cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.6199788
title: Dataset for Figure 2 in Zoccolotti, De Luca & Marinelli 2021 Brain Sciences_concept paper

description: Dataset for Zoccolotti, P.; De Luca, M.; Marinelli, C.V. Interpreting Developmental Surface Dyslexia within a Comorbidity Perspective. Brain Sci. 2021, 11, 1568. https:// doi.org/10.3390/brainsci11121568 Figure 2. Reading times (in s/word) in the reading of a list of 30 high-frequency words. Data (redrawn from [Pontillo, M.; De Luca, M.; Ellis, A.W.; Marinelli, C.V.; Spinelli, D.; Zoccolotti, P. Failure to learn a new format in developmental dyslexia. Sci. Rep. 2014, 4, 4869.]) refer to a cross-sectional study on a group of 1st to 8th grade typically developing children. Power functions indicate performance at the 10th, 30th, 50th, 70th, and 90th percentiles (curves from top to bottom). Vertical red bars mark the difference between the 90th and the 50th percentile foreach grade; note that the difference becomes quantitatively smaller at progressively higher grades (as indicated by shorter red bars). Horizontal blue bars link the performance corresponding to the 90th percentile with the corresponding performance at the level of the 50th percentile; this indicates the distance (in years) between the two levels of performance. Note that the distance (in years) increases at progressively higher grades (as indicated by longer blue bars).
DOI: 10.26036/cnp0001493
title: Whole genome resequencing and Transcriptome sequencing of oyster pompano Trachinotus anak

description: Whole genome resequencing of 96 individuals and Transcriptome sequencing of oyster pompano Trachinotus anak
DOI: 10.26036/cnp0002287
title: 污泥发酵批次实验

description: 实验室批次剩余污泥发酵
DOI: 10.26036/cnp0002010
title: 一株雀纹天蛾核型多角体病毒的鉴定及其基因组序列分析

description: 从自然死亡的雀纹天蛾幼虫分离到一株雀纹天蛾核型多角体病毒。通过宿主身份的分子确定，扫描及切片透射电镜发现，该病毒为单粒包埋型核型多角体病毒，命名为ThjaSNPV(Theretra japonica single nucleopolyhedrosis virus)。
DOI: 10.25345/c51g0hv5g
title: MassIVE Reanalysis RMSV000000354.3289 - CCMS MassIVE Knowledge Base (MassIVE-KB) MS-GF+ reanalysis of Bioplex AP-MS Dataset for Library Construction, DNAH6 [launched by fce971e5ede541cca3fc5307a73294d8]
title: Center for Computational Mass Spectrometry (CCMS) systematic reanalysis of public proteomics mass spectrometry (MS) datasets provides a public, large-scale and comparable set of dataset reanalyses results including detailed provenance records. To further facilitate the broad reusability of public proteomics MS data, these reanalyses were also used to build the MassIVE Knowledge Base (MassIVE-KB) spectral library, a community-wide resource derived from hundreds of millions of identified spectra from tens of terabytes of mass spectrometry data.
DOI: 10.26036/cnp0002398
title: Transcriptome of two snakes

description: Transcriptome data of 36 samples from two snakes.
DOI: 10.26036/cnp0002392
title: Genome-wide data reveals paraphyly in the sand plover complex (Charadrius mongolus/leschenaultii)

description: SNP data of the sand plover complex (Charadrius mongolus/leschenaultii) .
DOI: 10.6084/m9.figshare.19207581
title: DOM properties and concentrations at Xuliujing between November 2016 and January 2020

description: Data used in this study including the percentage of different DOM size fractions (&lt; 1 kDa, 1-3 kDa, 3-10 kDa, and &gt; 10 kDa) in the Lower Changjiang River at Xuliujing between November 2016 and January 2020.
DOI: 10.6084/m9.figshare.19207749
title: File S1

description: Binary Matrix
DOI: 10.6084/m9.figshare.19207749.v1
title: File S1

description: Binary Matrix
DOI: 10.26036/cnp0002518
title: miRNA Cargo of Extracellular Vesicles

