cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.10680486
title: Comprehensive well-log and geochemical data set of the Espirito Santo Basin, SE Brazil.

description: Dataset compiled and used by Bione et al. (2024).

Description: 

DT - Sonic Transit Time (μs/ft)CALI - Caliper (in)RESD - Deep Resistivity (ohm/m)RHOB - Density (g/cm3)GR - Gamma Ray (gAPI)SP - Spontaneous Potential (mV)DEPT - Measured depth (m)TOC - Measured total organic carbon (wt%)S1 - Rock Eval S1 peak.S2 - Rock Eval S2 peak.S3 - Rock Eval S3 peak.Tmax - Rock Eval maximum temperature (°C).WELL - Label-encoded well ID.NPHI - Neutron porosity (%).PEF - Photoeletric factor (b/e).LAT - Latitude (decimal degrees).LON - Longitude (decimal degrees).Location - Well basin location. 0 = onshore; 1 = offshore.

 

Reference: BIONE F.R.A. et al. Estimating total organic carbon of potential source rocks in the Espírito Santo Basin, SE Brazil, using XGBoost. Marine and Petroleum Geology, v. 162, 106765, 2024. https://doi.org/10.1016/j.marpetgeo.2024.106765
DOI: 10.5517/ccdc.csd.cc2f0vv5
title: CCDC 2235157: Experimental Crystal Structure Determination

description: Related Article: Xiaopeng Wei, Shuang Chen, Guoyuan Zheng, Qiule Zhao, Shuyi Mo, Jilin Wang, Disheng Yao, Nan Tian, Fei Long|2024|J.Mol.Struct.|1304|137634|doi:10.1016/j.molstruc.2024.137634
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.cc2fl3dk
title: CCDC 2251728: Experimental Crystal Structure Determination

description: Related Article: Xiaopeng Wei, Shuang Chen, Guoyuan Zheng, Qiule Zhao, Shuyi Mo, Jilin Wang, Disheng Yao, Nan Tian, Fei Long|2024|J.Mol.Struct.|1304|137634|doi:10.1016/j.molstruc.2024.137634
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.cc2ftzcm
title: CCDC 2259291: Experimental Crystal Structure Determination

description: Related Article: Ashutosh Ashutosh, Md Nur Hasan, Basudeb Dutta, Partha Roy, Shibashis Halder|2024|J.Mol.Struct.|1304|137630|doi:10.1016/j.molstruc.2024.137630
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.ccz3cw9
title: CCDC 896981: Experimental Crystal Structure Determination

description: Related Article: Ghulam Shabir, Saba Ashraf, Aamer Saeed, Muhammad Zaffar Hashmi, Tuncer Hökelek, Diana L. Nossa Gonzalez, Reinaldo Pis Diez, Hesham R. El-Seedi, Michael Bolte, Mauricio Federico Erben|2024|J.Mol.Struct.|1304|137686|doi:10.1016/j.molstruc.2024.137686
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: 10.5281/zenodo.10081562
title: Genome assemblies of 382 carbapenem-resistant Pseudomonas aeruginosa isolates collected from Japanese hospitals in 2019−2020

description: This dataset provides genome assemblies used in the study of "Nationwide genome surveillance of carbapenem-resistant Pseudomonas aeruginosa in Japan".
DOI: 10.5281/zenodo.10081563
title: Genome assemblies of 382 carbapenem-resistant Pseudomonas aeruginosa isolates collected from Japanese hospitals in 2019−2020

description: This dataset provides genome assemblies used in the study of "Nationwide genome surveillance of carbapenem-resistant Pseudomonas aeruginosa in Japan".
DOI: 10.5281/zenodo.10693593
title: Genome assemblies of 382 carbapenem-resistant Pseudomonas aeruginosa isolates collected from Japanese hospitals in 2019−2020

description: This dataset provides genome assemblies used in the study of "Nationwide genome surveillance of carbapenem-resistant Pseudomonas aeruginosa in Japan".
DOI: 10.5281/zenodo.10683831
title: Replication Package for ICSA 2024 paper "Blockchain interoperability patterns"

description: Replication package for the ICSA 2024 paper "Blockchain interoperability patterns" by Llambías et al.

This contains the code book, code analysis and the original patterns sent to the interviewees. 

More information about the paper and further resources can be found at https://gitlab.fing.edu.uy/open-lins/blockchain-interoperability-patterns.
DOI: 10.5281/zenodo.10693681
title: Replication Package for ICSA 2024 paper "Blockchain interoperability patterns"

description: Replication package for the ICSA 2024 paper "Blockchain interoperability patterns" by Llambías et al.

