cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.25678/0002ym
title: Data for: A ribonucleoprotein transfection strategy for CRISPR/Cas9‐mediated gene editing and single cell cloning in rainbow trout cells

description: **Background.** The advent of the CRISPR/Cas9 technology marked the beginning of a new era in the field of molecular biology, allowing the efficient and precise creation of targeted mutations in the genome of every living cell. Since its discovery, different gene editing approaches based on the CRISPR/Cas9 technology have been widely established in mammalian cell lines, while limited knowledge is available on genetic manipulation in fish cell lines. In this work, we developed a strategy to CRISPR/Cas9 gene edit rainbow trout (Oncorhynchus mykiss) cell lines and to generate single cell clone-derived knock-out cell lines, focusing on the phase I biotransformation enzyme encoding gene, *cyp1a1*, and on the intestinal cell line, RTgutGC, as example. **Results.** Ribonucleoprotein (RNP) complexes, consisting of the Cas9 protein and a fluorescently labeled crRNA/tracrRNA duplex targeting the cyp1a1 gene, were delivered via electroporation. A T7 endonuclease I (T7EI) assay was performed on flow cytometry enriched transfected cells in order to detect CRISPR-mediated targeted mutations in the *cyp1a1* locus, revealing an overall gene editing efficiency of 39%. Sanger sequencing coupled with bioinformatics analysis led to the detection of multiple insertions and deletions of variable lengths in the *cyp1a1* region directed by CRISPR/Cas9 machinery. Clonal isolation based on the use of cloning cylinders was applied, allowing to overcome the genetic heterogeneity created by the CRISPR/Cas9 gene editing. Using this method, two monoclonal CRISPR edited rainbow trout cell lines were established for the first time. Sequencing analysis of the mutant clones confirmed the disruption of the *cyp1a1* gene open reading frame through the insertion of 101 or 1 base pair, respectively. **Conclusions.** The designed RNP-based CRISPR/Cas9 approach, starting from overcoming limitations of transfection to achieving a clonal cell line, sets the stage for exploiting permanent gene editing in rainbow trout, and potentially other fish cells, for unprecedented exploration of gene function.
DOI: 10.5281/zenodo.4946419
title: Excel mapping tool for 2021 avian influenza data reporting

description: Data collection is an important task of the European Food Safety Authority (EFSA) and a fundamental component of risk assessment (Articles 22 and 23 of Regulation (EC) No 178/2002). EFSA receives a large volume of data from Member States (MSs) that is used in support of its risk assessment mission. Council Directive 2005/94/EC and Commission Decision 2010/367/EU lay down the guidelines for monitoring and reporting avian influenza surveillance data on poultry and wild birds by European Union (EU) MSs. EFSA has been assigned the task of collating, validating, analysing, and summarising in an annual report the results from the avian influenza surveillance programmes in poultry and wild birds. For the reporting of data, EFSA provides a Data Collection Framework that allows data providers to submit data in eXtensible Markup Language (XML) format through a web interface or a web service. Here, a data model describing the format, and the content requested when submitting data through the DCF, is provided. The data model supports the reporting of laboratory testing results for avian influenza in both wild birds, and poultry. The use of this reporting standard ensures that reported results are comparable between reporting countries. Data reported in this format will be used to generate epidemiological updates on the avian influenza surveillance testing carry out in Europe, and to provide scientific advice to the European Commission.
description: EU; xls; zoonoses_support@efsa.europa.eu
DOI: 10.5281/zenodo.4946418
title: Excel mapping tool for 2021 avian influenza data reporting

