cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.26208/w6e2-qp62
title: Supplementary data, code, and information for ‘Influence of Anthropogenic Climate Change on Planetary Wave Resonance and Extreme Weather Events’ (Nature Scientific Reports, Mann et al. 2017)

description: Persistent episodes of extreme weather in the Northern Hemisphere summer have been shown to be associated with the presence of high-amplitude quasi-stationary atmospheric Rossby waves within a particular wavelength range (zonal wavenumber 6–8). The underlying mechanistic relationship involves the phenomenon of quasi-resonant amplification (QRA) of synoptic-scale waves with that wavenumber range becoming trapped within an effective mid-latitude atmospheric waveguide. Recent work suggests an increase in recent decades in the occurrence of QRA-favorable conditions and associated extreme weather, possibly linked to amplified Arctic warming and thus a climate change influence. Here, we isolate a specific fingerprint in the zonal mean surface temperature profile that is associated with QRA-favorable conditions. State-of-the-art (“CMIP5”) historical climate model simulations subject to anthropogenic forcing display an increase in the projection of this fingerprint that is mirrored in multiple observational surface temperature datasets. Both the models and observations suggest this signal has only recently emerged from the background noise of natural variability.
DOI: 10.6084/m9.figshare.14538072
title: MIDAS velocities in California for Bayesian strain rate inference

description: MIDAS velocity data set used in the study "Bayesian Estimation of Surface Strain Rates from GNSS Measurements: application to the Southwestern US" by Pagani et al. submitted in 2021 to JGR. The velocities are calculated with respect to IGS14 as downloaded from the UNR website on February 2020 (http://geodesy.unr.edu/velocities/midas.IGS14.txt). For more details about the processing of these velocities and original data set, refer to <i>Blewitt, G., C. Kreemer, W.C. Hammond, and J. Gazeaux (2016). MIDAS robust trend estimator for accurate GPS station velocities without step detection, Journal of Geophysical Research, 121, doi:10.1002/2015JB012552</i>
DOI: 10.6084/m9.figshare.14538072.v1
title: Table 1.csv

description: MIDAS velocity data set used in the study "Bayesian Estimation of Surface Strain Rates from GNSS Measurements: application to the Southwestern US" by Pagani et al. submitted in 2021 to JGR. The velocities are calculated with respect to IGS14 as downloaded from the UNR website on February 2020 (http://geodesy.unr.edu/velocities/midas.IGS14.txt). For more details about the processing of these velocities and original data set, refer to <i>Blewitt, G., C. Kreemer, W.C. Hammond, and J. Gazeaux (2016). MIDAS robust trend estimator for accurate GPS station velocities without step detection, Journal of Geophysical Research, 121, doi:10.1002/2015JB012552</i>
DOI: 10.3886/e124923v1-85760
title: Data and code for: Comparing crime rates between undocumented immigrants, legal immigrants, and native-born U.S. citizens in Texas

description: We make use of uniquely comprehensive arrest data from the Texas Department of Public Safety to compare the criminality of undocumented immigrants to legal immigrants and native-born U.S. citizens between 2012 and 2018. We find that undocumented immigrants have substantially lower crime rates than native-born citizens and legal immigrants across a range of felony offenses. Relative to undocumented immigrants, U.S.-borns are over two times more likely arrested for violent crimes, two and half times more likely to be arrested for drug crimes, and over four times more likely to arrested for property crimes. In addition, the proportion of arrests involving undocumented immigrants in Texas was relatively stable or decreasing over this period. The differences between U.S.-born citizens and undocumented immigrants are robust to using alternative estimates of the broader undocumented population, alternate classifications of those counted as “undocumented” at arrest, and substituting misdemeanors or convictions as measures of crime.
DOI: 10.6073/pasta/8e9784131971e6d2271ade3d46ecb44f
title: Depth profiles of water column dissolved methane, density and biomass of zooplankton (specifically, Chaoborus spp.), and measurements of methane extracted from Chaoborus spp. during two sampling campaigns in 2016

