cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.3948481
title: Analyzed Benchmarks on Experiments for a SAT Time Leap Challenge

description: For details see: Johannes K. Fichte, Markus Hecher, Stefan Szeider: A Time Leap Challenge for SAT-Solving, Proceedings of the 26th International Conference on Principles and Practice of Constraint Programming (CP'2020). We include the sources from various authors. zchaff is available at: https://www.princeton.edu/~chaff/ zchaff.html For the benchmark set, we refer to https://www.cs.uni-potsdam.de/wv/projects/sets/set-industrial-09-12.tar.xz or https://www.cs.uni-potsdam.de/wv/projects/sets. The instances are also available on Zenodo at: https://doi.org/10.5281/zenodo.3989071
DOI: 10.6084/m9.figshare.12136158.v1
title: Mazumdaer A et al study full patient dataset COVID19

description: Muzumder A et al study on SARS-CoV-2 epidemic in India, excel sheet containing full patient dataset
DOI: 10.6084/m9.figshare.12136143
title: Mazumdaer A et al study confirmed cases daily COVID19

description: Muzumder A et al study on SARS-CoV-2 epidemic in India, excel sheet containing confirmed daily cases
DOI: 10.6084/m9.figshare.12136149.v1
title: Mazumdaer A et al study data for figure 1

description: Muzumder A et al study on SARS-CoV-2 epidemic in India, excel sheet containing data for figure 1
DOI: 10.5281/zenodo.3948480
title: Analyzed Benchmarks on Experiments for a SAT Time Leap Challenge

description: For details see: Johannes K. Fichte, Markus Hecher, Stefan Szeider: A Time Leap Challenge for SAT-Solving, Proceedings of the 26th International Conference on Principles and Practice of Constraint Programming (CP'2020). We include the sources from various authors. zchaff is available at: https://www.princeton.edu/~chaff/ zchaff.html For the benchmark set, we refer to https://www.cs.uni-potsdam.de/wv/projects/sets/set-industrial-09-12.tar.xz or https://www.cs.uni-potsdam.de/wv/projects/sets. The instances are also available on Zenodo at: https://doi.org/10.5281/zenodo.3989071
DOI: 10.6084/m9.figshare.12136143.v1
title: Mazumdaer A et al study confirmed cases daily COVID19

description: Muzumder A et al study on SARS-CoV-2 epidemic in India, excel sheet containing confirmed daily cases
DOI: 10.6084/m9.figshare.12136110
title: Contribution of Secondary Particles to Wintertime PM2.5 during 2015–2018 in a Major Urban Area of the Sichuan Basin, Southwest China

description: The data uploaded was used in our article, including air quality monitoring, chemical composition and meteorological data.<br>
DOI: 10.6084/m9.figshare.12136131
title: Supplementary Information Natural variants of HvHKT1;5 regulate sodium content in barley.pdf

description: Supplementary Information for the manuscript Natural variants of HvHKT1;5 regulate sodium content in barley.Includes Supplementary figures, tables and dataset. <br>
DOI: 10.6084/m9.figshare.12136131.v1
title: Supplementary Information Natural variants of HvHKT1;5 regulate sodium content in barley.pdf

description: Supplementary Information for the manuscript Natural variants of HvHKT1;5 regulate sodium content in barley.Includes Supplementary figures, tables and dataset. <br>
DOI: 10.6084/m9.figshare.12136041
title: Occurence sites of Orthetrum nitidinerve in Italy (1841-2019)

description: This is the list of all occurence sites of Orthetrum nitidinerve recorded in Italy from 1841 to 2019. Data are based on the following revision by Assandri et al. (submitted) <b>Distribution, autecology, genetic characterization, and conservation of the Western-Mediterranean endemic dragonfly <i>Orthetrum nitidinerve</i> (Selys, 1841): insights from Italy</b>
DOI: 10.6084/m9.figshare.12136110.v2
title: Contribution of Secondary Particles to Wintertime PM2.5 during 2015–2018 in a Major Urban Area of the Sichuan Basin, Southwest China

description: The data uploaded was used in our article, including air quality monitoring, chemical composition and meteorological data.<br>
DOI: 10.6084/m9.figshare.12135996
title: Unique and exclusive peptide signatures directly identify intrinsically disordered proteins from sequences without structural information