description: Data collection is an important task of the European Food Safety Authority (EFSA) and a fundamental component of risk assessment (Articles 22 and 23 of Regulation (EC) No 178/2002). EFSA receives a large volume of data from Member States (MSs) that is used in support of its risk assessment mission. Council Directive 2005/94/EC and Commission Decision 2010/367/EU lay down the guidelines for monitoring and reporting avian influenza surveillance data on poultry and wild birds by European Union (EU) MSs. EFSA has been assigned the task of collating, validating, analysing, and summarising in an annual report the results from the avian influenza surveillance programmes in poultry and wild birds. For the reporting of data, EFSA provides a Data Collection Framework that allows data providers to submit data in eXtensible Markup Language (XML) format through a web interface or a web service. Here, a data model describing the format, and the content requested when submitting data through the DCF, is provided. The data model supports the reporting of laboratory testing results for avian influenza in both wild birds, and poultry. The use of this reporting standard ensures that reported results are comparable between reporting countries. Data reported in this format will be used to generate epidemiological updates on the avian influenza surveillance testing carry out in Europe, and to provide scientific advice to the European Commission.
description: EU; xls; zoonoses_support@efsa.europa.eu
DOI: 10.18739/a2w08wh6n
title: Surface Mass Balance and Snow Depth on Sea Ice Working Group (SUMup) snow density subdataset, Greenland and Antartica, 1950-2018

description: This dataset includes snow density measurements from both hemispheres. This dataset is a community effort to distribute easy to use in-situ data to improve surface mass balance modeling and remote sensing efforts. This dataset is a compilation of work from many individual researchers. When using this dataset please cite both the individual researchers who provided the data as listed in the Citation field as well as this dataset. This dataset includes snow density measurements over both ice sheets, ice caps and snow on sea ice. It excludes seasonal snow on land measurements. The dataset contains over 2,200,000 point measurements of density at different depths. The measurement methods include different sized density cutters (generally from 100 - 1000 cc) used in snow pits, ice core sections, neutron-density methods, X-ray microfocus computer tomography, Gamma-ray attenuation, pycnometers, optical televiewer (OPTV) borehole logging, and Density-and-conductivity mixed permittivity (DECOMP).The majority of the observations (~72%) come from Greenland ice cores or snow pits. Antarctic data comprises ~28% of the snow density subdataset and is predominately from ice cores. The depth of the density measurements are recorded using two different methods, either the top and bottom depth or a midpoint depth. Fields of the data include the date taken, latitude, longitude, start depth, stop depth, midpoint depth, density, error, elevation, method, and associated citation.
DOI: 10.6084/m9.figshare.14780019.v1
title: Read mapping to fungi and trypanosomatids in D. simulans

description: Read mapping to fungi and trypanosomatids in D. simulans
DOI: 10.6084/m9.figshare.14780019.v2
title: Read mapping to fungi and trypanosomatids in D. simulans

description: Read mapping to fungi and trypanosomatids in D. simulans
DOI: 10.6084/m9.figshare.14780073.v1
title: Dissertation data.zip

description: Data used for developing an application that mapped Fowler's code smell to Pylint code smells. Firstly 179 files that contained the Pylint result were used. Those files came from projects that were submitted for Babes-Bolyai University's "Fundamentals of programming" course for the 2019-20202 academic year. Since those file did not contain main refactoring code smell, the application was tested on another set of data. The second set also came from set of projects submitted for Babes-Bolyai University's "Formal Languages and Compilation Techniques" course for the 2019-2020 academic year. For the second set of data access to code was also provided, so it was easier to perform an analysis on the code as well. The problem was that again, not so many refactoring code smell were discovered here, and in order to test the application a bigger project was needed. The third set of date came form the open source project called "TensorFlow" . This is a machine learning platform that runs from start to finish. It features a large, flexible ecosystem of tools, libraries, and community resources that enable academics to push the boundaries of machine learning and developers to quickly build and deploy ML-powered apps. <br><br>All of this data can be found in the file.
DOI: 10.6084/m9.figshare.14780073
title: Dissertation data.zip

