cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.7078480
title: Supplementary data for article "Reduced B-cell antigenicity of Omicron lowers host serologic response"

description: This repository contains five supplementary data files for the research article "<strong>Reduced B-cell antigenicity of Omicron lowers host serologic response</strong>". For more information, please refer to the article preprint https://doi.org/10.1101/2022.02.15.480546 and upcoming article at Cell Reports. <strong>Table_hCoV229E.xlsx:</strong> list of hCoV229E RBD sequences, with associated isolate and collection date identifiers, and ScanNet antigenicity score for reproducing <strong>Figure 3A</strong>. Aligned sequences and templates are also provided. <strong>table_artificial_variants.csv</strong>: List of artificial RBD sequences generated by an evolutionary-based sequence generative model for reproducing <strong>Figure 3B</strong>, <strong>Supplementary Figure S6H</strong>. <strong>MSA_RBD.fasta:</strong> Multiple Sequence Alignment of RBD sequences and sample weights used for training the sequence generative model used in <strong>Figure 3B</strong>, <strong>Supplementary Figures S2C, S6</strong>. <strong>table_antibody_hit_rate_RBD.csv</strong>: Empirical epitope distribution for the RBD, as determined from the Protein Data Bank and raw data for <strong>Supplementary Figure S1</strong>). <strong>RBD_virtual_DMS.xlsx</strong>: virtual Deep Mutational Scan performed with ScanNet and the sequence generative model shown in <strong>Supplementary Figure S2</strong>.
DOI: 10.15472/objjh9
title: Aves de los Ecoparques de Manizales, Departamento de Caldas, Andes Centrales de Colombia

description: Los Andes de Colombia son quizás una de las regiones naturales más transformadas por la expansión de la frontera agrícola y por contener los mayores asentamientos humanos del país (Myers et al. 2000; Armenteras et al. 2003, 2011). Paralelamente, esta región se caracteriza por sus altos niveles de endemismo y por ser un área priorizada para conservación dadas las situaciones antes mencionadas (Myers et al., 2000).
description: En los Andes Centrales de Colombia, el municipio de Manizales se encuentra en una zona clave que comprende diversos tipos de ecosistemas y selvas subandinas, andinas y vegetación de páramo (Walker, 1996). La zona urbana y periurbana de Manizales cuenta con fragmentos de bosques andinos y subandinos de interés ambiental, algunos de los cuales están protegidos bajo la figura de Ecoparques (Giraldo-Ospina & Vásquez-Varela 2021). La Red de Ecoparques, creada en el año 2005 con el objetivo de formar un complejo de parques urbanos y periurbanos, está conformada por el Ecoparque Los Yarumos (EPLY), Ecoparque Los Alcázares (EPLA), Bosque Popular El Prado (BP), Ecoparque Monteleón (ML), Jardín Botánico de la Universidad de Caldas (JB) entre otros ecoparques (Instituto de Cultura y Turismo de Manizales, 2020; Giraldo-Ospina & Vásquez-Varela 2021). Estas áreas son importantes para el mantenimiento de las funciones ecológicas de la región y representan, a su vez, sitios que brindan servicios ecosistémicos a la comunidad de Manizales y sus alrededores.
description: En el caso particular de las aves, las publicaciones que se han realizado para reportar su diversidad han descrito para EPLA: 144 especies (Cardona 1998; Velherst 2001; Botero et al 2005; Restrepo-Cardona 2015), Para JB 84: especies (Walker1993, Velherst 2001), Para EPLY: 33 especies ( Velherst 2001). Para ML 49 especies (Uribe 1987; Gonzales 1993; Velherst 2001), y para BP: 3 especies (Restrepo-Cardona 2015). Gracias a los especímenes depositados en el MHN-UCa y la recolección de datos en campo se obtuvieron 50 nuevos registros para EPLA, 78 para EPLY, 57 para ML y 83 para JB. En total presentamos el registro de 195 especies agrupadas en 151 géneros, 45 familias y 20 órdenes.
description: Dentro de los registros en la literatura no fueron incorporadas 53 especies registradas anteriormente en EPLA (Cardona 1998; Velherst 2001; Botero et al 2005; Restrepo-Cardona 2005), 19 en JB (Walker1993, Velherst 2001), 6 en EPLY ( Velherst 2001), 24 en ML (Uribe 1987; Gonzales 1993; Velherst 2001) y 2 en BP (Restrepo-Cardona, 2015) dado que no pudimos confirmar su presencia aunque su distribución potencial coincide con las zonas donde fueron registrados.
description: Tampoco incorporamos 8 especies registradas anteriormente en EPLA (Cardona 1998; Velherst 2001; Botero et al 2005; Restrepo-Cardona 2005), 7 en JB (Walker1993, Velherst 2001) y 1 en ML (Uribe 1987; Gonzales 1993) porque aparentemente pueden ser errores y su presencia necesita ser confirmada.
DOI: 10.13020/m2ag-4t93
title: Data for Simulations of sphere-forming diblock copolymer melts