description: Intrinsically disordered proteins are now widely accepted to play crucial roles in biological functions. Identification of signatures of intrinsic disorder is one of the key steps towards building a proper repertoire for their occurrence in proteomes. In this work, systematic computational synthesis of a library of all possible (3368400) dipeptides, tripeptides, tetrapeptides and pentapeptides using the natural 20 amino acids allowed us to identify 36 unique tetrapeptides present exclusively in intrinsically disordered proteins and absent in the complete primary sequence space of naturally occurring structured proteins. Further, out of more than 530000 known naturally occurring primary sequences without any structural information, 1349 sequences contain the above identified unique signatures of intrinsic disorder. These sequences, having cellular functions varying from housekeeping to metabolic to transport, more than double the number of the currently known intrinsically disordered proteins. On similar lines, we report that 26577 pentapeptide signatures exclusive to intrinsically disordered proteins, and absent in naturally occurring structured proteins, identify ∼50% of more than half-a-million curated protein sequences without structural information to be intrinsically disordered. The results reported are a major leap forward in exploring functional manifestations of intrinsically disordered proteins. Communicated by Ramaswamy H. Sarma
DOI: 10.6084/m9.figshare.12136041.v1
title: Occurence sites of Orthetrum nitidinerve in Italy (1841-2019)

description: This is the list of all occurence sites of Orthetrum nitidinerve recorded in Italy from 1841 to 2019. Data are based on the following revision by Assandri et al. (submitted) <b>Distribution, autecology, genetic characterization, and conservation of the Western-Mediterranean endemic dragonfly <i>Orthetrum nitidinerve</i> (Selys, 1841): insights from Italy</b>
DOI: 10.6084/m9.figshare.12136110.v1
title: Contribution of Secondary Particles to Wintertime PM2.5 during 2015–2018 in a Major Urban Area of the Sichuan Basin, Southwest China

description: The data uploaded was used in our article, including air quality monitoring, chemical composition and meteorological data.<br>
DOI: 10.6084/m9.figshare.12135945
title: Contribution of Secondary Particles to Wintertime PM2.5 during 2015–2018 in a Major Urban Area of the Sichuan Basin, Southwest China

description: Here are the data presented in this study
DOI: 10.6084/m9.figshare.12135927
title: Supplementary Material for: Consensus-Based Care Recommendations for Pulmonologists Treating Adults with Myotonic Dystrophy Type 1

description: <b><i>Purpose of Review:</i></b> Myotonic dystrophy type 1 (DM1) is a severe, progressive genetic disease that affects approximately 1 in 2,500 individuals globally [Ashizawa et al.: Neurol Clin Pract 2018;8(6):507–20]. In patients with DM1, respiratory muscle weakness frequently evolves, leading to respiratory failure as the main cause of death in this patient population, followed by cardiac complications [de Die-Smulders et al.: Brain 1998;121(Pt 8):1557–63], [Mathieu et al.: Neurology 1999;52(8):1658–62], [Groh et al.: Muscle Nerve 2011;43(5):648–51]. This paper provides a more detailed outline on the diagnostic and management protocols, which can guide pulmonologists who may not have experience with DM1 or who are not part of a neuromuscular multidisciplinary clinic. A group of neuromuscular experts in DM1 including pulmonologists, respiratory physiotherapists and sleep specialists discussed respiratory testing and management at baseline and during follow-up visits, based on their clinical experience with patients with DM1. The details are presented in this report. <b><i>Recent Findings:</i></b> Myotonic recruited 66 international clinicians experienced in the treatment of people living with DM1 to develop and publish consensus-based care recommendations targeting all body systems affected by this disease [Ashizawa et al.: Neurol Clin Pract. 2018;8(6):507–20]. Myotonic then worked with 12 international respiratory therapists, pulmonologists and neurologists with long-standing experience in DM respiratory care to develop consensus-based care recommendations for pulmonologists using a methodology called the Single Text Procedure. This process generated a 7-page document that provides detailed respiratory care recommendations for the management of patients living with DM1. This consensus is completely based on expert opinion and not backed up by empirical evidence due to limited clinical care data available for respiratory care management in DM patients. Nevertheless, we believe it is of relevance for professionals treating adults with myotonic dystrophy because it addresses practical issues related to respiratory management and care, which have been adapted to meet the specific issues in patients with DM1. <b><i>Summary:</i></b> The resulting recommendations are intended to improve respiratory care for the most vulnerable of DM1 patients and lower the risk of untoward respiratory complications and mortality by providing pulmonologist who are less experienced with DM1 with practical indications on which tests and when to perform them, adapting the general respiratory knowledge to specific issues related to this multiorgan disease.
DOI: 10.6084/m9.figshare.12135996.v2
title: Unique and exclusive peptide signatures directly identify intrinsically disordered proteins from sequences without structural information

