cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.10815031
title: Comprehensive single-cell atlas of the mouse retina

description: Abstract:

Single-cell RNA sequencing (scRNA-seq) has advanced our understanding of cellular heterogeneity at the single-cell resolution by classifying and characterizing cell types in multiple tissues and species. While several mouse retinal scRNA-seq reference datasets have been published, each dataset either has a relatively small number of cells or is focused on specific cell classes, and thus is suboptimal for assessing gene expression patterns across all retina types at the same time. To establish a unified and comprehensive reference for the mouse retina, we first generated the largest retinal scRNA-seq dataset to date, comprising approximately 190,000 single cells from C57BL/6J mouse whole retinas. This dataset was generated through the targeted enrichment of rare population cells via antibody-based magnetic cell sorting. By integrating this new dataset with public datasets, we conducted an integrated analysis to construct the Mouse Retina Cell Atlas (MRCA) for wild-type mice, which encompasses over 330,000 single cells. The MRCA characterizes 12 major classes and 138 cell types. It captured consensus cell type characterization from public datasets and identified additional new cell types. To facilitate the public use of the MRCA, we have deposited it in CELLxGENE, UCSC Cell Browser, and the Broad Single Cell Portal for visualization and gene expression exploration. The comprehensive MRCA serves as an easy-to-use, one-stop data resource for the mouse retina communities.

 

Data description:

1. MRCA: scRNA-seq of the mouse retina - all cellsThis file contains the full 330K single cells of the MRCA.2. MRCA: scRNA-seq of the mouse retina - bipolar cell subclassThis file contains 147K single cells for bipolar cell subcass of the MRCA.

3. MRCA: scRNA-seq of the mouse retina - RGC subclassThis file contains 77K single cells for retinal ganglion cell subclass of the MRCA.

4. MRCA: scRNA-seq of the mouse retina - amacrine cell subclassThis file contains 43K single cells for amacrine cell subclass of the MRCA.
DOI: 10.5281/zenodo.10815088
title: Capacidad de resiliencia de la democracia: Resiliencia actitudinal de 2023
DOI: 10.5281/zenodo.10815089
title: Capacidad de resiliencia de la democracia: Resiliencia actitudinal de 2023
DOI: 10.5281/zenodo.10815078
title: Capacidad de resiliencia de la democracia. Resiliencia institucional de 2023
DOI: 10.5281/zenodo.10815077
title: Capacidad de resiliencia de la democracia. Resiliencia institucional de 2023
DOI: 10.17909/fyw3-1966
title: NGC3324 ERO NIRCam Data
DOI: 10.6084/m9.figshare.25418578
title: Multifaceted Self dataset.xlsx

description: This is the dataset of the study
DOI: 10.5281/zenodo.10815092
title: Incumbents en América Latina de 2024
DOI: 10.5281/zenodo.10815093
title: Incumbents en América Latina de 2024
DOI: 10.5281/zenodo.10815082
title: brycinus_nurse_decontaminated_FSCR.fasta.gz

description: .
DOI: 10.5281/zenodo.10815083
title: brycinus_nurse_decontaminated_FSCR.fasta.gz

description: .
DOI: 10.5281/zenodo.10814479
title: Influence of CoFeB layer thickness on elastic parameters in CoFeB/MgO heterostructures

description: This is the dataset for the paper titled 'Influence of CoFeB layer thickness on elastic parameters in CoFeB/MgO heterostructures", published in Scientific Report.
description: SS gratefully acknowledges the financial support from Adam Mickiewicz University under the framework of “Initiative of Excellence—Research University” (ID-UB 054/13/SNŚ/0031). BR acknowledges financial support from the Narodowe Centrum Nauki (NCN) SONATA-16 project with grant number 2020/39/D/ST3/02378. The authors sincerely thank Dr. Katsuya Miura and Dr. Hiromasa Takahashi from Hitachi Ltd., Tokyo, Japan, for providing thin films for the study.
DOI: 10.5281/zenodo.10814480
title: Influence of CoFeB layer thickness on elastic parameters in CoFeB/MgO heterostructures

description: This is the dataset for the paper titled 'Influence of CoFeB layer thickness on elastic parameters in CoFeB/MgO heterostructures", published in Scientific Report.
description: SS gratefully acknowledges the financial support from Adam Mickiewicz University under the framework of “Initiative of Excellence—Research University” (ID-UB 054/13/SNŚ/0031). BR acknowledges financial support from the Narodowe Centrum Nauki (NCN) SONATA-16 project with grant number 2020/39/D/ST3/02378. The authors sincerely thank Dr. Katsuya Miura and Dr. Hiromasa Takahashi from Hitachi Ltd., Tokyo, Japan, for providing thin films for the study.
DOI: 10.5281/zenodo.10815127
title: Innovaciones Tecnológicas en materia electoral en elecciones en América Latina durante la pandemia de COVID-19 de 2023
DOI: 10.5281/zenodo.10815128
title: Innovaciones Tecnológicas en materia electoral en elecciones en América Latina durante la pandemia de COVID-19 de 2023
DOI: 10.5281/zenodo.10822687
title: Dataset related to 'Full-waveform inversion reveals diverse origins of lower mantle positive wave speed anomalies'