description: Processed simulation data appearing in the related manuscript.
description: These files contain data for molecular dynamics simulations on asymmetric diblock polymer chains. Each of the chains are 64 beads long. The time step used for the simulation is 0.005 in natural simulation units. Each configuration is sampled after 1000 timesteps.
DOI: 10.5517/ccdc.csd.cc2bs5dq
title: CCDC 2168183: Experimental Crystal Structure Determination

description: Related Article: Yongshen Zheng, Xiao Han, Puxin Cheng, Xiaodi Jia, Jialiang Xu, Xian-He Bu|2022|J.Am.Chem.Soc.|144|16471|doi:10.1021/jacs.2c05063
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc292j64
title: CCDC 2117585: Experimental Crystal Structure Determination

description: Related Article: Yongshen Zheng, Xiao Han, Puxin Cheng, Xiaodi Jia, Jialiang Xu, Xian-He Bu|2022|J.Am.Chem.Soc.|144|16471|doi:10.1021/jacs.2c05063
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2bs5gs
title: CCDC 2168185: Experimental Crystal Structure Determination

description: Related Article: Yongshen Zheng, Xiao Han, Puxin Cheng, Xiaodi Jia, Jialiang Xu, Xian-He Bu|2022|J.Am.Chem.Soc.|144|16471|doi:10.1021/jacs.2c05063
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2bs5ht
title: CCDC 2168186: Experimental Crystal Structure Determination

description: Related Article: Yongshen Zheng, Xiao Han, Puxin Cheng, Xiaodi Jia, Jialiang Xu, Xian-He Bu|2022|J.Am.Chem.Soc.|144|16471|doi:10.1021/jacs.2c05063
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2c3t1c
title: CCDC 2178402: Experimental Crystal Structure Determination

description: Related Article: Alexey N. Bilyachenko, Evgenii I. Gutsul, Victor N. Khrustalev, Grigorii S. Astakhov, Anna Y. Zueva, Yan V. Zubavichus, Marina V. Kirillova, Lidia S. Shul’pina, Nikolay S. Ikonnikov, Pavel V. Dorovatovskii, Elena S. Shubina, Alexander M. Kirillov, Georgiy B. Shul’pin|2022|Inorg.Chem.|61|14800|doi:10.1021/acs.inorgchem.2c02217
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2c3t2d
title: CCDC 2178403: Experimental Crystal Structure Determination

description: Related Article: Alexey N. Bilyachenko, Evgenii I. Gutsul, Victor N. Khrustalev, Grigorii S. Astakhov, Anna Y. Zueva, Yan V. Zubavichus, Marina V. Kirillova, Lidia S. Shul’pina, Nikolay S. Ikonnikov, Pavel V. Dorovatovskii, Elena S. Shubina, Alexander M. Kirillov, Georgiy B. Shul’pin|2022|Inorg.Chem.|61|14800|doi:10.1021/acs.inorgchem.2c02217
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2c6h8c
title: CCDC 2180982: Experimental Crystal Structure Determination

description: Related Article: Dongwon Kim, Jihun Han, Ok-Sang Jung, Young-A. Lee|2022|RSC Advances|12|25118|doi:10.1039/D2RA04270C
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2chn3n
title: CCDC 2189781: Experimental Crystal Structure Determination

