS/MS (*_CID_NCE35) and 2D-PC-MS (*_CVscan) data for doubly charged peptide ions of isomers I1 and I2 and their mixtures, as detailed in Table 1. In Xcalibur Raw File format.
DOI: 10.25584/datahub/1788186
title: Nominal and adversarial synthetic PMU data for standard IEEE test systems

description: GridSTAGE (Spatio-Temporal Adversarial scenario GEneration) is a framework for the simulation of adversarial scenarios and the generation of multivariate spatio-temporal data in cyber-physical systems. GridSTAGE is developed based on Matlab and leverages Power System Toolbox (PST) where the evolution of the power network is governed by nonlinear differential equations. Using GridSTAGE, one can create several event scenarios that correspond to several operating states of the power network by enabling or disabling any of the following: faults, AGC control, PSS control, exciter control, load changes, generation changes, and different types of cyber-attacks. Standard IEEE bus system data is used to define the power system environment. GridSTAGE emulates the data from PMU and SCADA sensors. The rate of frequency and location of the sensors can be adjusted as well. Detailed instructions on generating data scenarios with different system topologies, attack characteristics, load characteristics, sensor configuration, control parameters are available in the Github repository - https://github.com/pnnl/GridSTAGE. There is no existing adversarial data-generation framework that can incorporate several attack characteristics and yield adversarial PMU data. The GridSTAGE framework currently supports simulation of False Data Injection attacks (such as a ramp, step, random, trapezoidal, multiplicative, replay, freezing) and Denial of Service attacks (such as time-delay, packet-loss) on PMU data. Furthermore, it supports generating spatio-temporal time-series data corresponding to several random load changes across the network or corresponding to several generation changes. A Koopman mode decomposition (KMD) based algorithm to detect and identify the false data attacks in real-time is proposed in https://ieeexplore.ieee.org/document/9303022. Machine learning-based predictive models are developed to capture the dynamics of the underlying power system with a high level of accuracy under various operating conditions for IEEE 68 bus system. The corresponding machine learning models are available at https://github.com/pnnl/grid_prediction.
DOI: 10.6084/m9.figshare.14782959.v1
title: GNV

description: The global-scale dataset of nitrate transport velocity in the unsaturated zones<br>
DOI: 10.6084/m9.figshare.14788269.v2
title: DATASET - Discovering research trends of urban geology based on a bibliometric analysis

description: This dataset is related to a paper in F1000Research, title <b>Discovering research trends of urban geology based on a bibliometric analysis</b>.
DOI: 10.6084/m9.figshare.13473678
title: Datasets, scripts, and results for Goloboff et al. (2021, Cladistics) on PAUP*, MEGA, and MPBoot (https://doi.org/10.1111/cla.12476)

description: Datasets, scripts, and results for Goloboff et al. (2021, Cladistics) on PAUP*, MEGA, and MPBoot (https://doi.org/10.1111/cla.12476)<br>
DOI: 10.6084/m9.figshare.14759223
title: annotation of Ginkgo biloba

description: Annotation of high quality assembly of Ginkgo bilobaGenome assembly is free in BIG database PRJCA001755
DOI: 10.5281/zenodo.4563309
title: Experimental data from "Finding Broken Linux Configuration Specifications by Statically Analyzing the Kconfig Language"

description: Experimental data from "Finding Broken Linux Configuration Specifications by Statically Analyzing the Kconfig Language"
DOI: 10.5281/zenodo.4911102
title: ATOM3D: Protein-Protein Interactions (PPI) Dataset