description: Data used for developing an application that mapped Fowler's code smell to Pylint code smells. Firstly 179 files that contained the Pylint result were used. Those files came from projects that were submitted for Babes-Bolyai University's "Fundamentals of programming" course for the 2019-20202 academic year. Since those file did not contain main refactoring code smell, the application was tested on another set of data. The second set also came from set of projects submitted for Babes-Bolyai University's "Formal Languages and Compilation Techniques" course for the 2019-2020 academic year. For the second set of data access to code was also provided, so it was easier to perform an analysis on the code as well. The problem was that again, not so many refactoring code smell were discovered here, and in order to test the application a bigger project was needed. The third set of date came form the open source project called "TensorFlow" . This is a machine learning platform that runs from start to finish. It features a large, flexible ecosystem of tools, libraries, and community resources that enable academics to push the boundaries of machine learning and developers to quickly build and deploy ML-powered apps. <br><br>All of this data can be found in the file.
DOI: 10.6073/pasta/8b6842776391091ce4823f0821f8cc0f
title: EMS - Automated High-Frequency Methane Data

description: Automated high-frequency methane (CH4) in ambient air measurements were made at the Harvard Forest (HF) research site since 1992. The proximity and the relative location of the site to numerous industrial/urban areas presents the opportunity to sample air flows that have been influenced by known CH4 sources on a regular and repeatable basis and to characterize the atmospheric chemical signature of the sampling location and assess its sensitivity to both local and regional sources at different time scales.
DOI: 10.48538/lpb-2021-0001
title: Możliwości wykorzystania procesów sukcesyjnych w przebudowie drzewostanów na gruntach porolnych na przykładzie Nadleśnictwa Wielbark 
title: The potential utility of successional processes during timber stand improvement on post-agricultural land in the Wielbark Forest District: a case study
DOI: 10.6084/m9.figshare.14780019.v4
title: Read mapping to fungi and trypanosomatids in D. simulans

description: Read mapping to fungi and trypanosomatids in D. simulans
DOI: 10.6084/m9.figshare.14780019.v3
title: Read mapping to fungi and trypanosomatids in D. simulans

description: Read mapping to fungi and trypanosomatids in D. simulans
DOI: 10.5066/p9paexlb
title: National Assessment of Oil and Gas Project - Paradox Basin (021) Assessment Units

description: The Assessment Unit is the fundamental unit used in the National Assessment Project for the assessment of undiscovered oil and gas resources. The Assessment Unit is defined within the context of the higher-level Total Petroleum System. The Assessment Unit is shown here as a geographic boundary interpreted, defined, and mapped by the geologist responsible for the province and incorporates a set of known or postulated oil and (or) gas accumulations sharing similar geologic, geographic, and temporal properties within the Total Petroleum System, such as source rock, timing, migration pathways, trapping mechanism, and hydrocarbon type. The Assessment Unit boundary is defined geologically as the limits of the geologic elements that define the Assessment Unit, such as limits of reservoir rock, geologic structures, source rock, and seal lithologies. The only exceptions to this are Assessment Units that border the Federal-State water boundary. In these cases, the Federal-State water boundary forms part of the Assessment Unit boundary.
DOI: 10.25345/c5hn8r
title: MassIVE MSV000087618 - TNK1 BioID Proteomics Andersen
title: Qualitative LC MS/MS was performed on 4 uL of each sample, using a nanoAcquity UPLC system (Waters Corp) coupled to a Thermo Orbitrap Fusion Lumos high resolution accurate mass tandem mass spectrometer (Thermo) via a nanoelectrospray ionization source. Briefly, the sample was first trapped on a Symmetry C18 20 mm x 180 um trapping column (5 ul/min at 99.9/0.1 v/v water/acetonitrile), after which the analytical separation was performed using a 1.8 um Acquity HSS T3 C18 75 um x 250 mm column (Waters Corp.) with a 90-min linear gradient of 3 to 30% acetonitrile with 0.1% formic acid at a flow rate of 400 nanoliters/minute (nL/min) with a column temperature of 55C. Data collection on the Fusion Lumos mass spectrometer was performed in a data dependent acquisition (DDA) mode of acquisition with a r=120,000 (@ m/z 200) full MS scan from m/z 375 to 1500 with a target AGC value of 2e5 ions. MS/MS scans were acquired at Rapid scan rate (Ion Trap) with an AGC target of 5e3 ions and a max injection time of 200 ms. The total cycle time for MS and MS/MS scans was 2 sec. A 20 sec dynamic exclusion was employed to increase depth of coverage. The total analysis cycle time for each sample injection was approximately 2 hours.
DOI: 10.15468/b846zp
title: New species of the genera Limentinus Distant, 1917 and Calodia Nielson, 1982 (Hemiptera, Auchenorrhyncha, Cicadellidae, Coelidiinae) from the Makay Massif of Madagascar, with a key to Malagasy species