description: Related Article: Alexey N. Bilyachenko, Evgenii I. Gutsul, Victor N. Khrustalev, Grigorii S. Astakhov, Anna Y. Zueva, Yan V. Zubavichus, Marina V. Kirillova, Lidia S. Shul’pina, Nikolay S. Ikonnikov, Pavel V. Dorovatovskii, Elena S. Shubina, Alexander M. Kirillov, Georgiy B. Shul’pin|2022|Inorg.Chem.|61|14800|doi:10.1021/acs.inorgchem.2c02217
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2cj3pq
title: CCDC 2190233: Experimental Crystal Structure Determination

description: Related Article: Yongshen Zheng, Xiao Han, Puxin Cheng, Xiaodi Jia, Jialiang Xu, Xian-He Bu|2022|J.Am.Chem.Soc.|144|16471|doi:10.1021/jacs.2c05063
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2cj3qr
title: CCDC 2190234: Experimental Crystal Structure Determination

description: Related Article: Yongshen Zheng, Xiao Han, Puxin Cheng, Xiaodi Jia, Jialiang Xu, Xian-He Bu|2022|J.Am.Chem.Soc.|144|16471|doi:10.1021/jacs.2c05063
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2c6h9d
title: CCDC 2180983: Experimental Crystal Structure Determination

description: Related Article: Dongwon Kim, Jihun Han, Ok-Sang Jung, Young-A. Lee|2022|RSC Advances|12|25118|doi:10.1039/D2RA04270C
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.6084/m9.figshare.20495118
title: Association between statins’ exposure with incidence and prognosis of gastric cancer: an updated meta‐analysis

description: Previous research has revealed the role of statins in cancer prevention and treatment. This study aimed to determine the relationship between statins’ exposure and the incidence and prognosis of gastric cancer (GC). Relevant articles until January 2022 were systematically searched in PubMed, EBSCO, Web of Science, and Cochrane Library databases for comparison in GC with or without statins’ exposure. The primary referred outcomes were the occurrence of GC and the survival rate. A total of 19 articles were included in this meta-analysis. The analysis showed that statins were associated with reduced GC incidence and increased GC survival rate. Subgroup analysis suggested a decreased incidence of GC in both Eastern and Western countries exposed to statins. Furthermore, the risk of GC was reduced in those exposed to lipophilic statins, yet not in those exposed to hydrophilic statins. Statins were found to help lower the incidence and improve the survival rate of GC. Furthermore, the incidence of GC was influenced by the population’s origin region and the type of statins used.
DOI: 10.6084/m9.figshare.20495118.v1
title: Association between statins’ exposure with incidence and prognosis of gastric cancer: an updated meta‐analysis

description: Previous research has revealed the role of statins in cancer prevention and treatment. This study aimed to determine the relationship between statins’ exposure and the incidence and prognosis of gastric cancer (GC). Relevant articles until January 2022 were systematically searched in PubMed, EBSCO, Web of Science, and Cochrane Library databases for comparison in GC with or without statins’ exposure. The primary referred outcomes were the occurrence of GC and the survival rate. A total of 19 articles were included in this meta-analysis. The analysis showed that statins were associated with reduced GC incidence and increased GC survival rate. Subgroup analysis suggested a decreased incidence of GC in both Eastern and Western countries exposed to statins. Furthermore, the risk of GC was reduced in those exposed to lipophilic statins, yet not in those exposed to hydrophilic statins. Statins were found to help lower the incidence and improve the survival rate of GC. Furthermore, the incidence of GC was influenced by the population’s origin region and the type of statins used.
DOI: 10.5281/zenodo.7098261
title: Foraminiferal insights into the complexities of the turbidity currents triggered by the 2016 Kaikoura Earthquake, New Zealand, Supplementary Appendices