description: Protein-Protein Interactions (PPI) dataset from the ATOM3D project. This upload includes three zipped data directories: Full, unsplit dataset in LMDB format Split datasets, with each in LMDB format Text files containing train, validation, and test indices used to split raw dataset README containing dataset details
description: {"references": ["Townshend, R. J. L. et al. ATOM3D: Tasks On Molecules in Three Dimensions. In review (2020). http://arxiv.org/abs/2012.04035.", "Townshend, R. J. L., Bedi, R., Suriana, P. A. & Dror, R. O. End-to-end learning on 3D protein structure for interface prediction. in Advances in Neural Information Processing Systems (eds. Wallach, H. et al.) vol. 32 15616\u201315625 (Curran Associates, Inc., 2019).", "Vreven, T. et al. Updates to the Integrated Protein-Protein Interaction Benchmarks: Docking Benchmark Version 5 and Affinity Benchmark Version 2. J. Mol. Biol. 427, 3031\u20133041 (2015)"]}
DOI: 10.5281/zenodo.4911101
title: ATOM3D: Protein-Protein Interactions (PPI) Dataset

description: Protein-Protein Interactions (PPI) dataset from the ATOM3D project. This upload includes three zipped data directories: Full, unsplit dataset in LMDB format Split datasets, with each in LMDB format Text files containing train, validation, and test indices used to split raw dataset README containing dataset details
description: {"references": ["Townshend, R. J. L. et al. ATOM3D: Tasks On Molecules in Three Dimensions. In review (2020). http://arxiv.org/abs/2012.04035.", "Townshend, R. J. L., Bedi, R., Suriana, P. A. & Dror, R. O. End-to-end learning on 3D protein structure for interface prediction. in Advances in Neural Information Processing Systems (eds. Wallach, H. et al.) vol. 32 15616\u201315625 (Curran Associates, Inc., 2019).", "Vreven, T. et al. Updates to the Integrated Protein-Protein Interaction Benchmarks: Docking Benchmark Version 5 and Affinity Benchmark Version 2. J. Mol. Biol. 427, 3031\u20133041 (2015)"]}
DOI: 10.6084/m9.figshare.14788614.v1
title: Additional file 2 of Microglia RAGE exacerbates the progression of neurodegeneration within the SOD1G93A murine model of amyotrophic lateral sclerosis in a sex-dependent manner

description: Additional file 2. Excel workbook containing Supplemental Tables 1.1–1.10.
DOI: 10.5281/zenodo.4911142
title: ATOM3D: Small Molecule Properties (SMP) Dataset

description: Small Molecule Properties (SMP) dataset from the ATOM3D project. This upload includes three zipped data directories: Full, unsplit dataset in LMDB format Split datasets, with each in LMDB format Text files containing train, validation, and test indices used to split raw dataset README containing dataset details
description: {"references": ["Townshend, R. J. L. et al. ATOM3D: Tasks On Molecules in Three Dimensions. In review (2020). http://arxiv.org/abs/2012.04035.", "Ramakrishnan, R., Dral, P. O., Rupp, M. & Von Lilienfeld, O. A. Quantum chemistry structures and properties of 134 kilo molecules. Scientific Data 1, (2014)"]}
DOI: 10.5281/zenodo.4914734
title: ATOM3D: Ligand Efficacy Prediction (LEP) Dataset

description: Ligand Efficacy Prediction (LEP) dataset from the ATOM3D project. This upload includes three zipped data directories: Full, unsplit dataset in LMDB format Split datasets, with each in LMDB format Text files containing train, validation, and test indices used to split raw dataset README containing dataset details
description: {"references": ["Townshend, R. J. L. et al. ATOM3D: Tasks On Molecules in Three Dimensions. In review (2020). http://arxiv.org/abs/2012.04035.", "Friesner, R. A., Banks, J. L., et al. (2004). Journal of Medicinal Chemistry, 47(7), 1739\u20131749."]}
DOI: 10.6084/m9.figshare.14788611.v1
title: Additional file 1 of Microglia RAGE exacerbates the progression of neurodegeneration within the SOD1G93A murine model of amyotrophic lateral sclerosis in a sex-dependent manner

description: Additional file 1. Figures and figure legend for Supplemental Figure 1–8. Also, table legends for Supplemental Tables 1.1–1.10.
DOI: 10.5281/zenodo.4911141
title: ATOM3D: Small Molecule Properties (SMP) Dataset