description: In this study, we investigated the miRNA profiles of EVs isolated from host plasma at different stages of Schistosoma japonicum infection (lung stage: 3 days post infection (dpi), liver stages: 14, and 21 dpi) to identify the potential role of miRNAs in the pathogenesis and immune regulation during schistosomiasis.
DOI: 10.26036/cnp0002515
title: Creating amylose-free barley cultivars with high soluble sugar content by genome editing

description: Here we created new alleles of the Waxy gene using CRISPR/Cas9 genome editing. Mutagenesis of single bases in these novel alleles caused absence of intact waxy protein in grain of the edited line. Transcriptome analysis identified differences between the edited line and the WT that could partly explain the reduction in amylose and amylopectin contents and the increase in soluble sugar, sucrose and β-glucan contents.
DOI: 10.26036/cnp0002500
title: Eighty million years of rapid evolution of the primate Y chromosome

description: The rapid evolutionary mode of Y sex chromosomes in 29 primate species
DOI: 10.26036/cnp0002490
title: DNA Sequencing of a hybrid rice

description: DNA Sequencing of a hybrid rice
DOI: 10.26036/cnp0002484
title: Endobacteria in biocontrol fungi

description: To uncover putative functional roles in biological control of these widespread but yet enigmatic endobacteria in Esteya vermicola
DOI: 10.26036/cnp0002513
title: White light and blue light transcriptome data of 'HY' strawberry and CRY2 gene silencing mutant 'cry2'

description: Original transcriptome data: after white light and blue light treatment of Octoploid cultivated strawberry 'Hongyan' and its CRY2 gene silencing mutant cry2.
DOI: 10.6084/m9.figshare.19207752
title: File S2

description: Count matrix
DOI: 10.6084/m9.figshare.19207752.v1
title: File S2

description: Count matrix
DOI: 10.26036/cnp0002514
title: 甲烷宏基因组

description: 人工林地土壤甲烷宏基因组
DOI: 10.26036/cnp0002521
title: RNA-seq of dusp14 Knock down zebrafish

description: The wild-type zebrafish and dusp14-MO injected zebrafish of 3 days old were prepared, respectively. Three independent replicates of the samples were analyzed for each treatment.
DOI: 10.26036/cnp0002544
title: 基于液滴微流控方法的单细胞转录组检测

description: 本研究基于液滴注射建立单细胞检测方法。以Jurkat、NIH3T3、293T细胞系作为测试样本进行单细胞转录组检测。
DOI: 10.26036/cnp0002560
title: RNA-Seq of fish

description: RNA-Seq of Gymnocypris przewalskii przewalskii
DOI: 10.26036/cnp0002533
title: Project of transcriptome sequencing of Stemphylium lycopersici

description: The project is data on the transcriptome sequencing of tomato leaf leaf pathogen, Stemphylium lycopersici.
DOI: 10.26036/cnp0002562
title: Cotton mitochondrial genomes

description: We re-established high quality mitogenomes of all the eight cotton clades (A-G, K) and their relatives in Malvoideae.
DOI: 10.6084/m9.figshare.19207761
title: File S3

description: GO Analysis
DOI: 10.6084/m9.figshare.19207761.v1
title: File S3

description: GO Analysis
DOI: 10.26036/cnp0002570
title: complete chloroplast genome of Soroseris hookeriana

description: the complete chloroplast genome of Soroseris hookeriana
DOI: 10.26036/cnp0002575
title: 浙江大学-扬子鳄基因组组装和群体基因组研究

description: 本研究拟采用三代基因组测序和组装技术组装扬子鳄染色体级别的基因组，并利用重测序技术研究扬子鳄不同群体的遗传结构、分化关系、遗传多样性、群体差异等方面，综合评估扬子鳄目前的濒危状态，从基因组层面挖掘种群持续衰退带来的危害，比较不同群体的特点，为人工繁育和遗传拯救提供宝贵参考，维持扬子鳄种群的持续健康发展。
DOI: 10.26036/cnp0002534
title: Antagonism of TSWV against TYLCV in N. benthamiana detected by transcriptome analysis