description: This data set and cluster analysis dendrogram support the published article. Supplementary Appendix 1. Measured foraminiferal data for 2016 Kaikōura turbidite and pre-turbidite samples. Supplementary Appendix 2. Cluster analysis dendrogram of foraminiferal samples based on the relative abundance of tests &gt;125 µm of the key benthic “genera” (Table 2) using Bray Curtis similarity coefficient.
DOI: 10.5281/zenodo.7098260
title: Foraminiferal insights into the complexities of the turbidity currents triggered by the 2016 Kaikoura Earthquake, New Zealand, Supplementary Appendices

description: This data set and cluster analysis dendrogram support the published article. Supplementary Appendix 1. Measured foraminiferal data for 2016 Kaikōura turbidite and pre-turbidite samples. Supplementary Appendix 2. Cluster analysis dendrogram of foraminiferal samples based on the relative abundance of tests &gt;125 µm of the key benthic “genera” (Table 2) using Bray Curtis similarity coefficient.
DOI: 10.6084/m9.figshare.21171619
title: 33 years of ice phenology data for 74 lakes in midwestern and northeastern US

description: These ice phenology data were assembled from the National Snow and Ice Data Center (NSIDC) Lake and River Ice Phenology Analysis Group (LIAG) and the Minnesota Department of Natural Resources. Data were updated to 2018-2019 by contacting data contributors (Wisconsin State Climatology Office, North Temperate Lakes Long Term Ecological Research, Dale Robertson, John Magnuson, Greg Sass, Lolita Olson, Kevin Rose, Brendan Wiltse, Kiyoko Yokota, Holly Waterfield, Lars Rudstam, Steve Hamilton, Ken Blumenfeld and Pete Boulay). The data were analysed as part of a study entitled "Projecting climate change impacts on ice phenology across midwestern and northeastern United States lakes". These datasets include 33 years of ice-off dates for 74 lakes, and 31 years of ice-on dates for 73 of these lakes.
DOI: 10.6084/m9.figshare.21171619.v1
title: 33 years of ice phenology data for 74 lakes in midwestern and northeastern US

description: These ice phenology data were assembled from the National Snow and Ice Data Center (NSIDC) Lake and River Ice Phenology Analysis Group (LIAG) and the Minnesota Department of Natural Resources. Data were updated to 2018-2019 by contacting data contributors (Wisconsin State Climatology Office, North Temperate Lakes Long Term Ecological Research, Dale Robertson, John Magnuson, Greg Sass, Lolita Olson, Kevin Rose, Brendan Wiltse, Kiyoko Yokota, Holly Waterfield, Lars Rudstam, Steve Hamilton, Ken Blumenfeld and Pete Boulay). The data were analysed as part of a study entitled "Projecting climate change impacts on ice phenology across midwestern and northeastern United States lakes". These datasets include 33 years of ice-off dates for 74 lakes, and 31 years of ice-on dates for 73 of these lakes.
DOI: 10.6084/m9.figshare.21171853
title: DATA SET.docx

description: Tabla 1 se refiere a la recogida de datos acerca de los objetivos, las preguntas de investigación y la manera de recoger los datos
DOI: 10.6084/m9.figshare.21171853.v1
title: DATA SET.docx

description: Tabla 1 se refiere a la recogida de datos acerca de los objetivos, las preguntas de investigación y la manera de recoger los datos
DOI: 10.6084/m9.figshare.21171895
title: DATA SET.xlsx

description: Data and result of analysis
DOI: 10.6084/m9.figshare.21171895.v1
title: DATA SET.xlsx

description: Data and result of analysis
DOI: 10.6084/m9.figshare.21171886.v1
title: Effects of vessel traffic and ocean noise on gray whale stress hormones

description: dataset.csv: Contains all gray whale, acoustic, and vessel data <br> noisevessels.csv: Contains acoustic, vessel, and wind data
DOI: 10.6084/m9.figshare.21171919
title: pleurobrachia_bachei_zanfona_1.fasta.gz

description: .......
DOI: 10.6084/m9.figshare.21171919.v1
title: pleurobrachia_bachei_zanfona_1.fasta.gz

description: .......
DOI: 10.6084/m9.figshare.21127777.v3
title: metadata.lachancea

description: sasdaD
DOI: 10.6084/m9.figshare.21127777.v2
title: metadataset

description: sasdaD
DOI: 10.17632/cyp2x8cthd.1
title: Compartmentalization of casein kinase 1 γ CSNK1G controls the intracellular trafficking of ceramide. Goto et al.