This contains the questionnaire, the code book, the code analysis and the original patterns sent to the interviewees. 

More information about the paper and further resources can be found at https://gitlab.fing.edu.uy/open-lins/blockchain-interoperability-patterns.
DOI: 10.5281/zenodo.10683830
title: Replication Package for ICSA 2024 paper "Blockchain interoperability patterns"

description: Replication package for the ICSA 2024 paper "Blockchain interoperability patterns" by Llambías et al.

This contains the questionnaire, the code book, the code analysis and the original patterns sent to the interviewees. 

More information about the paper and further resources can be found at https://gitlab.fing.edu.uy/open-lins/blockchain-interoperability-patterns.
DOI: 10.5281/zenodo.10684708
title: Replication Package for ICSA 2024 paper "Blockchain interoperability patterns"

description: Replication package for the ICSA 2024 paper "Blockchain interoperability patterns" by Llambías et al.

This contains the code book, code analysis and the original patterns sent to the interviewees. 

More information about the paper and further resources can be found at https://gitlab.fing.edu.uy/open-lins/blockchain-interoperability-patterns.
DOI: 10.25345/c5rr1pz1m
title: MassIVE MSV000094152 - Thiocarboxylation of Urm1 is regulated by tightly-controlled biochemical checkpoints
title: Ubiquitin related modifier 1 (Urm1) is a highly conserved member of the Ubiquitin-like (UBL) family of proteins. Urm1 is a key component of the eukaryotic thiolation cascade, which is responsible for introducing sulfur at U34 in several eukaryotic tRNAs. Like other UBLs, Urm1 is also able to conjugate to target proteins under mild oxidative stress. In both cases, the C-terminus of Urm1 needs to be thiocarboxylated (Urm1-SH) by Ubiquitin-like protein activator 4 (Uba4). Uba4 first adenylates, and then thiocarboxylates the C-terminus of Urm1 using its AD and RHD domains. However, the detailed mechanisms of Uba4, the interplay between the two domains, and the release of Urm1 remain elusive. Here, we report a cryo-EM-based structural model of the Uba4/Urm1 complex and a detailed biochemical analysis of its reaction cycle. Our results show how the chemical fate of Urm1s C-terminus depends on conserved cysteine residues of Uba4, how the complex avoids off-target reactions by the appearing volatile intermediates, and how the Urm1-SH product is released. Finally, we show that Urm1 only interacts with Ncs6, but not with Ncs2, of the downstream thioltransferase complex and Tum1 can functionally complement the RHD domain of Uba4.
DOI: 10.5281/zenodo.7962015
title: Response of Lacustrine Glacier Dynamics to Atmospheric Forcing in the Cordillera Darwin

description: The data and results of the manuscript "Response of Lacustrine Glacier Dynamics to Atmospheric Forcing in the Cordillera Darwin" by Langhamer et al. (2024)  are available under a CC BY 4.0 licence. We provide a selection of functions in IceDynamics.py that may be useful to the wider community. The jupyter-notebook IceDynamic-examples.ipynb demonstrates the usage of the functions and offers more insight into the applied methodology. If you just want to have a quick look, you can also find the output and code in IceDynamics-Examples.html with interactive plots.

The ReadMe contains more details about the data set, individual variables, and instrument specifications.

If you are using this dataset, please refer to the original publication in addition to this Zenodo repository:









Langhamer L., Sauter T., Temme F.,Werner N., Heinze F., Arigony-Neto J., Gonzalez I., Jaña R., and Schneider C. (2024): Response of lacustrine glacier dynamics to atmospheric forcing in the Cordillera Darwin. Journal of Glaciology. Published online 2024:1-47 doi:10.1017/jog.2024.14
DOI: 10.5281/zenodo.7962016
title: Response of Lacustrine Glacier Dynamics to Atmospheric Forcing in the Cordillera Darwin

description: The data and results of the manuscript "Response of Lacustrine Glacier Dynamics to Atmospheric Forcing in the Cordillera Darwin" by Langhamer et al. (2024)  are available under a CC BY 4.0 licence. We provide a selection of functions in IceDynamics.py that may be useful to the wider community. The jupyter-notebook IceDynamic-examples.ipynb demonstrates the usage of the functions and offers more insight into the applied methodology. If you just want to have a quick look, you can also find the output and code in IceDynamics-Examples.html with interactive plots.

The ReadMe contains more details about the data set, individual variables, and instrument specifications.