description: Nicotiana benthamiana was infected by TSWV or/and TYLCV respectively, and healthy plants were used as control ( CK ). Three replicates were set for each treatment, with a total of 12 samples. RNA sequencing was performed for each sample to obtain the corresponding transcriptome data.
DOI: 10.26036/cnp0002580
title: 腾冲热泉微生物

description: 云南腾冲地区两条小流域热泉原核微生物结构和功能的多样性分析
DOI: 10.25345/c5wp9t71f
title: MassIVE Reanalysis RMSV000000354.3294 - CCMS MassIVE Knowledge Base (MassIVE-KB) MS-GF+ reanalysis of Bioplex AP-MS Dataset for Library Construction, TLE3 [launched by fce971e5ede541cca3fc5307a73294d8]
title: Center for Computational Mass Spectrometry (CCMS) systematic reanalysis of public proteomics mass spectrometry (MS) datasets provides a public, large-scale and comparable set of dataset reanalyses results including detailed provenance records. To further facilitate the broad reusability of public proteomics MS data, these reanalyses were also used to build the MassIVE Knowledge Base (MassIVE-KB) spectral library, a community-wide resource derived from hundreds of millions of identified spectra from tens of terabytes of mass spectrometry data.
DOI: 10.26036/cnp0001979
title: massively targeted evaluation of CRISPR off-targets in cells by surrogate sequencing

description: Sensitive and high-throughput methods for evaluating CRISPR RNA-guided nucleases (RGNs) off-targets (OTs) in cells are essential for advancing RGN-based gene therapies. Here we report a method for simultaneously evaluating thousands of potential RGN off-target sites in cells, called SURRO-seq, which relies on capturing RGN-induced indels in potential SURROgate off-target sites in cells by a pool of lentiviral vectors and targeted deep sequencing. We first evaluate 170 previously investigated OTs from 11 RGNs with SURRO-seq in HEK293T cells. SURRO-seq sensitively captures nearly 100% OTs found by T7E1, most (70%) GUIDEseq-identified OTs, and about half (51%) OTs found by CIRCLE-seq. We next apply SURRO-seq to evaluate 7160 potential OTs from 111 therapeutic RGNs and identify 754 potential OTs with significantly detectable indels, which are further validated in 23 endogenous genome loci in five human cells. Analyses of pOTs with significantly high indel frequencies reveal that thermodynamically stable wobble base pair (rG•dT) strongly increases RGN OT effect. Benchmark analysis of SURRO-seq identified OTs with latest RGN prediction tools further confirms that thermodynamic energy-based predictors provide the most accurate RGN OT prediction. SURRO-seq thus offers a scalable, high-throughput, sensitive and complementary for evaluating RGN OTs and advancing RGN-based gene therapy applications.
DOI: 10.26036/cnp0002595
title: SURRO-seq:massively targeted evaluation of CRISPR off-targets in cells

description: Sensitive and high-throughput methods for evaluating CRISPR RNA-guided nucleases (RGNs) off-targets (OTs) in cells are essential for advancing RGN-based gene therapies. Here we report a method for simultaneously evaluating thousands of potential RGN off-target sites in cells, called SURRO-seq, which relies on capturing RGN-induced indels in potential SURROgate off-target sites in cells by a pool of lentiviral vectors and targeted deep sequencing. We first evaluate 170 previously investigated OTs from 11 RGNs with SURRO-seq in HEK293T cells. SURRO-seq sensitively captures nearly 100% OTs found by T7E1, most (70%) GUIDEseq-identified OTs, and about half (51%) OTs found by CIRCLE-seq. We next apply SURRO-seq to evaluate 7160 potential OTs from 111 therapeutic RGNs and identify 754 potential OTs with significantly detectable indels, which are further validated in 23 endogenous genome loci in five human cells. Analyses of pOTs with significantly high indel frequencies reveal that thermodynamically stable wobble base pair (rG•dT) strongly increases RGN OT effect. Benchmark analysis of SURRO-seq identified OTs with latest RGN prediction tools further confirms that thermodynamic energy-based predictors provide the most accurate RGN OT prediction. SURRO-seq thus offers a scalable, high-throughput, sensitive and complementary for evaluating RGN OTs and advancing RGN-based gene therapy applications.
DOI: 10.25345/c5rx93d8j
title: MassIVE Reanalysis RMSV000000354.3293 - CCMS MassIVE Knowledge Base (MassIVE-KB) MS-GF+ reanalysis of Bioplex AP-MS Dataset for Library Construction, NLGN3 [launched by fce971e5ede541cca3fc5307a73294d8]
title: Center for Computational Mass Spectrometry (CCMS) systematic reanalysis of public proteomics mass spectrometry (MS) datasets provides a public, large-scale and comparable set of dataset reanalyses results including detailed provenance records. To further facilitate the broad reusability of public proteomics MS data, these reanalyses were also used to build the MassIVE Knowledge Base (MassIVE-KB) spectral library, a community-wide resource derived from hundreds of millions of identified spectra from tens of terabytes of mass spectrometry data.
DOI: 10.5281/zenodo.6200218
title: Trialstreamer data