description: Raw data
DOI: 10.5281/zenodo.7097011
title: An ensemble of 48 physically perturbed model estimates of the 1/8° terrestrial water budget over the conterminous United States, 1980–2015

description: This dataset contains the 1980–2015 monthly terrestrial water budget simulated by a 48-member perturbed-physics ensemble configured from the Noah LSM with multi-physics options (Noah‑MP v3.6). Simulation outputs include total evapotranspiration and its constituents (canopy evaporation, soil evaporation, and transpiration), runoff (the surface and subsurface components), as well as terrestrial water storage (snow water equivalent, four-layer soil water content from the surface down to 2 m, and the groundwater storage anomaly). The file name has four parts: the abbreviation for "terrestrial water budget", the used parameterization, the time scale, and the suffix. The 48 physics configurations are generated by combining four runoff parameterizations (run1: SIMGM, run2: SIMTOP, run3: NOAHR, run4: BATS), two parameterizations of stomatal conductance (can1: Ball–Berry, can2: Jarvis), three parameterizations of soil moisture stress factor (btr1:NOAHB, btr2: CLM, btr3: SSiB), and two parameterizations of near-surface atmospheric turbulence (tub1: M-O, tub2: Chen97). The simulation domain covers the all of conterminous United States (25°–53°N, 125°–67°W), which is also called the NLDAS-2 testbed (Xia et al., 2012a, b). The simulations were performed at a spatial resolution of 0.125°, which is the same as for NLDAS-2 models. Details of the simulation settings and spin-up run can be found in Section 2.3 of Zheng et al. (2019) and Section 2.2 of Fei et al. (2021).
DOI: 10.5281/zenodo.7097010
title: An ensemble of 48 physically perturbed model estimates of the 1/8° terrestrial water budget over the conterminous United States, 1980–2015

description: This dataset contains the 1980–2015 monthly terrestrial water budget simulated by a 48-member perturbed-physics ensemble configured from the Noah LSM with multi-physics options (Noah‑MP v3.6). Simulation outputs include total evapotranspiration and its constituents (canopy evaporation, soil evaporation, and transpiration), runoff (the surface and subsurface components), as well as terrestrial water storage (snow water equivalent, four-layer soil water content from the surface down to 2 m, and the groundwater storage anomaly). The file name has four parts: the abbreviation for "terrestrial water budget", the used parameterization, the time scale, and the suffix. The 48 physics configurations are generated by combining four runoff parameterizations (run1: SIMGM, run2: SIMTOP, run3: NOAHR, run4: BATS), two parameterizations of stomatal conductance (can1: Ball–Berry, can2: Jarvis), three parameterizations of soil moisture stress factor (btr1:NOAHB, btr2: CLM, btr3: SSiB), and two parameterizations of near-surface atmospheric turbulence (tub1: M-O, tub2: Chen97). The simulation domain covers the all of conterminous United States (25°–53°N, 125°–67°W), which is also called the NLDAS-2 testbed (Xia et al., 2012a, b). The simulations were performed at a spatial resolution of 0.125°, which is the same as for NLDAS-2 models. Details of the simulation settings and spin-up run can be found in Section 2.3 of Zheng et al. (2019) and Section 2.2 of Fei et al. (2021).
DOI: 10.17632/3d5c82sb48.1
title: Supplementary Material

description: Supplementary Material
DOI: 10.5281/zenodo.7098322
title: MIROC4-ACTM: Model setup, input and output data for CH4 LETKF (Bisht et al., GMD-D, 2022)

description: Details in : Bisht, J. S. H., Patra, P. K., Takigawa, M., Sekiya, T., Kanaya, Y., Saitoh, N., and Miyazaki, K.: Estimation of CH<sub>4</sub> emission based on advanced 4D-LETKF assimilation system, EGUsphere [preprint], https://doi.org/10.5194/egusphere-2022-719, 2022.