If you are using this dataset, please refer to the original publication in addition to this Zenodo repository:









Langhamer L., Sauter T., Temme F.,Werner N., Heinze F., Arigony-Neto J., Gonzalez I., Jaña R., and Schneider C. (2024): Response of lacustrine glacier dynamics to atmospheric forcing in the Cordillera Darwin. Journal of Glaciology. Published online 2024:1-47 doi:10.1017/jog.2024.14
DOI: 10.5281/zenodo.8132760
title: Figure 2. 14-3-3 proteins do not affect the total expression level of Nav1.5 and cell surface density.

description: Figure 2. 14-3-3 proteins do not affect the total expression level of Nav1.5 and cell surface density. Representative immunoblots of the total lysate and cell surface fraction of tsA201 stably expressing Nav1.5 after 48 hours of transient overexpression of: (a) HA-tagged 14-3-3 proteins; (c) YFP-tagged difopein and its mutant. Endogenous Na+/K+-ATPase was used as a positive control of cell surface fraction, while α-actin was used as a negative control. (b and d) Intensities of Nav1.5 in total protein lysate and at the cell surface were normalized to Na+/K+-ATPase and α-actin and to the control condition ("+ empty vector"). Data are presented as mean ± SEM from three-five biological replicates. Individual p-values, calculated with one-sample two-tailed t-test with hypothetical mean value=1, are indicated in each panel.
DOI: 10.5281/zenodo.8132761
title: Figure 2. 14-3-3 proteins do not affect the total expression level of Nav1.5 and cell surface density.

description: Figure 2. 14-3-3 proteins do not affect the total expression level of Nav1.5 and cell surface density. Representative immunoblots of the total lysate and cell surface fraction of tsA201 stably expressing Nav1.5 after 48 hours of transient overexpression of: (a) HA-tagged 14-3-3 proteins; (c) YFP-tagged difopein and its mutant. Endogenous Na+/K+-ATPase was used as a positive control of cell surface fraction, while α-actin was used as a negative control. (b and d) Intensities of Nav1.5 in total protein lysate and at the cell surface were normalized to Na+/K+-ATPase and α-actin and to the control condition ("+ empty vector"). Data are presented as mean ± SEM from three-five biological replicates. Individual p-values, calculated with one-sample two-tailed t-test with hypothetical mean value=1, are indicated in each panel.
DOI: 10.5281/zenodo.10677561
title: Atom probe epos dataset for Fe2O3, FeO, Fe3O4

description: Atom probe datasets in epos format for Fe2O3, FeO, and Fe3O4. Datasets were collected in a Local Electrode Atom Probe (LEAP-5000 XS) a straight flight path machine.




Oxide
Run- Number


FeO (wüstite)




R5076_69145




Fe2O3 (hematite)




R5076_69132




Fe3O4 (magnetite)




R5076_69138
DOI: 10.5281/zenodo.10677562
title: Atom probe epos dataset for Fe2O3, FeO, Fe3O4

description: Atom probe datasets in epos format for Fe2O3, FeO, and Fe3O4. Datasets were collected in a Local Electrode Atom Probe (LEAP-5000 XS) a straight flight path machine.




Oxide
Run- Number


FeO (wüstite)




R5076_69145




Fe2O3 (hematite)




R5076_69132




Fe3O4 (magnetite)




R5076_69138
DOI: 10.5281/zenodo.8132783
title: Figure 3. 14-3-3η expressed alone or with Navβ1 does not affect Nav1.5-conducted sodium current.

description: Figure 3. 14-3-3η expressed alone or with Navβ1 does not affect Nav1.5-conducted sodium current. (a) Current density-voltage (IV) relationships from tsA201-Nav1.5 transiently expressing CD8 with empty vector, or 14-3-3η, and/or Navβ1. (b) Representative whole-cell INa traces recorded from the listed conditions. (c) Peak current densities of each group. (d) Activation (A) and steady-state inactivation (SSI) curves. (e) Fast inactivation constant (τfast) plotted as a function of test potential. (f) Reversal potential (Vrev). (g) Half-voltage of SSI (V1/2 SSI). (h) Half-voltage of A (V1/2 A). Values pertaining to the biophysical properties are shown in Table 4. Data are presented as mean ± SEM.n, number of cells taken for analysis. Kruskal-Wallis with post hoc Dunn's multiple comparisons has been performed in (c, f, g, and h) and the multiplicity adjusted p-values are indicated in each panel.+C
DOI: 10.5281/zenodo.8132784
title: Figure 3. 14-3-3η expressed alone or with Navβ1 does not affect Nav1.5-conducted sodium current.