description: Small Molecule Properties (SMP) dataset from the ATOM3D project. This upload includes three zipped data directories: Full, unsplit dataset in LMDB format Split datasets, with each in LMDB format Text files containing train, validation, and test indices used to split raw dataset README containing dataset details
description: {"references": ["Townshend, R. J. L. et al. ATOM3D: Tasks On Molecules in Three Dimensions. In review (2020). http://arxiv.org/abs/2012.04035.", "Ramakrishnan, R., Dral, P. O., Rupp, M. & Von Lilienfeld, O. A. Quantum chemistry structures and properties of 134 kilo molecules. Scientific Data 1, (2014)"]}
DOI: 10.5281/zenodo.4914733
title: ATOM3D: Ligand Efficacy Prediction (LEP) Dataset

description: Ligand Efficacy Prediction (LEP) dataset from the ATOM3D project. This upload includes three zipped data directories: Full, unsplit dataset in LMDB format Split datasets, with each in LMDB format Text files containing train, validation, and test indices used to split raw dataset README containing dataset details
description: {"references": ["Townshend, R. J. L. et al. ATOM3D: Tasks On Molecules in Three Dimensions. In review (2020). http://arxiv.org/abs/2012.04035.", "Friesner, R. A., Banks, J. L., et al. (2004). Journal of Medicinal Chemistry, 47(7), 1739\u20131749."]}
DOI: 10.5281/zenodo.4961085
title: ATOM3D: RNA Structure Ranking (RSR) Dataset

description: RNA Structure Ranking (RSR) dataset from the ATOM3D project. This upload includes three zipped data directories: Full, unsplit dataset in LMDB format Split datasets, with each in LMDB format Text files containing train, validation, and test indices used to split raw dataset README containing dataset details
description: {"references": ["Townshend, R. J. L. et al. ATOM3D: Tasks On Molecules in Three Dimensions. In review (2020). http://arxiv.org/abs/2012.04035.", "Cruz, J. A., Blanchet, M. F., et al. (2012). RNA, 18(4), 610\u2013625.", "Watkins, A. M., Rangan, R., & Das, R. (2020). Structure, 28(8), 963-976.e6."]}
DOI: 10.5281/zenodo.4961084
title: ATOM3D: RNA Structure Ranking (RSR) Dataset

description: RNA Structure Ranking (RSR) dataset from the ATOM3D project. This upload includes three zipped data directories: Full, unsplit dataset in LMDB format Split datasets, with each in LMDB format Text files containing train, validation, and test indices used to split raw dataset README containing dataset details
description: {"references": ["Townshend, R. J. L. et al. ATOM3D: Tasks On Molecules in Three Dimensions. In review (2020). http://arxiv.org/abs/2012.04035.", "Cruz, J. A., Blanchet, M. F., et al. (2012). RNA, 18(4), 610\u2013625.", "Watkins, A. M., Rangan, R., & Das, R. (2020). Structure, 28(8), 963-976.e6."]}
DOI: 10.6084/m9.figshare.14788605.v1
title: Additional file 2 of Protective population behavior change in outbreaks of emerging infectious disease

description: Additional file 2.
DOI: 10.5281/zenodo.4914717
title: ATOM3D: Ligand Binding Affinity (LBA) Dataset

description: Ligand Binding Affinity (LBA) dataset from the ATOM3D project. This upload includes five zipped data directories: Full, unsplit dataset in LMDB format Split datasets at 60% sequence identity, with each in LMDB format Split datasets at 30% sequence identity, with each in LMDB format Text files containing train, validation, and test indices used to split raw dataset (for both 30% and 60%) README containing dataset details
description: {"references": ["Townshend, R. J. L. et al. ATOM3D: Tasks On Molecules in Three Dimensions. In review (2020). http://arxiv.org/abs/2012.04035.", "Liu, Z. et al. PDB-wide collection of binding data: current status of the PDBbind database. Bioinformatics 31, 405\u2013412 (2015)"]}
DOI: 10.6084/m9.figshare.14788512.v1
title: Additional file 2 of Identification and characterization of immune-related lncRNAs and lncRNA-miRNA-mRNA networks of Paralichthys olivaceus involved in Vibrio anguillarum infection