description: Intrinsically disordered proteins are now widely accepted to play crucial roles in biological functions. Identification of signatures of intrinsic disorder is one of the key steps towards building a proper repertoire for their occurrence in proteomes. In this work, systematic computational synthesis of a library of all possible (3368400) dipeptides, tripeptides, tetrapeptides and pentapeptides using the natural 20 amino acids allowed us to identify 36 unique tetrapeptides present exclusively in intrinsically disordered proteins and absent in the complete primary sequence space of naturally occurring structured proteins. Further, out of more than 530000 known naturally occurring primary sequences without any structural information, 1349 sequences contain the above identified unique signatures of intrinsic disorder. These sequences, having cellular functions varying from housekeeping to metabolic to transport, more than double the number of the currently known intrinsically disordered proteins. On similar lines, we report that 26577 pentapeptide signatures exclusive to intrinsically disordered proteins, and absent in naturally occurring structured proteins, identify ∼50% of more than half-a-million curated protein sequences without structural information to be intrinsically disordered. The results reported are a major leap forward in exploring functional manifestations of intrinsically disordered proteins. Communicated by Ramaswamy H. Sarma
DOI: 10.6084/m9.figshare.12135945.v1
title: 2015–2018 in a Major Urban Area of the Sichuan Basin, Southwest China

description: Here are the data presented in this study
DOI: 10.6084/m9.figshare.12135945.v3
title: Contribution of Secondary Particles to Wintertime PM2.5 during 2015–2018 in a Major Urban Area of the Sichuan Basin, Southwest China

description: Here are the data presented in this study
DOI: 10.6084/m9.figshare.12135945.v2
title: Contribution of Secondary Particles to Wintertime PM2.5 during 2015–2018 in a Major Urban Area of the Sichuan Basin, Southwest China

description: Here are the data presented in this study
DOI: 10.5281/zenodo.4000300
title: Data generated for the EDO chapter case study

description: This article contains a ZIP archive, `data.zip`, that contains several directories and a `README`. Further details of this archive's contents are described in that file.
DOI: 10.6084/m9.figshare.12135264
title: Additional file 1 of Right and left-sided colon cancers - specificity of molecular mechanisms in tumorigenesis and progression

description: Additional file 1. An excel file containing all supplementary tables highlighted with the manuscript as individual sheets.
DOI: 10.6084/m9.figshare.12135264.v1
title: Additional file 1 of Right and left-sided colon cancers - specificity of molecular mechanisms in tumorigenesis and progression

description: Additional file 1. An excel file containing all supplementary tables highlighted with the manuscript as individual sheets.
DOI: 10.6084/m9.figshare.12135021
title: Additional file 1 of Tumor sequencing is useful to refine the analysis of germline variants in unexplained high-risk breast cancer families

description: Additional file 1: Table S1. List of the 735 genes selected for germline variant analysis. Data regarding familial syndrome was obtained from the supplementary data of Zhang et al. [15] and updated by literature query. Table S2. List of germline variants retained after filtering. Information about their characteristics and their allele-specific read depths in the tumor. Table S3. Assessment by MutSigCV of the statistical significance of the clustering of somatic mutations in putative cancer genes. Table S4. Clinical characteristics of the affected relatives from which both germline as well as tumor DNA could be obtained. Table S5. Details regarding the multidisciplinary discussion of variants of interest.
DOI: 10.6084/m9.figshare.12135021.v1
title: Additional file 1 of Tumor sequencing is useful to refine the analysis of germline variants in unexplained high-risk breast cancer families

description: Additional file 1: Table S1. List of the 735 genes selected for germline variant analysis. Data regarding familial syndrome was obtained from the supplementary data of Zhang et al. [15] and updated by literature query. Table S2. List of germline variants retained after filtering. Information about their characteristics and their allele-specific read depths in the tumor. Table S3. Assessment by MutSigCV of the statistical significance of the clustering of somatic mutations in putative cancer genes. Table S4. Clinical characteristics of the affected relatives from which both germline as well as tumor DNA could be obtained. Table S5. Details regarding the multidisciplinary discussion of variants of interest.
DOI: 10.6084/m9.figshare.12134865
title: Additional file 2 of Knowledge and interactions of the local community with the herpetofauna in the forest reserve of Quininí (Tibacuy-Cundinamarca, Colombia)