description: Figure 3. 14-3-3η expressed alone or with Navβ1 does not affect Nav1.5-conducted sodium current. (a) Current density-voltage (IV) relationships from tsA201-Nav1.5 transiently expressing CD8 with empty vector, or 14-3-3η, and/or Navβ1. (b) Representative whole-cell INa traces recorded from the listed conditions. (c) Peak current densities of each group. (d) Activation (A) and steady-state inactivation (SSI) curves. (e) Fast inactivation constant (τfast) plotted as a function of test potential. (f) Reversal potential (Vrev). (g) Half-voltage of SSI (V1/2 SSI). (h) Half-voltage of A (V1/2 A). Values pertaining to the biophysical properties are shown in Table 4. Data are presented as mean ± SEM.n, number of cells taken for analysis. Kruskal-Wallis with post hoc Dunn's multiple comparisons has been performed in (c, f, g, and h) and the multiplicity adjusted p-values are indicated in each panel.+C
DOI: 10.6084/m9.figshare.25266328
title: City-level final energy consumption dataset in China

description: The role of China is increasingly pivotal in climate change mitigation, and the formulation of energy conservation and emission reduction policies requires city-level information. The effectiveness of national policy implementation is contingent upon the support and involvement of local governments. Accurate data on final energy consumption is vital to formulate and implement city-level energy transitions and energy conservation and emission reduction policies. However, there is a dearth of data sources pertaining to China’s city-level final energy consumption. To address these gaps, we developed computational modeling techniques along with top-down and downscaling methods to estimate China’s city-level final energy consumption. In this way, we compiled a final energy consumption inventory for 327 Chinese cities from 2005 to 2021, covering seven economic sectors, 30 fossil fuels, and four clean power sources. Moreover, we discussed the validity of the estimation results from multiple perspectives to enhance estimation accuracy. This dataset can be utilized for analysis in various cutting-edge research fields such as energy transition dynamics, transition risk management strategies, and policy formulation processes.
DOI: 10.5281/zenodo.8132791
title: Figure 4. Difopein, an antagonist of 14-3-3/ligand interactions, does not affect Nav1.5-conducted sodium current.

description: Figure 4. Difopein, an antagonist of 14-3-3/ligand interactions, does not affect Nav1.5-conducted sodium current. (a) Current density-voltage (IV) relationships from Nav1.5-expressing tsA201 cells transiently expressing CD8 with empty vector, difopein, or mutant of difopein. (b) Representative whole-cell INa traces recorded from the listed conditions. (c) Peak current densities of each group. (d) Activation (A) and steady-state inactivation (SSI) curves. (e) Fast inactivation constant (τfast) plotted as a function of test potential. (f)  Reversal potential (Vrev). (g) Half-voltage of SSI (V1/2 SSI). (h) Half-voltage of A (V1/2 A). Values pertaining to the biophysical properties are shown in Table 5. Data are presented as mean ± SEM. n, number of cells taken for analysis. Kruskal-Wallis with post hoc Dunn's multiple comparisons has been performed in (c, f, g, and h) and the multiplicity adjusted p-values are indicated in each panel.
DOI: 10.5281/zenodo.8132792
title: Figure 4. Difopein, an antagonist of 14-3-3/ligand interactions, does not affect Nav1.5-conducted sodium current.

description: Figure 4. Difopein, an antagonist of 14-3-3/ligand interactions, does not affect Nav1.5-conducted sodium current. (a) Current density-voltage (IV) relationships from Nav1.5-expressing tsA201 cells transiently expressing CD8 with empty vector, difopein, or mutant of difopein. (b) Representative whole-cell INa traces recorded from the listed conditions. (c) Peak current densities of each group. (d) Activation (A) and steady-state inactivation (SSI) curves. (e) Fast inactivation constant (τfast) plotted as a function of test potential. (f)  Reversal potential (Vrev). (g) Half-voltage of SSI (V1/2 SSI). (h) Half-voltage of A (V1/2 A). Values pertaining to the biophysical properties are shown in Table 5. Data are presented as mean ± SEM. n, number of cells taken for analysis. Kruskal-Wallis with post hoc Dunn's multiple comparisons has been performed in (c, f, g, and h) and the multiplicity adjusted p-values are indicated in each panel.
DOI: 10.6084/m9.figshare.25266364
title: Untitled Item

description: Raw heart rate data for American lobster larvae exposed to polycyclic aromatic compounds. The data is associated with a manuscript titled: Exposure to individual polycyclic aromatic compounds impairs the cardiac performance of American lobster (<i>Homarus americanus</i>) larvae.
DOI: 10.5281/zenodo.8132793
title: Figure 5. Inhibition of 14-3-3/ligand interaction does not affect oligomerization between α-subunits of Nav1.5.