description: This dataset contains the digitized treatments in Plazi based on the original journal article Gnezdilov, Vladimir M. (2021): New species of the genera Limentinus Distant, 1917 and Calodia Nielson, 1982 (Hemiptera, Auchenorrhyncha, Cicadellidae, Coelidiinae) from the Makay Massif of Madagascar, with a key to Malagasy species. Zoosystema 43 (16): 297-310, DOI: 10.5252/zoosystema2021v43a16
DOI: 10.6084/m9.figshare.14780019
title: Read mapping to fungi and trypanosomatids in D. simulans

description: Read mapping to fungi and trypanosomatids in D. simulans
DOI: 10.5066/p9xcaiws
title: National Assessment of Oil and Gas Project - San Juan Basin Province (022) Quarter-Mile Cells

description: Cell maps for each oil and gas assessment unit were created by the USGS as a method for illustrating the degree of exploration, type of production, and distribution of production in an assessment unit or province. A cell map was not created for the Menefee Coal-Bed Gas (50220381) assessment unit because it was considered a hypothetical assessment unit. The Mesaverde Updip oil had production wells associated with it but resource totals were below the minimum and wasn't quantitatively assessed. Each cell represents a quarter-mile square of the land surface, and the cells are coded to represent whether the wells included within the cell are predominantly oil-producing, gas-producing, both oil and gas-producing, dry, or the type of production of the wells located within the cell is unknown. The well information was initially retrieved from the IHS Energy Group, PI/Dwights PLUS Well Data on CD-ROM, which is a proprietary, commercial database containing information for most oil and gas wells in the U.S. Cells were developed as a graphic solution to overcome the problem of displaying proprietary PI/Dwights PLUS Well Data. No proprietary data are displayed or included in the cell maps. The data from PI/Dwights PLUS Well Data were current as of October 2001 when the cell maps were created in 2002.
DOI: 10.6084/m9.figshare.12547001
title: Dataset. Scale of the Physical Frame of Reference and Self-Transcendence Experience

description: Data and codebook of the paper titled "Beyond the Body/Self-Consciousness Matrix: Scale of the physical frame of reference and self-transcendence experience"- Data et codebook of Study 1- Data et codebook of Study 2<br>- Data et codebook of Study 3<br>
DOI: 10.6084/m9.figshare.12547001.v2
title: Dataset. Scale of the Physical Frame of Reference and Self-Transcendence Experience

description: Data and codebook of the paper titled "Beyond the Body/Self-Consciousness Matrix: Scale of the physical frame of reference and self-transcendence experience"- Data et codebook of Study 1- Data et codebook of Study 2<br>- Data et codebook of Study 3<br>
DOI: 10.6084/m9.figshare.12547001.v1
title: Dataset. Scale of the Physical Frame of Reference and Self-Transcendence Experience

description: Data of the paper titled "Beyond the Body/Self-Consciousness Matrix: Scale of the physical frame of reference and self-transcendence experience"
DOI: 10.6084/m9.figshare.14778726
title: Supplementary Data

description: Supplementary Data
DOI: 10.6084/m9.figshare.14778726.v1
title: Supplementary Data