description: Additional file 2. List of DElncRNAs, DETGs, and DETmiRs.
DOI: 10.5281/zenodo.4915648
title: ATOM3D: Protein Structure Ranking (PSR) Dataset

description: Protein Structure Ranking (PSR) dataset from the ATOM3D project. This upload includes three zipped data directories: Full, unsplit dataset in LMDB format Split datasets, with each in LMDB format Text files containing train, validation, and test indices used to split raw dataset README containing dataset details
description: {"references": ["Townshend, R. J. L. et al. ATOM3D: Tasks On Molecules in Three Dimensions. In review (2020). http://arxiv.org/abs/2012.04035.", "Kryshtafovych, A., Schwede, T., et al. (2019). Proteins: Structure, Function and Bioinformatics, 87(12), 1011-1020."]}
DOI: 10.5281/zenodo.4915647
title: ATOM3D: Protein Structure Ranking (PSR) Dataset

description: Protein Structure Ranking (PSR) dataset from the ATOM3D project. This upload includes three zipped data directories: Full, unsplit dataset in LMDB format Split datasets, with each in LMDB format Text files containing train, validation, and test indices used to split raw dataset README containing dataset details
description: {"references": ["Townshend, R. J. L. et al. ATOM3D: Tasks On Molecules in Three Dimensions. In review (2020). http://arxiv.org/abs/2012.04035.", "Kryshtafovych, A., Schwede, T., et al. (2019). Proteins: Structure, Function and Bioinformatics, 87(12), 1011-1020."]}
DOI: 10.6084/m9.figshare.14788509.v1
title: Additional file 1 of Identification and characterization of immune-related lncRNAs and lncRNA-miRNA-mRNA networks of Paralichthys olivaceus involved in Vibrio anguillarum infection

description: Additional file 1. Summary of the conservation of Japanese flounder lncRNAs in other species.
DOI: 10.6084/m9.figshare.14788495.v1
title: Additional file 1 of Epidemiology, haematology and molecular characterization of haemoprotozoon and rickettsial organisms causing infections in cattle of Jammu region, North India

description: Additional file 1.
DOI: 10.6084/m9.figshare.14788482.v1
title: Additional file 1 of A method for cryopreservation and single nucleus RNA-sequencing of normal adult human interventricular septum heart tissue reveals cellular diversity and function

description: Additional file 1. Supplemental Table 1. Complete listing of differentially expressed genes in each cluster.
DOI: 10.5281/zenodo.4962515
title: ATOM3D: Mutation Stability Prediction (MSP) Dataset

description: Mutation Stability Prediction (MSP) dataset from the ATOM3D project. This upload includes three zipped data directories: Full, unsplit dataset in LMDB format Split datasets, with each in LMDB format Text files containing train, validation, and test indices used to split raw dataset README containing dataset details
description: {"references": ["Townshend, R. J. L. et al. ATOM3D: Tasks On Molecules in Three Dimensions. In review (2020). http://arxiv.org/abs/2012.04035.", "Jankauskaite, J., Jim\u00e9nez-Garc\u00eda, B., et al. (2019). Bioinformatics, 35(3), 462\u2013469."]}
DOI: 10.5281/zenodo.4962514
title: ATOM3D: Mutation Stability Prediction (MSP) Dataset

description: Mutation Stability Prediction (MSP) dataset from the ATOM3D project. This upload includes three zipped data directories: Full, unsplit dataset in LMDB format Split datasets, with each in LMDB format Text files containing train, validation, and test indices used to split raw dataset README containing dataset details
description: {"references": ["Townshend, R. J. L. et al. ATOM3D: Tasks On Molecules in Three Dimensions. In review (2020). http://arxiv.org/abs/2012.04035.", "Jankauskaite, J., Jim\u00e9nez-Garc\u00eda, B., et al. (2019). Bioinformatics, 35(3), 462\u2013469."]}
DOI: 10.6084/m9.figshare.14788456.v1
title: Additional file 1 of Programmed suppression of oxidative phosphorylation and mitochondrial function by gestational alcohol exposure correlate with widespread increases in H3K9me2 that do not suppress transcription