description: Trialstreamer annotated collection of RCTs. This respository contains baseline files (large), and subsequent updates (daily for PubMed, weekly for ICTRP).
DOI: 10.25345/c5n87306z
title: MassIVE Reanalysis RMSV000000354.3297 - CCMS MassIVE Knowledge Base (MassIVE-KB) MS-GF+ reanalysis of Bioplex AP-MS Dataset for Library Construction, SCOC [launched by fce971e5ede541cca3fc5307a73294d8]
title: Center for Computational Mass Spectrometry (CCMS) systematic reanalysis of public proteomics mass spectrometry (MS) datasets provides a public, large-scale and comparable set of dataset reanalyses results including detailed provenance records. To further facilitate the broad reusability of public proteomics MS data, these reanalyses were also used to build the MassIVE Knowledge Base (MassIVE-KB) spectral library, a community-wide resource derived from hundreds of millions of identified spectra from tens of terabytes of mass spectrometry data.
DOI: 10.25345/c5hh6c639
title: MassIVE Reanalysis RMSV000000354.3298 - CCMS MassIVE Knowledge Base (MassIVE-KB) MS-GF+ reanalysis of Bioplex AP-MS Dataset for Library Construction, TTC1 [launched by fce971e5ede541cca3fc5307a73294d8]
title: Center for Computational Mass Spectrometry (CCMS) systematic reanalysis of public proteomics mass spectrometry (MS) datasets provides a public, large-scale and comparable set of dataset reanalyses results including detailed provenance records. To further facilitate the broad reusability of public proteomics MS data, these reanalyses were also used to build the MassIVE Knowledge Base (MassIVE-KB) spectral library, a community-wide resource derived from hundreds of millions of identified spectra from tens of terabytes of mass spectrometry data.
DOI: 10.25345/c5cr5nc9j
title: MassIVE Reanalysis RMSV000000354.3295 - CCMS MassIVE Knowledge Base (MassIVE-KB) MS-GF+ reanalysis of Bioplex AP-MS Dataset for Library Construction, C10orf125 [launched by fce971e5ede541cca3fc5307a73294d8]
title: Center for Computational Mass Spectrometry (CCMS) systematic reanalysis of public proteomics mass spectrometry (MS) datasets provides a public, large-scale and comparable set of dataset reanalyses results including detailed provenance records. To further facilitate the broad reusability of public proteomics MS data, these reanalyses were also used to build the MassIVE Knowledge Base (MassIVE-KB) spectral library, a community-wide resource derived from hundreds of millions of identified spectra from tens of terabytes of mass spectrometry data.
DOI: 10.25345/c5804xk47
title: MassIVE Reanalysis RMSV000000354.3296 - CCMS MassIVE Knowledge Base (MassIVE-KB) MS-GF+ reanalysis of Bioplex AP-MS Dataset for Library Construction, MATN4 [launched by fce971e5ede541cca3fc5307a73294d8]
title: Center for Computational Mass Spectrometry (CCMS) systematic reanalysis of public proteomics mass spectrometry (MS) datasets provides a public, large-scale and comparable set of dataset reanalyses results including detailed provenance records. To further facilitate the broad reusability of public proteomics MS data, these reanalyses were also used to build the MassIVE Knowledge Base (MassIVE-KB) spectral library, a community-wide resource derived from hundreds of millions of identified spectra from tens of terabytes of mass spectrometry data.
DOI: 10.25345/c54746r9c
title: MassIVE Reanalysis RMSV000000354.3300 - CCMS MassIVE Knowledge Base (MassIVE-KB) MS-GF+ reanalysis of Bioplex AP-MS Dataset for Library Construction, C1orf111 [launched by fce971e5ede541cca3fc5307a73294d8]
title: Center for Computational Mass Spectrometry (CCMS) systematic reanalysis of public proteomics mass spectrometry (MS) datasets provides a public, large-scale and comparable set of dataset reanalyses results including detailed provenance records. To further facilitate the broad reusability of public proteomics MS data, these reanalyses were also used to build the MassIVE Knowledge Base (MassIVE-KB) spectral library, a community-wide resource derived from hundreds of millions of identified spectra from tens of terabytes of mass spectrometry data.
DOI: 10.25345/c50g3gz6q
title: MassIVE Reanalysis RMSV000000354.3302 - CCMS MassIVE Knowledge Base (MassIVE-KB) MS-GF+ reanalysis of Bioplex AP-MS Dataset for Library Construction, BCAP29 [launched by fce971e5ede541cca3fc5307a73294d8]
title: Center for Computational Mass Spectrometry (CCMS) systematic reanalysis of public proteomics mass spectrometry (MS) datasets provides a public, large-scale and comparable set of dataset reanalyses results including detailed provenance records. To further facilitate the broad reusability of public proteomics MS data, these reanalyses were also used to build the MassIVE Knowledge Base (MassIVE-KB) spectral library, a community-wide resource derived from hundreds of millions of identified spectra from tens of terabytes of mass spectrometry data.
DOI: 10.25345/c5vq2sb27
title: MassIVE Reanalysis RMSV000000354.3291 - CCMS MassIVE Knowledge Base (MassIVE-KB) MS-GF+ reanalysis of Bioplex AP-MS Dataset for Library Construction, DKK3 [launched by fce971e5ede541cca3fc5307a73294d8]
title: Center for Computational Mass Spectrometry (CCMS) systematic reanalysis of public proteomics mass spectrometry (MS) datasets provides a public, large-scale and comparable set of dataset reanalyses results including detailed provenance records. To further facilitate the broad reusability of public proteomics MS data, these reanalyses were also used to build the MassIVE Knowledge Base (MassIVE-KB) spectral library, a community-wide resource derived from hundreds of millions of identified spectra from tens of terabytes of mass spectrometry data.
DOI: 10.5281/zenodo.6200334
title: Teabagdata_2020