description: Depth profiles of water column dissolved methane (CH4), density and biomass of zooplankton (specifically, Chaoborus spp.), and measurements of methane extracted from Chaoborus spp. were collected from Beaverdam Reservoir, Vinton, VA, USA during two, 24-hr intensive sampling campaigns in fall 2016 (3-4 August and 16-17 September). The sampling campaign was designed to test the hypothesis that Chaoborus spp. can transport CH4 from the hypolimnion to the epilimnion of lakes and reservoirs as they migrate to the surface waters from the benthos at night in search of zooplankton prey, and results of the project are published in Carey et al. 2018. During both sampling events, depth profiles of water column methane and Chaoborus spp. density were collected at noon, dusk, midnight, 2 a.m., dawn, and noon the following day at a 1 m resolution. In addition, during the September sampling event depth profiles were collected 1 hour prior to and after dusk. Methane gas was extracted from live Chaoborus individuals at every depth and time point immediately after collection via gentle centrifugation in distilled water following McGinnis et al. 2017. REFERENCES: Carey, C.C., R.P. McClure, J.P. Doubek, M.E. Lofton, N.K. Ward, and D. Scott. 2018. Chaoborus spp. transport CH4 from the sediments to the surface waters of a eutrophic reservoir, but their contribution to water column CH4 concentrations and diffusive efflux is minor. Environmental Science & Technology. 52:1165-1173. DOI 10.1021/acs.est.7b04384 McGinnis, D. F., Flury, S., Tang, K. W., Grossart, H.-P. 2017. Porewater methane transport within the gas vesicles of diurnally migrating Chaoborus spp.: an energetic advantage. Scientific Reports. 7(44478) DOI 10.1038/srep44478
DOI: 10.5281/zenodo.4736103
title: NIR spectra collected along the glue-laminated timber production

description: the raw NIR spectra were collected by means of MicroNIR spectrometer (Viavi) on wooden boards used for the preparation of delamination samples. The reference data were collected with available alternative to NIR methods. All technical details are described in the manuscript "Feasibility of portable NIR spectrometer for quality assurance in glue-laminated timber production"
DOI: 10.5281/zenodo.4736102
title: NIR spectra collected along the glue-laminated timber production

description: the raw NIR spectra were collected by means of MicroNIR spectrometer (Viavi) on wooden boards used for the preparation of delamination samples. The reference data were collected with available alternative to NIR methods. All technical details are described in the manuscript "Feasibility of portable NIR spectrometer for quality assurance in glue-laminated timber production"
DOI: 10.6084/m9.figshare.14538084.v1
title: A System-GMM Approach to Investigating the Agricultural Producer Price – Agricultural Sustainability Nexus towards Sustainable Food Security in Africa

description: This file describe the computational models and their input commands employed to produce required results for this study.
DOI: 10.25345/c56n7k
title: MassIVE MSV000087363 - Automating UbiFast for High-throughput and Multiplexed Ubiquitin Enrichment
title: Rivera KD, Olive ME, Bergstrom EJ, Nelson A, Lee K, Satpathy S, Carr SA, Udeshi ND. 2021. Robust methods for deep-scale enrichment and site-specific identification of ubiquitylation sites is necessary for characterizing the myriad roles of protein ubiquitylation. To this end we previously developed UbiFast, a sensitive method for highly multiplexed ubiquitylation profiling where K-GG peptides are enriched with anti-K-GG antibody and labeled on-antibody with isobaric labeling reagents for sample multiplexing. Here, we present robotic automation of the UbiFast method using a magnetic bead-conjugated K-GG antibody (mK-GG) and a magnetic particle processor. We report the identification of ~20,000 ubiquitylation sites from a TMT10-plex with 500 ug input per sample processed in ~2 hours. Automation of the UbiFast method greatly increased the number of identified and quantified ubiquitylation sites, improved reproducibility and significantly reduced processing time. The workflow enables processing of up to 96 samples in a single day making it suitable to study ubiquitylation in large sample sets. Here we demonstrate the applicability of this method to profile small amounts of tissue using breast cancer patient-derived xenograft (PDX) tissue samples.
DOI: 10.6084/m9.figshare.14538084
title: A System-GMM Approach to Investigating the Agricultural Producer Price – Agricultural Sustainability Nexus towards Sustainable Food Security in Africa