description: Supplementary Data
DOI: 10.5281/zenodo.4946442
title: مستودع رقمى لجمع اطروحات ماجستير مكتبات عين شمس

description: دراسة عن تصميم برنامج الي لتدريس مقرر الفهرسة علي طلاب مكتبات اطروحه ماجستير عن النظام الالي المتكامل يونيكورن وتطبيقة بمكتبة مبارك العامه دراسة عن دور المؤسسات المعلوماتية في رفع تصنيف الجامعات عالميا ومعرفة معايير العالمية عن تصنيف الجامعات دلراسة عن معوقات تطبيقات الشبكه العنكبوتية في مواقع المكتبات الجامعية دراسة ترصد الانتاج الفكري لاعضاء هيئه التدريس جامعه عين شمس المغطي بقواعد البيانات العالمية جودة خدمات المعلومات دراسة عن استخدام ادوات الاعلام الببليوجرافي العربيه والاجنبية وتطوير خدمات البحث والاسترجاع دراسة دقيقة عن الواقع الفعلي لاجهزة المعلومات بمجلس الشعب والشوري لوضع خطه لاقامه مركز معلومات برلماني دراسة الفهارس المحسبه في مكتبات جامعة عين شمس دور الجوائز العلمية في تميز بحوث اعضاء هيئة التدريس دراسة عن تحكيم مقالات الدوريات المتخصصة ودورة في ضبط جودة المعلومات العلمية دراسة تهدف الي قياس مدي توافر متطلبات تطبيق منهجية سته سيجما علي نظام ابن سينا لادارة الوثائق في المستشفيات والتعرف علي الواقع الفعلي في المستشفي مواقع الصحافه الالكترونية العربية كمصدر للمعلومات السياسية في تشكيل الوعي السياسي المصري دراسة تهدف الي التعريف علي درجة رضا الطلبة عن الدراسة في قسم المكتبات دراسه تقدم مواقع المكتبات الجامعية بالدول العربية منمنظور قياس الويب تقييم اتاحه مواقع الويب للمعاقين بصريا
DOI: 10.6073/pasta/b36bafbfdc1d40efc8f424ca7f8345ac
title: Impacts of Hemlock Woolly Adelgid at the Arnold Arboretum 2004-2007

description: Hemlock Hill at Harvard University's Arnold Arboretum is located in Jamaica Plain and has long been considered a remnant of the forest primeval in the heart of Boston. Eastern hemlocks have dominated the flanks and crest of this hill for centuries, despite experiencing many past disturbances. Following the 1997 snowstorm, the introduced hemlock woolly adelgid (HWA) was discovered on downed branches. Since the discovery of HWA at the Arboretum, an action committee was formed to develop plans for managing Hemlock Hill to meet the new threat. Over 1800 hemlock trees were tagged, measured for diameter, assigned a crown health rating, and mapped with GPS coordinates. Various chemical and biological control treatments were attempted to control the spread of HWA at the arboretum, with mixed success. From 1998 to 2002, 263 trees have died or were removed due to poor health. Of the remaining 1600+ trees, 70% are rated as being in poor condition. Since this is a heavily used portion of the Arboretum, which is part of the Boston Parks Department, the decision has been made to remove many of the dead and dying trees to reduce risks posed to the general public by falling limbs. This unfortunate turn of events provides us with an unusual opportunity to examine the environmental impacts of hemlock death and hemlock removal in an urban environment, including soil nutrient cycling, microclimate changes, and vegetation succession, especially the spread of invasive species. During 2004, six 15 x 15 m plots were fenced off, and baseline data on soil nutrient cycling, microclimate, and vegetation information was collected from each. Analyses of these baseline data are underway. Hemlocks are currently being removed from 4 plots, and 2 will remain untouched as control plots. Slash in the cut plots is either being chipped and left on site or removed so that we can investigate what impact these post-cut inputs have on ecosystem and vegetation trajectories. We will continue with data collection on vegetation and ecosystem parameters following harvesting, especially the spread of invasive plant species. Data from this project will provide a nice comparison to the rural cutting and girdling that is ongoing at HF this winter (see Barker-Plotkin et al. abstract). Simultaneously, we are investigating the resistance of Chinese hemlock (Tsuga chinensis) to HWA. This species, which was planted on Hemlock Hill in 1999, continues to demonstrate resistance to HWA and plantings have begun on some sections of the hill.
DOI: 10.25387/g3.13299485.v1
title: Supplemental Material for Beemelmanns et al., 2021