description: Data set for the decomposition rate and stabilization of rooibos and green tea, which has been incubated in central boreal Sweden for approximately 90 days. Samples were exposed to different soil moisture. Data for the date which samples were placed in the filed and when they were collected. Weight before and after the incubation and calculations of k and S.
DOI: 10.5281/zenodo.6200333
title: Teabagdata_2020

description: Data set for the decomposition rate and stabilization of rooibos and green tea, which has been incubated in central boreal Sweden for approximately 90 days. Samples were exposed to different soil moisture. Data for the date which samples were placed in the filed and when they were collected. Weight before and after the incubation and calculations of k and S.
DOI: 10.26036/cnp0000196
title: The microbiome of swine manure

description: The metagenomic sequencing of swine manure
DOI: 10.25345/c5r20rx07
title: MassIVE Reanalysis RMSV000000354.3301 - CCMS MassIVE Knowledge Base (MassIVE-KB) MS-GF+ reanalysis of Bioplex AP-MS Dataset for Library Construction, ZNHIT3 [launched by fce971e5ede541cca3fc5307a73294d8]
title: Center for Computational Mass Spectrometry (CCMS) systematic reanalysis of public proteomics mass spectrometry (MS) datasets provides a public, large-scale and comparable set of dataset reanalyses results including detailed provenance records. To further facilitate the broad reusability of public proteomics MS data, these reanalyses were also used to build the MassIVE Knowledge Base (MassIVE-KB) spectral library, a community-wide resource derived from hundreds of millions of identified spectra from tens of terabytes of mass spectrometry data.
DOI: 10.6084/m9.figshare.17914031
title: Raw datafiles - Climate change does not decouple interactions between a central place foraging predator and its migratory prey