description: This repository contains the global distribution of sources and receivers, tomographic models (netCDF4 format), stacked waveforms from the wavefield modelling (.h5 format), 2D grids of the time-depth correlations (.csv format), and Python scripts required for the full analysis and figures presented in the manuscript.
DOI: 10.5281/zenodo.10815033
title: Deidentified data for BCC paper_PLOSOne
DOI: 10.5281/zenodo.10815034
title: Deidentified data for BCC paper_PLOSOne
DOI: 10.5281/zenodo.10777739
title: FLIGHTED: Inferring Fitness Landscapes from Noisy High-Throughput Experimental Data (Part 1)

description: Data for FLIGHTED (Inferring Fitness Landscapes from Noisy High-Throughput Experimental Data). This data contains the model weights for FLIGHTED-Selection and FLIGHTED-DHARMA, the training data for both, and fits on the GB1 landscape. It does not contain anything related to the TEV protease landscape.

The data is arranged in the following folders:



DHARMA_Input: contains the input for the DHARMA models, with the canvas sequence, the DHARMA reads, and the FACS data.

DHARMA_Models: contains the weights, hyperparameters, and model training history for the FLIGHTED-DHARMA model.

Fitness_Landscapes: the GB1 landscape, with and without FLIGHTED, as well as splits published by FLIP.

Landscape_Models: models trained on the GB1 landscape with and without FLIGHTED under the various FLIP splits. Each model folder contains hyperparameters, training history, and predictions on the test set which can be used to evaluate model performance. Raw model parameters are not provided for fine-tuned models due to size; contact us if you want them.

FLIGHTED_Selection: contains the weights, hyperparameters, and model training history for the FLIGHTED-Selection model.

Selection_Simulations: contains the simulated training data for the FLIGHTED-Selection model.
DOI: 10.5281/zenodo.10229505
title: FLIGHTED: Inferring Fitness Landscapes from Noisy High-Throughput Experimental Data (Part 1)

description: Data for FLIGHTED (Inferring Fitness Landscapes from Noisy High-Throughput Experimental Data). This data contains the model weights for FLIGHTED-Selection and FLIGHTED-DHARMA, the training data for both, and fits on the GB1 landscape. It does not contain anything related to the TEV protease landscape.

The data is arranged in the following folders:



DHARMA_Input: contains the input for the DHARMA models, with the canvas sequence, the DHARMA reads, and the FACS data.

DHARMA_Models: contains the weights, hyperparameters, and model training history for the FLIGHTED-DHARMA model.

Fitness_Landscapes: the GB1 landscape, with and without FLIGHTED, as well as splits published by FLIP.

Landscape_Models: models trained on the GB1 landscape with and without FLIGHTED under the various FLIP splits. Each model folder contains hyperparameters, training history, and predictions on the test set which can be used to evaluate model performance. Raw model parameters are not provided for fine-tuned models due to size; contact us if you want them.

FLIGHTED_Selection: contains the weights, hyperparameters, and model training history for the FLIGHTED-Selection model.

Selection_Simulations: contains the simulated training data for the FLIGHTED-Selection model.
DOI: 10.3886/e198424v1
title: ECIN Replication Package for "Crime over the welfare payment cycle"

description: This study examines criminal behavior over the welfare payment cycle. Using uniqueindividual-level administrative data on welfare recipients, we exploit exogenous variationin payment dates over time and across Dutch municipalities. The results suggest that financially motivated crime increases by 12% over the payment cycle, indicating serious financial constraints towards the end of the month. Non-financially motivated offenses, particularly sex and violent offenses and driving under the influence offenses (DUIs), peak directly after benefits receipt and decrease over the payment cycle, suggesting an underlying spike in consumption conducive to crime. Public order offenses and DUIs also increase with weekend disbursement.
DOI: 10.3886/e198424
title: ECIN Replication Package for "Crime over the welfare payment cycle"

description: This study examines criminal behavior over the welfare payment cycle. Using uniqueindividual-level administrative data on welfare recipients, we exploit exogenous variationin payment dates over time and across Dutch municipalities. The results suggest that financially motivated crime increases by 12% over the payment cycle, indicating serious financial constraints towards the end of the month. Non-financially motivated offenses, particularly sex and violent offenses and driving under the influence offenses (DUIs), peak directly after benefits receipt and decrease over the payment cycle, suggesting an underlying spike in consumption conducive to crime. Public order offenses and DUIs also increase with weekend disbursement.
DOI: 10.3886/e198424v2
title: ECIN Replication Package for "Crime over the welfare payment cycle"