description: Figure 5. Inhibition of 14-3-3/ligand interaction does not affect oligomerization between α-subunits of Nav1.5. Difopein and its mutant did not affect co-immunoprecipitation between α subunits of Nav1.5. (a) Representative immunoblot of the total lysate ("INPUT") and FLAG-specific immunoprecipitated fraction ("IP: FLAG") of tsA201 cells transiently expressing Nav1.5 with empty vector, difopein, or mutant of difopein. Overexpressed YFP-tagged difopein and its mutant were revealed with an anti-GFP antibody. Endogenous α-actin was used as a negative control for co-immunoprecipitation with Nav1.5. (b) Intensity of co-immunoprecipitated Nav1.5-HA was normalized to the intensity of the total Nav1.5-HA divided by the intensity of α-actin. Data are presented as mean ± SEM from three biological replicates and are normalized to the control condition ("+ empty vector"). Individual p-values, calculated with one-sample two-tailed t-test with hypothetical mean value=1, are indicated in the panel. (c) Schematic illustration of NanoBiT assay. Background signal was determined by co-expression of N- or C-termini LgBiT-Nav1.5 with non-interacting control, SmBiT-HaloTag. (d, e, f, and g) In living cells difopein did not modify the level of Nav1.5 dimers. Results of the NanoBiT assay are presented as relative intensity of luminescence (indicating the level of protein-protein interactions) normalized to fluorescence (indicating the number of cells) in tsA201 cells transiently transfected with SCN5A constructs. Each dataset was normalized to its relevant background. Different variations between Nav1.5 N- and C-termini interactions were tested. Since difopein and its mutant were tagged with YFP, we also included control by co-transfection with GFP. NT, non-transfected. Data are presented as mean ± SEM from three biological replicates. The multiplicity adjusted p-values, calculated with one-way ANOVA and post hoc Tukey's multiple comparisons, are indicated in each panel.
DOI: 10.5281/zenodo.8132794
title: Figure 5. Inhibition of 14-3-3/ligand interaction does not affect oligomerization between α-subunits of Nav1.5.

description: Figure 5. Inhibition of 14-3-3/ligand interaction does not affect oligomerization between α-subunits of Nav1.5. Difopein and its mutant did not affect co-immunoprecipitation between α subunits of Nav1.5. (a) Representative immunoblot of the total lysate ("INPUT") and FLAG-specific immunoprecipitated fraction ("IP: FLAG") of tsA201 cells transiently expressing Nav1.5 with empty vector, difopein, or mutant of difopein. Overexpressed YFP-tagged difopein and its mutant were revealed with an anti-GFP antibody. Endogenous α-actin was used as a negative control for co-immunoprecipitation with Nav1.5. (b) Intensity of co-immunoprecipitated Nav1.5-HA was normalized to the intensity of the total Nav1.5-HA divided by the intensity of α-actin. Data are presented as mean ± SEM from three biological replicates and are normalized to the control condition ("+ empty vector"). Individual p-values, calculated with one-sample two-tailed t-test with hypothetical mean value=1, are indicated in the panel. (c) Schematic illustration of NanoBiT assay. Background signal was determined by co-expression of N- or C-termini LgBiT-Nav1.5 with non-interacting control, SmBiT-HaloTag. (d, e, f, and g) In living cells difopein did not modify the level of Nav1.5 dimers. Results of the NanoBiT assay are presented as relative intensity of luminescence (indicating the level of protein-protein interactions) normalized to fluorescence (indicating the number of cells) in tsA201 cells transiently transfected with SCN5A constructs. Each dataset was normalized to its relevant background. Different variations between Nav1.5 N- and C-termini interactions were tested. Since difopein and its mutant were tagged with YFP, we also included control by co-transfection with GFP. NT, non-transfected. Data are presented as mean ± SEM from three biological replicates. The multiplicity adjusted p-values, calculated with one-way ANOVA and post hoc Tukey's multiple comparisons, are indicated in each panel.
DOI: 10.5281/zenodo.10693501
title: Sign Detection for Cuneiform Tablets

description: Dataset for the Paper: Sign Detection for Cuneiform Tablets
DOI: 10.5281/zenodo.10693601
title: Sign Detection for Cuneiform Tablets

description: Dataset for the Paper: Sign Detection for Cuneiform Tablets
DOI: 10.5281/zenodo.8127156
title: Sign Detection for Cuneiform Tablets

description: Dataset for the Paper: Sign Detection for Cuneiform Tablets
DOI: 10.5281/zenodo.8127157
title: Sign Detection for Cuneiform Tablets

description: Dataset for the Paper: Sign Detection for Cuneiform Tablets