description: File 1 describe the computational models and their input commands employed to produce required results for this study.<br>File 2 is the research data
DOI: 10.6084/m9.figshare.14538084.v3
title: A System-GMM Approach to Investigating the Agricultural Producer Price – Agricultural Sustainability Nexus towards Sustainable Food Security in Africa

description: File 1 describe the computational models and their input commands employed to produce required results for this study.<br>File 2 is the research data
DOI: 10.5281/zenodo.4737778
title: Stress responses in high-fidelity simulation among anesthesiology students: raw database as part of the supplementary material

description: <strong>Stress responses in high-fidelity simulation among anesthesiology students - raw database as part of the supplementary material </strong> <strong>Note: Codebook and list of abbreviations included </strong>
DOI: 10.5281/zenodo.4737777
title: Stress responses in high-fidelity simulation among anesthesiology students: raw database as part of the supplementary material

description: <strong>Stress responses in high-fidelity simulation among anesthesiology students - raw database as part of the supplementary material </strong> <strong>Note: Codebook and list of abbreviations included </strong>
DOI: 10.5281/zenodo.4733248
title: Anentome helena SPAdes preassembly

description: .
DOI: 10.5281/zenodo.4733247
title: Anentome helena SPAdes preassembly

description: .
DOI: 10.5281/zenodo.4732747
title: Supporting Information-2021JD034637R

description: The Supporting Information includes two tables containing details regarding gas concentration (ppmv) and stable C isotope composition of CH<sub>4</sub> and CO<sub>2</sub> (‰, VPDB) in the 4-meter boreholes (Table. S1), and microseepage CH<sub>4</sub> flux data in different seasons (Table. S2). The Supporting Information includes two tables containing details regarding gas concentration (ppmv) and stable C isotope composition of CH<sub>4</sub> and CO<sub>2</sub> (‰, VPDB) in the 4-meter boreholes (Table. S1), and microseepage CH<sub>4</sub> flux data in different seasons (Table. S2).
DOI: 10.5281/zenodo.4732746
title: Supporting Information-2021JD034637R

description: The Supporting Information includes two tables containing details regarding gas concentration (ppmv) and stable C isotope composition of CH<sub>4</sub> and CO<sub>2</sub> (‰, VPDB) in the 4-meter boreholes (Table. S1), and microseepage CH<sub>4</sub> flux data in different seasons (Table. S2). The Supporting Information includes two tables containing details regarding gas concentration (ppmv) and stable C isotope composition of CH<sub>4</sub> and CO<sub>2</sub> (‰, VPDB) in the 4-meter boreholes (Table. S1), and microseepage CH<sub>4</sub> flux data in different seasons (Table. S2).
DOI: 10.5281/zenodo.4732304
title: Sample dataset for running network meta-analysis

description: File contains data from a simulated dataset for treatment of acute pain
DOI: 10.5281/zenodo.4732303
title: Sample dataset for running network meta-analysis

description: File contains data from a simulated dataset for treatment of acute pain
DOI: 10.6084/m9.figshare.14538111
title: Orthoptic examination vs standard diplopia testing in patients with orbital floor blowour fracture

description: Two methods for diagnosing ocular motility disorder (the traditional test for binocular diplopia using a moving pencil or finger and the full orthoptic examination) were compared in patients with orbital floor blowout fracture. This dataset describes the results of individual tests.<br>
DOI: 10.5517/ccdc.csd.cc1pfvxw
title: CCDC 1562459: Experimental Crystal Structure Determination

description: Related Article: Somasundaram Sangeetha, Tamilarasan Ajaykamal, Mariappan Murali|2021|New J.Chem.|45|7578|doi:10.1039/D1NJ00392E
DOI: 10.5517/ccdc.csd.cc23g3yn
title: CCDC 1949991: Experimental Crystal Structure Determination