description: Additional file 2. Surveys data
DOI: 10.6084/m9.figshare.12134862
title: Additional file 2 of An immunoinformatic approach driven by experimental proteomics: in silico design of a subunit candidate vaccine targeting secretory proteins of Leishmania donovani amastigotes

description: Additional file 2: Data S1. Database of screened proteins from proteomic studies, and of MHC I and MHC II molecules considered for epitope prediction.
DOI: 10.6084/m9.figshare.12134865.v1
title: Additional file 2 of Knowledge and interactions of the local community with the herpetofauna in the forest reserve of Quininí (Tibacuy-Cundinamarca, Colombia)

description: Additional file 2. Surveys data
DOI: 10.6084/m9.figshare.12134862.v1
title: Additional file 2 of An immunoinformatic approach driven by experimental proteomics: in silico design of a subunit candidate vaccine targeting secretory proteins of Leishmania donovani amastigotes

description: Additional file 2: Data S1. Database of screened proteins from proteomic studies, and of MHC I and MHC II molecules considered for epitope prediction.
DOI: 10.6084/m9.figshare.12134832
title: Additional file 8 of A unified nomenclature for vertebrate olfactory receptors

description: Additional file 8. Protein sequences of the OR genes and pseudogenes in this work.
DOI: 10.6084/m9.figshare.12134832.v1
title: Additional file 8 of A unified nomenclature for vertebrate olfactory receptors

description: Additional file 8. Protein sequences of the OR genes and pseudogenes in this work.
DOI: 10.6084/m9.figshare.12134826
title: Additional file 7 of A unified nomenclature for vertebrate olfactory receptors

description: Additional file 7:Table S1. Species-specific expansion/deletions. A. OR subfamilies with species-specific expansions. An expansion is defined as a subfamily for which one of the studied organisms has ≥2 times the number of ORs than all the other organisms. Subfamilies with a single OR were omitted from the analysis. The green background indicates expansion. B. Putative large genomic deletions. A putative deletion is defined as an OR subfamily that is missing in primates, Laurasiatheria, or rodents. The numbers are the gene count per subfamily. The genomic locations of subfamilies that are encoded from a single genomic cluster are shown in the right side of the table.
DOI: 10.6084/m9.figshare.12134820
title: Additional file 6 of A unified nomenclature for vertebrate olfactory receptors

description: Additional file 6. A list of 195 ORs that were renamed manually.
DOI: 10.6084/m9.figshare.12134820.v1
title: Additional file 6 of A unified nomenclature for vertebrate olfactory receptors

description: Additional file 6. A list of 195 ORs that were renamed manually.
DOI: 10.6084/m9.figshare.12134826.v1
title: Additional file 7 of A unified nomenclature for vertebrate olfactory receptors

description: Additional file 7:Table S1. Species-specific expansion/deletions. A. OR subfamilies with species-specific expansions. An expansion is defined as a subfamily for which one of the studied organisms has ≥2 times the number of ORs than all the other organisms. Subfamilies with a single OR were omitted from the analysis. The green background indicates expansion. B. Putative large genomic deletions. A putative deletion is defined as an OR subfamily that is missing in primates, Laurasiatheria, or rodents. The numbers are the gene count per subfamily. The genomic locations of subfamilies that are encoded from a single genomic cluster are shown in the right side of the table.
DOI: 10.6084/m9.figshare.12134802
title: Additional file 2 of A unified nomenclature for vertebrate olfactory receptors

description: Additional file 2. Summary of the OR genes in subfamilies.
DOI: 10.6084/m9.figshare.12134802.v1
title: Additional file 2 of A unified nomenclature for vertebrate olfactory receptors

description: Additional file 2. Summary of the OR genes in subfamilies.
DOI: 10.6084/m9.figshare.12134793
title: Additional file 1 of A unified nomenclature for vertebrate olfactory receptors

description: Additional file 1. The symbols, genomic locations and aliases of the OR repertoires in this work.
DOI: 10.6084/m9.figshare.12134793.v1
title: Additional file 1 of A unified nomenclature for vertebrate olfactory receptors

description: Additional file 1. The symbols, genomic locations and aliases of the OR repertoires in this work.
DOI: 10.6084/m9.figshare.12134745
title: Additional file 1 of Identifying a commercially-available 3D printing process that minimizes model distortion after annealing and autoclaving and the effect of steam sterilization on mechanical strength

description: Additional file 1. Supplementary data.
DOI: 10.6084/m9.figshare.12134745.v1
title: Additional file 1 of Identifying a commercially-available 3D printing process that minimizes model distortion after annealing and autoclaving and the effect of steam sterilization on mechanical strength