description: <b>Supplemental Tables S1-S4 were uploaded combined in one datasheet whereas Supplemental Figure S1 was uploaded as an individual file</b>. <b>Table S1</b> contains details about qPCR primers. <b>Table S2</b> contains the complete results of the multivariate statistical approach. <b>Table S3</b> contains the complete results of the univariate statistical approach. <b>Table S4</b> contains the fold-change (FC) ratios of 45 target genes. <b>Figure S1</b> is a clustered and hierarchical ordered heatmap based on relative expression values (log<sub>2 </sub>RQ-values) of 45 target genes.<br>
DOI: 10.6084/m9.figshare.14781276
title: USTRANSCOM 767 Master Spreadsheet - Hangar with Raw Data v2

description: USTRANSCOM Aug 2020 - Commercial Aircraft Cabin Aerosol Dispersion Test - 767 Hangar Master Spreadsheet with raw data
DOI: 10.6084/m9.figshare.14781276.v1
title: USTRANSCOM 767 Master Spreadsheet - Hangar with Raw Data v2

description: USTRANSCOM Aug 2020 - Commercial Aircraft Cabin Aerosol Dispersion Test - 767 Hangar Master Spreadsheet with raw data
DOI: 10.5517/ccdc.csd.cczd8m7
title: CCDC 905529: Experimental Crystal Structure Determination

description: Related Article: Sarita Mishra, Soumik Roy, Rina Ghosh, Diganta Dey, Banasri Hazra|2020|J.Indian Chem.Soc.|97|197|
DOI: 10.5517/ccdc.csd.cczd8l6
title: CCDC 905528: Experimental Crystal Structure Determination

description: Related Article: Sarita Mishra, Soumik Roy, Rina Ghosh, Diganta Dey, Banasri Hazra|2020|J.Indian Chem.Soc.|97|197|
DOI: 10.5517/ccdc.csd.cc20qn7n
title: CCDC 1868811: Experimental Crystal Structure Determination

description: Related Article: Moulika Bhattacharyya, Sundargopal Ghosh|2018|J.Indian Chem.Soc.|95|1481|
DOI: 10.5517/ccdc.csd.cc20qn8p
title: CCDC 1868812: Experimental Crystal Structure Determination

description: Related Article: Moulika Bhattacharyya, Sundargopal Ghosh|2018|J.Indian Chem.Soc.|95|1481|
DOI: 10.5517/ccdc.csd.cc26w27f
title: CCDC 2051804: Experimental Crystal Structure Determination

description: Related Article: Jiang Peng|2021|CSD Communication|||
DOI: 10.5517/ccdc.csd.cc2764f1
title: CCDC 2061482: Experimental Crystal Structure Determination

description: Related Article: Takashi Kurogi, Kazuhiko Takai|2021|CSD Communication|||
DOI: 10.5517/ccdc.csd.cc27662r
title: CCDC 2061533: Experimental Crystal Structure Determination

description: Related Article: Zhen-Long Tu|2021|CSD Communication|||
DOI: 10.5517/ccdc.csd.cc2766d2
title: CCDC 2061543: Experimental Crystal Structure Determination

description: Related Article: Jambu Subramanian|2021|CSD Communication|||
description: Related Article: Subramanian Jambu, Chikkabagilu Nagaraju Shambhavi, Masilamani Jeganmohan|2021|Org.Lett.|23|2964|doi:10.1021/acs.orglett.1c00646