description: Related Article: Zahra A. Tabasi, Joshua C. Walsh, Graham J. Bodwell, David W. Thompson, Yuming Zhao|2021|New J.Chem.|45|7647|doi:10.1039/D1NJ01102B
DOI: 10.5517/ccdc.csd.cc246wx5
title: CCDC 1972837: Experimental Crystal Structure Determination

description: Related Article: Zahra A. Tabasi, Joshua C. Walsh, Graham J. Bodwell, David W. Thompson, Yuming Zhao|2021|New J.Chem.|45|7647|doi:10.1039/D1NJ01102B
DOI: 10.5517/ccdc.csd.cc246x8k
title: CCDC 1972848: Experimental Crystal Structure Determination

description: Related Article: Zahra A. Tabasi, Joshua C. Walsh, Graham J. Bodwell, David W. Thompson, Yuming Zhao|2021|New J.Chem.|45|7647|doi:10.1039/D1NJ01102B
DOI: 10.5517/ccdc.csd.cc26gss8
title: CCDC 2040010: Experimental Crystal Structure Determination

description: Related Article: Simone M. Gillbard, Harley Green, Stephen P. Argent, Hon Wai Lam|2021|Chem.Commun.|57|4436|doi:10.1039/D1CC01166A
DOI: 10.5517/ccdc.csd.cc26gst9
title: CCDC 2040011: Experimental Crystal Structure Determination

description: Related Article: Simone M. Gillbard, Harley Green, Stephen P. Argent, Hon Wai Lam|2021|Chem.Commun.|57|4436|doi:10.1039/D1CC01166A
DOI: 10.5517/ccdc.csd.cc26gsvb
title: CCDC 2040012: Experimental Crystal Structure Determination

description: Related Article: Simone M. Gillbard, Harley Green, Stephen P. Argent, Hon Wai Lam|2021|Chem.Commun.|57|4436|doi:10.1039/D1CC01166A
DOI: 10.5517/ccdc.csd.cc26gswc
title: CCDC 2040013: Experimental Crystal Structure Determination

description: Related Article: Simone M. Gillbard, Harley Green, Stephen P. Argent, Hon Wai Lam|2021|Chem.Commun.|57|4436|doi:10.1039/D1CC01166A
DOI: 10.5517/ccdc.csd.cc257c60
title: CCDC 2003071: Experimental Crystal Structure Determination

description: Related Article: Jun-An Xiao, Jin-Lian Li, Xiu-Liang Cheng, Kai Chen, Hai Peng, Wen-Qiang Chen, Wei Su, Yan-Min Huang, Hua Yang|2021|Chem.Commun.|57|4456|doi:10.1039/D0CC07957J
description: Related Article: cheng xiu|2020|CSD Communication|||
DOI: 10.5517/ccdc.csd.cc25d6c5
title: CCDC 2007726: Experimental Crystal Structure Determination

description: Related Article: Jun-An Xiao, Jin-Lian Li, Xiu-Liang Cheng, Kai Chen, Hai Peng, Wen-Qiang Chen, Wei Su, Yan-Min Huang, Hua Yang|2021|Chem.Commun.|57|4456|doi:10.1039/D0CC07957J
DOI: 10.5517/ccdc.csd.cc25d5xp
title: CCDC 2007712: Experimental Crystal Structure Determination

description: Related Article: Jun-An Xiao, Jin-Lian Li, Xiu-Liang Cheng, Kai Chen, Hai Peng, Wen-Qiang Chen, Wei Su, Yan-Min Huang, Hua Yang|2021|Chem.Commun.|57|4456|doi:10.1039/D0CC07957J
DOI: 10.5517/ccdc.csd.cc26kr8t
title: CCDC 2042846: Experimental Crystal Structure Determination