description: Additional file 1. Primer sequences used in this study.
DOI: 10.6084/m9.figshare.14788425.v1
title: Additional file 1 of Comparisons among rainbow trout, Oncorhynchus mykiss, populations of maternal transcript profile associated with egg viability

description: Additional file 1: Table S1. Gene abbreviations and sequence of gene coding regions targeted for Nanostring nCounter CodeSet. Table S2. Assessment of early embryo development in each Group B selected family. Table S3A. Regression analysis of mitochondrial gene transcript abundance and eyeing rate. Table S3B. Regression analysis of nuclear gene transcript abundance and eyeing rate. Table S4A. Group A1 individual raw reads from Nanostrings assay. Table S4B. Group A2 individual raw reads from Nanostrings assay. Table S4C. Group B individual raw reads from Nanostrings assay. Table S4D. Summary data for individual raw reads from Nanostrings assay. Table S5A. Group A1 individual normalized reads. Table S5B. Group A2 individual normalized reads. Table S5C Group B individual normalized reads.
DOI: 10.6084/m9.figshare.14788410.v1
title: Additional file 9 of Full-length transcriptome sequences by a combination of sequencing platforms applied to isoflavonoid and triterpenoid saponin biosynthesis of Astragalus mongholicus Bunge

description: Additional file 9: Table S6. Primers used in validation experiment of gene expression by RT-qPCR. (AR vs. AL, AR vs. AS and AL vs. AS, respectively).
DOI: 10.6084/m9.figshare.14788404.v1
title: Additional file 7 of Full-length transcriptome sequences by a combination of sequencing platforms applied to isoflavonoid and triterpenoid saponin biosynthesis of Astragalus mongholicus Bunge

description: Additional file 7: Table S5. Differentially expressed genes involved in triterpenoid saponins biosynthesis.
DOI: 10.6084/m9.figshare.14788401.v1
title: Additional file 6 of Full-length transcriptome sequences by a combination of sequencing platforms applied to isoflavonoid and triterpenoid saponin biosynthesis of Astragalus mongholicus Bunge

description: Additional file 6: Table S4. Differentially expressed genes involved in isoflavonoid biosynthesis.
DOI: 10.6084/m9.figshare.14788395.v1
title: Additional file 4 of Full-length transcriptome sequences by a combination of sequencing platforms applied to isoflavonoid and triterpenoid saponin biosynthesis of Astragalus mongholicus Bunge

description: Additional file 4: Table S3. KEGG pathway annotation of A. mongholicus.
DOI: 10.6084/m9.figshare.14788392.v1
title: Additional file 3 of Full-length transcriptome sequences by a combination of sequencing platforms applied to isoflavonoid and triterpenoid saponin biosynthesis of Astragalus mongholicus Bunge

description: Additional file 3: Table S2. KOG annotation of the A. mongholicus transcripts.
DOI: 10.6084/m9.figshare.14788389.v1
title: Additional file 2 of Full-length transcriptome sequences by a combination of sequencing platforms applied to isoflavonoid and triterpenoid saponin biosynthesis of Astragalus mongholicus Bunge

description: Additional file 2: Table S1. GO annotation of the A. mongholicus transcripts.
DOI: 10.6084/m9.figshare.14788383.v1
title: Additional file 10 of Full-length transcriptome sequences by a combination of sequencing platforms applied to isoflavonoid and triterpenoid saponin biosynthesis of Astragalus mongholicus Bunge

description: Additional file 10: Table S7. Optimized mass spectra conditions.
DOI: 10.6084/m9.figshare.14788369.v1
title: Additional file 1 of Aberrant expression of multiple T cell markers on diffuse large B cell lymphoma: a case report