description: Additional file 1. Supplementary data.
DOI: 10.6084/m9.figshare.12134730
title: Additional file 1 of Design of PCR assays to specifically detect and identify 37 Lactobacillus species in a single 96 well plate

description: Additional file 1: Table S1. General genome features of Lactobacillus species.
DOI: 10.6084/m9.figshare.12134730.v1
title: Additional file 1 of Design of PCR assays to specifically detect and identify 37 Lactobacillus species in a single 96 well plate

description: Additional file 1: Table S1. General genome features of Lactobacillus species.
DOI: 10.6084/m9.figshare.12134712
title: Additional file 5 of Functional and genomic characterization of three novel cell lines derived from a metastatic gallbladder cancer tumor

description: Additional file 5. Sequencing statistics.
DOI: 10.6084/m9.figshare.12134712.v1
title: Additional file 5 of Functional and genomic characterization of three novel cell lines derived from a metastatic gallbladder cancer tumor

description: Additional file 5. Sequencing statistics.
DOI: 10.6084/m9.figshare.12134700
title: Additional file 3 of microRNA profiling in the Weddell seal suggests novel regulatory mechanisms contributing to diving adaptation

description: Additional file 3: Table S2. Overview of all samples used in this study. Table S3. number of reads mapped to each miRNA locus across all samples. Table S4. number of reads mapped to each miRNA locus across all samples. Table S5. Tissue-specific differential expression statistics considering all pairwise tissue comparisons (brain_heart, brain_muscle, brain_plasma, heart_muscle, heart_plasma, muscle_plasma). Fold change refers to changes from tissue_1 to tissue_2, as defined by column H. Table S6. Age-specific differential expression statistics considering all tissues together. Fold change refers to changes from pup to adult (i.e. positive sign indicates upregulation in adult). Table S7. Tissue-specific differential expression statistics for developmental stage (adult versus pup). Table S8. Significant pathway enrichments in brain, heart, and muscle for mRNA targets of all microRNAs differentially expressed in Weddell seal maturation. Table S9. Enriched KEGG pathways associated with mRNA targets of novel miRNAs upregulated (+) or downregulated (−) in four Weddell seal sample types. Table S10. Number of significant pathway enrichments annotated to mRNA targets of novel Weddell seal microRNAs that were elevated (+) or decreased (−) in four sample types.
DOI: 10.6084/m9.figshare.12134691
title: Additional file 2 of microRNA profiling in the Weddell seal suggests novel regulatory mechanisms contributing to diving adaptation

description: Additional file 2: Table S1. small RNA reads aligned against the final set of 559 high confidence miRNA loci. For each locus, the full hairpin sequence is shown, followed by the set of reads (one per line) perfectly matching the locus (with the corresponding abundance) and the predictive secondary structure of the miRNA hairpin.
DOI: 10.6084/m9.figshare.12134697
title: Additional file 3 of Functional and genomic characterization of three novel cell lines derived from a metastatic gallbladder cancer tumor

description: Additional file 3. Exonic mutations in Chilean GBC cell lines.
DOI: 10.6084/m9.figshare.12134700.v1
title: Additional file 3 of microRNA profiling in the Weddell seal suggests novel regulatory mechanisms contributing to diving adaptation

description: Additional file 3: Table S2. Overview of all samples used in this study. Table S3. number of reads mapped to each miRNA locus across all samples. Table S4. number of reads mapped to each miRNA locus across all samples. Table S5. Tissue-specific differential expression statistics considering all pairwise tissue comparisons (brain_heart, brain_muscle, brain_plasma, heart_muscle, heart_plasma, muscle_plasma). Fold change refers to changes from tissue_1 to tissue_2, as defined by column H. Table S6. Age-specific differential expression statistics considering all tissues together. Fold change refers to changes from pup to adult (i.e. positive sign indicates upregulation in adult). Table S7. Tissue-specific differential expression statistics for developmental stage (adult versus pup). Table S8. Significant pathway enrichments in brain, heart, and muscle for mRNA targets of all microRNAs differentially expressed in Weddell seal maturation. Table S9. Enriched KEGG pathways associated with mRNA targets of novel miRNAs upregulated (+) or downregulated (−) in four Weddell seal sample types. Table S10. Number of significant pathway enrichments annotated to mRNA targets of novel Weddell seal microRNAs that were elevated (+) or decreased (−) in four sample types.