description: Related Article: Júlia Scaff Moreira Dias, Felipe Terra Martins, João Honorato de Araújo Neto, Eduardo Ernesto Castellano, Rommel Bezerra Viana, Jéssica da Silva Teixeira, Elisalva Teixeira Guimarães, Milena Botelho Pereira Soares, Marília Imaculada Frazão Barbosa, Antônio Carlos Doriguetto|2021|New J.Chem.|45|7501|doi:10.1039/D0NJ06159J
DOI: 10.5517/ccdc.csd.cc26kr9v
title: CCDC 2042847: Experimental Crystal Structure Determination

description: Related Article: Júlia Scaff Moreira Dias, Felipe Terra Martins, João Honorato de Araújo Neto, Eduardo Ernesto Castellano, Rommel Bezerra Viana, Jéssica da Silva Teixeira, Elisalva Teixeira Guimarães, Milena Botelho Pereira Soares, Marília Imaculada Frazão Barbosa, Antônio Carlos Doriguetto|2021|New J.Chem.|45|7501|doi:10.1039/D0NJ06159J
DOI: 10.5517/ccdc.csd.cc26krbw
title: CCDC 2042848: Experimental Crystal Structure Determination

description: Related Article: Júlia Scaff Moreira Dias, Felipe Terra Martins, João Honorato de Araújo Neto, Eduardo Ernesto Castellano, Rommel Bezerra Viana, Jéssica da Silva Teixeira, Elisalva Teixeira Guimarães, Milena Botelho Pereira Soares, Marília Imaculada Frazão Barbosa, Antônio Carlos Doriguetto|2021|New J.Chem.|45|7501|doi:10.1039/D0NJ06159J
DOI: 10.5517/ccdc.csd.cc26krcx
title: CCDC 2042849: Experimental Crystal Structure Determination

description: Related Article: Júlia Scaff Moreira Dias, Felipe Terra Martins, João Honorato de Araújo Neto, Eduardo Ernesto Castellano, Rommel Bezerra Viana, Jéssica da Silva Teixeira, Elisalva Teixeira Guimarães, Milena Botelho Pereira Soares, Marília Imaculada Frazão Barbosa, Antônio Carlos Doriguetto|2021|New J.Chem.|45|7501|doi:10.1039/D0NJ06159J
DOI: 10.5517/ccdc.csd.cc270shk
title: CCDC 2056338: Experimental Crystal Structure Determination

description: Related Article: Rahul Kumar, Deepa Rawat, Rashmi Semwal, Gaurav Badhani, Subbarayappa Adimurthy|2021|New J.Chem.|45|7491|doi:10.1039/D1NJ00657F
DOI: 10.5517/ccdc.csd.cc270vmr
title: CCDC 2056404: Experimental Crystal Structure Determination

description: Related Article: F. Knoch, D. Sellmann, C. Allmann|2021|CSD Communication|||
DOI: 10.5517/ccdc.csd.cc271nqp
title: CCDC 2057182: Experimental Crystal Structure Determination

description: Related Article: Misbha Rafiq Khan, Xiaoge Niu, Tianling Chen, Yan Liu, Zhongyi Liu, Bin Liu, Yuxia Zhang, Jinpeng Li|2021|CrystEngComm|23|3185|doi:10.1039/D1CE00189B
DOI: 10.5517/ccdc.csd.cc271nrq
title: CCDC 2057183: Experimental Crystal Structure Determination

description: Related Article: Misbha Rafiq Khan, Xiaoge Niu, Tianling Chen, Yan Liu, Zhongyi Liu, Bin Liu, Yuxia Zhang, Jinpeng Li|2021|CrystEngComm|23|3185|doi:10.1039/D1CE00189B
DOI: 10.3886/e119446v87
title: COVID-19 US State Policy Database