description: Datafiles represent the raw data for each variable in the study: rainfall data, prey data, maternal den attendance data, and cub survival data.
DOI: 10.6084/m9.figshare.17914031.v1
title: Raw datafiles - Climate change does not decouple interactions between a central place foraging predator and its migratory prey

description: Datafiles represent the raw data for each variable in the study: rainfall data, prey data, maternal den attendance data, and cub survival data.
DOI: 10.5281/zenodo.6145088
title: DLOFTBs - Deformable Linear Objects Tracking with B-splines - dataset

description: A dataset associated with the paper "DLOFTBs - Fast Tracking of Deformable Linear Objects with B-splines". Contains 2D images and ROS bags with 3D videos of deformable linear objects manipulated by humans and robots.
DOI: 10.5281/zenodo.6145087
title: DLOFTBs - Deformable Linear Objects Tracking with B-splines - dataset

description: A dataset associated with the paper "DLOFTBs - Fast Tracking of Deformable Linear Objects with B-splines". Contains 2D images and ROS bags with 3D videos of deformable linear objects manipulated by humans and robots.
DOI: 10.25345/c5m90237r
title: MassIVE Reanalysis RMSV000000354.3292 - CCMS MassIVE Knowledge Base (MassIVE-KB) MS-GF+ reanalysis of Bioplex AP-MS Dataset for Library Construction, LRRC10 [launched by fce971e5ede541cca3fc5307a73294d8]
title: Center for Computational Mass Spectrometry (CCMS) systematic reanalysis of public proteomics mass spectrometry (MS) datasets provides a public, large-scale and comparable set of dataset reanalyses results including detailed provenance records. To further facilitate the broad reusability of public proteomics MS data, these reanalyses were also used to build the MassIVE Knowledge Base (MassIVE-KB) spectral library, a community-wide resource derived from hundreds of millions of identified spectra from tens of terabytes of mass spectrometry data.
DOI: 10.15129/41755cd8-06c8-4f93-a460-6118ebdc6757
title: Data for: "Violet-blue 405-nm Light-based Photoinactivation for Pathogen Reduction of Human Plasma Provides Broad Antibacterial Efficacy Without Visible Degradation of Plasma Proteins".

description: This supplementary file contains the data collected during the investigation of violet-blue 405-nm Light-based photoinactivation for pathogen reduction of human plasma. Optical characterization data for plasma samples and the 405nm violet-blue light source measured using a spectrophotometer and spectrometer respectively is included. Data sets collected from 405nm light based bacterial inactivation testing, contain the raw bacterial counts recorded for a broad range of bacteria in human plasma following exposure to a fixed 405nm light treatment. Complete dataset contains non-confidential information with human plasma samples supplied by TCS Biosciences Ltd (UK) and the Scottish National Blood Transfusion Service (SNBTS, UK)). Raw data were inputted into Microsoft Excel spreadsheets, and subsequently inputted into Minitab statistical software to generate Control Charts of the data and to perform statistical analyses. Photographs of SDS-PAGE master gels used to assess potential plasma protein damage observed upon exposure to violet-blue 405-nm light are included. Data was gathered between January 2019 and February 2021. This dataset was generated for intended use in a PhD thesis and for journal paper publication.
DOI: 10.25345/c5gh9b932
title: MassIVE Reanalysis RMSV000000354.3304 - CCMS MassIVE Knowledge Base (MassIVE-KB) MS-GF+ reanalysis of Bioplex AP-MS Dataset for Library Construction, GABRD [launched by fce971e5ede541cca3fc5307a73294d8]
title: Center for Computational Mass Spectrometry (CCMS) systematic reanalysis of public proteomics mass spectrometry (MS) datasets provides a public, large-scale and comparable set of dataset reanalyses results including detailed provenance records. To further facilitate the broad reusability of public proteomics MS data, these reanalyses were also used to build the MassIVE Knowledge Base (MassIVE-KB) spectral library, a community-wide resource derived from hundreds of millions of identified spectra from tens of terabytes of mass spectrometry data.