description: Additional file 1..
DOI: 10.6084/m9.figshare.14788357.v1
title: Additional file 4 of Identifying prognostic lncRNAs based on a ceRNA regulatory network in laryngeal squamous cell carcinoma

description: Additional file 4: Supplementary Material 4. The list of miRNA-mRNA pairs and lncRNA-miRNA pairs.
DOI: 10.6084/m9.figshare.14788354.v1
title: Additional file 3 of Identifying prognostic lncRNAs based on a ceRNA regulatory network in laryngeal squamous cell carcinoma

description: Additional file 3: Supplementary Material 3. All GO_GSEA and KEGG_GSEA items of DEmRNAs.
DOI: 10.6084/m9.figshare.14788351.v1
title: Additional file 2 of Identifying prognostic lncRNAs based on a ceRNA regulatory network in laryngeal squamous cell carcinoma

description: Additional file 2: Supplementary Material 2. All GO and KEGG items of DEmRNAs.
DOI: 10.6084/m9.figshare.14788348.v1
title: Additional file 1 of Identifying prognostic lncRNAs based on a ceRNA regulatory network in laryngeal squamous cell carcinoma

description: Additional file 1: Supplementary Material 1. The differentially expressed genes list of lncRNAs, mRNAs, and miRNAs in LSCC.
DOI: 10.6084/m9.figshare.14788344.v1
title: Additional file 2 of Integrated analysis of the functions and prognostic values of RNA binding proteins in hepatocellular carcinoma

description: Additional file 2. Table S1: The detailed information of 1,542 RNA binding proteins. Table S2: The detailed information of 330 differently expressed RBPs (208 upregulated and 122 downregulated). Table S3: The detailed information of function of the identified upregulated and downregulated RNA binding proteins, respectively.
DOI: 10.6084/m9.figshare.14788614
title: Additional file 2 of Microglia RAGE exacerbates the progression of neurodegeneration within the SOD1G93A murine model of amyotrophic lateral sclerosis in a sex-dependent manner

description: Additional file 2. Excel workbook containing Supplemental Tables 1.1–1.10.
DOI: 10.6084/m9.figshare.14788611
title: Additional file 1 of Microglia RAGE exacerbates the progression of neurodegeneration within the SOD1G93A murine model of amyotrophic lateral sclerosis in a sex-dependent manner

description: Additional file 1. Figures and figure legend for Supplemental Figure 1–8. Also, table legends for Supplemental Tables 1.1–1.10.
DOI: 10.6084/m9.figshare.14788605
title: Additional file 2 of Protective population behavior change in outbreaks of emerging infectious disease

description: Additional file 2.
DOI: 10.6084/m9.figshare.14788512
title: Additional file 2 of Identification and characterization of immune-related lncRNAs and lncRNA-miRNA-mRNA networks of Paralichthys olivaceus involved in Vibrio anguillarum infection

description: Additional file 2. List of DElncRNAs, DETGs, and DETmiRs.
DOI: 10.6084/m9.figshare.14788509
title: Additional file 1 of Identification and characterization of immune-related lncRNAs and lncRNA-miRNA-mRNA networks of Paralichthys olivaceus involved in Vibrio anguillarum infection

description: Additional file 1. Summary of the conservation of Japanese flounder lncRNAs in other species.
DOI: 10.6084/m9.figshare.14788495
title: Additional file 1 of Epidemiology, haematology and molecular characterization of haemoprotozoon and rickettsial organisms causing infections in cattle of Jammu region, North India

description: Additional file 1.
DOI: 10.6084/m9.figshare.14788482
title: Additional file 1 of A method for cryopreservation and single nucleus RNA-sequencing of normal adult human interventricular septum heart tissue reveals cellular diversity and function

description: Additional file 1. Supplemental Table 1. Complete listing of differentially expressed genes in each cluster.
DOI: 10.6084/m9.figshare.14788456
title: Additional file 1 of Programmed suppression of oxidative phosphorylation and mitochondrial function by gestational alcohol exposure correlate with widespread increases in H3K9me2 that do not suppress transcription

description: Additional file 1. Primer sequences used in this study.