description: For questions or comments about the database please contact:<br>Alexandra Skinner <br>skinnera@bu.edu <br>Research Fellow & Database Manager<br>Department of Health Law, Policy & Management <br>Boston University School of Public Health<br><br>Database of state policies on closures, shelter-in-place orders, housing protections, changes to Medicaid and SNAP, physical distancing closures, reopening, and more created by researchers at the Boston University School of Public Health. Policies included are state-wide directives or mandates, not guidance or recommendations. In order for a policy to be included, it must apply to the entire state. We are working quickly to go through state government websites to make the policy database as complete and accurate as possible in a rapidly changing policy context. If you use data on a given policy, we encourage you to triangulate based on additional sources of policy data and to review the source documentation to consider the coding decisions that are right for your work. Of course, please email us if you note a discrepancy so we can improve the database for everyone. State policy source documentation can be found at: tinyurl.com/statepolicysources.
description: State policies. Smallest Geographic Unit: State
description: other; Contributors: Megan Cole Brahim, Noa Krawczyk, Carolyn Hoffman, Claire Corkish, Elizabeth Ferrara, Elizabeth Long, Emily Baroni, Faith Contador, Hannah Simon, Morgan Simko, Rachel Scheckman, Sarah Brewer, Sue Kulkarni, Felicia Heykoop, Manish Patel, Aishwarya Vidyasagaran, Andrew Chiao, Cara Safon, Samantha Burkhart, Harry Jung, Victor Lee, Marina MacKinnon, Aarohi Rede, Marie Vearling, Sophie Li, Christina Wang, Tim Levengood, María Jordán P. Emma Chistolini
DOI: 10.5281/zenodo.4633888
title: Distal nucleotides affect the rate of stop codon read-through

description: A key step in gene expression is the recognition of the stop codon to terminate translation at the correct position. However, it has been observed that ribosomes can misintrepret the stop codon and continue the translation in the 3' UTR region, which is called stop codon read-through (SCR). It has been suggested that these events would occur on a programmed basis, but the underlying mechanisms are still not well understood. Here, we present a strategy for the comprehensive identification of SCR events in the D. melanogaster transcriptome by evaluating the ribosomal density profiles. For each identified event, the associated ribosomal leak rate was estimated. With the sequences associated to SCR events, we performed a statistical characterization of the frequency of nucleotide use in the proximal region to the stop codon. We observed that the nucleotide usage pattern in transcripts with the TGA codon is different from the pattern in those transcripts ending in the TAA codon, suggesting the existence of at least two mechanisms that could alter the translational termination process. We have even observed that distal nucleotides can also affect the SCR rate. Furthermore, we developed linear regression models for each of the three stop codons, and we show that the models using the nucleotides at informative positions outperforms those models that consider the entire sequence context to the stop codon.
description: These files are anonymous to protect authors identity during peer review. After the end of the review process the names will be released.
DOI: 10.5281/zenodo.4633887
title: Distal nucleotides affect the rate of stop codon read-through

description: A key step in gene expression is the recognition of the stop codon to terminate translation at the correct position. However, it has been observed that ribosomes can misintrepret the stop codon and continue the translation in the 3' UTR region, which is called stop codon read-through (SCR). It has been suggested that these events would occur on a programmed basis, but the underlying mechanisms are still not well understood. Here, we present a strategy for the comprehensive identification of SCR events in the D. melanogaster transcriptome by evaluating the ribosomal density profiles. For each identified event, the associated ribosomal leak rate was estimated. With the sequences associated to SCR events, we performed a statistical characterization of the frequency of nucleotide use in the proximal region to the stop codon. We observed that the nucleotide usage pattern in transcripts with the TGA codon is different from the pattern in those transcripts ending in the TAA codon, suggesting the existence of at least two mechanisms that could alter the translational termination process. We have even observed that distal nucleotides can also affect the SCR rate. Furthermore, we developed linear regression models for each of the three stop codons, and we show that the models using the nucleotides at informative positions outperforms those models that consider the entire sequence context to the stop codon.
description: These files are anonymous to protect authors identity during peer review. After the end of the review process the names will be released.
DOI: 10.5281/zenodo.4737748
title: DeepCrime mutations for MNIST

description: This is the dataset of mutations generated for MNIST digit classifier by DeepCrime mutation testing tool as part of the "DeepCrime: Mutation Testing of Deep Learning Systems based on Real Faults" paper published at ACM SIGSOFT International Symposium on Software Testing and Analysis (ISSTA) 2021. The second part of this dataset is stored under DOI 10.5281/zenodo.4737754.