description: This study examines criminal behavior over the welfare payment cycle. Using uniqueindividual-level administrative data on welfare recipients, we exploit exogenous variationin payment dates over time and across Dutch municipalities. The results suggest that financially motivated crime increases by 12% over the payment cycle, indicating serious financial constraints towards the end of the month. Non-financially motivated offenses, particularly sex and violent offenses and driving under the influence offenses (DUIs), peak directly after benefits receipt and decrease over the payment cycle, suggesting an underlying spike in consumption conducive to crime. Public order offenses and DUIs also increase with weekend disbursement.
DOI: 10.5281/zenodo.10815181
title: Modelos y sanciones de financiamiento político en América Latina de 2023
DOI: 10.5281/zenodo.10815182
title: Modelos y sanciones de financiamiento político en América Latina de 2023
DOI: 10.5281/zenodo.10815064
title: A unifying model for turbulent hyporheic mass flux under a wide range of near-bed hydrodynamic conditions
DOI: 10.5066/p14ewlgn
title: Geodetic measurements using a two-color Electronic Distance Meter made in California, 1975 to 2005

description: Measurements of changes in the distance (or length) between monuments are provided. These measurements were made using a two-color Electronic Distance Meter (EDM) that can measure distances between 1 and 10 KM. Nominal precision of these data range from 0.3 mm to 1.0 mm dependent upon the baseline’s length. These measurements were made between mid-1975 to mid-2006. Data in this archive are from eight networks, each consisting of more the 9 baselines. The locations of these networks in California include far northwestern California, Hollister, CA., Long Valley Caldera in eastern California, Parkfield, Pearblossom, and Anza; the last two located in Southern California. For four of the networks (Hollister, Parkfield, Long Valley, and Pearblossom), measurements were made roughly once per day with the goal of documenting transient deformation associated with earthquake and/or volcanic areas. Measurements of the other networks were less frequent from a few times each year to annual measurements. In many respects, these data, especially those made daily, are a forerunner of the current method of using GNSS receivers being operated continuously to measure deformation. Some highlights from these data include the following: 1) episodes of inflation of the Long Valley caldera including the energetic episode in late 1997; 2) A 20 year record with high temporal resolution of deformation that proceeded 2004 M6 Parkfield earthquake which includes at least one episode of transient deformation; and 3) A 20-year record of steady rate of strain accumulation over a 10 km long segment of the San Andreas fault in Southern California. The two color EDM is unique amongst EDMs. By ranging on two wavelengths (red and blue), it was able to resolve the correction to the optical travel-time to within 0.1 parts per million (ppm) of the length of the baseline. In contrast, the common single-color EDM require measurements of temperature and pressure at the end points of the baseline and a critical assumption that the temperature and pressure are constant along the baseline. At best, the precision of single color EDMs is 1 ppm. Refined-single color EDM measurements employed an aircraft equipped with temperature and pressure sensors to obtain the profile of these quantities along the baseline.
DOI: 10.5281/zenodo.10779250
title: TensorBoard runs for reinforcement learning on automated conjectured bounds on Laplacian spectral radius of graphs

description: The zip archive contains separate folders with TensorBoard event files for the runs of our reinforcement learning implementation on the conjectured upper bounds for the Laplacian spectral radius, which are listed in Appendix B of the forthcoming paper: S. Al-Yakoob, M. Ghebleh, A. Kanso, D. Stevanović, Reinforcement learning for graph theory, I. Reimplementation of Wagner’s approach, Art Discrete Appl. Math. (2024).

To view the contained graphs and the evolution of rewards, unzip the archive in a folder of your choice, and run in the terminal the command "tensorboard --logdir runs" from the parent folder of the unzipped "runs" folder.
DOI: 10.5281/zenodo.10779251
title: TensorBoard runs for reinforcement learning on automated conjectured bounds on Laplacian spectral radius of graphs

description: The zip archive contains separate folders with TensorBoard event files for the runs of our reinforcement learning implementation on the conjectured upper bounds for the Laplacian spectral radius, which are listed in Appendix B of the forthcoming paper: S. Al-Yakoob, M. Ghebleh, A. Kanso, D. Stevanović, Reinforcement learning for graph theory, I. Reimplementation of Wagner’s approach, Art Discrete Appl. Math. (2024).

To view the contained graphs and the evolution of rewards, unzip the archive in a folder of your choice, and run in the terminal the command "tensorboard --logdir runs" from the parent folder of the unzipped "runs" folder.
DOI: 10.5281/zenodo.10815191
title: Dataset for the ALICE-FT machine layout design

description: This dataset contains all the information needed to run SixTrack simulations to reproduce the most recent scenario (September 2023) for the ALICE-FT design. An exemplary dataset is also included, together with some simple analysis scripts, to make the comparison of obtained results easier for any potential user.
DOI: 10.5281/zenodo.7157199
title: Dataset for the ALICE-FT machine layout design

description: This dataset contains all the information needed to run SixTrack simulations to reproduce the most recent scenario (September 2022) for the ALICE-FT design. An exemplary dataset is also included, together with some simple analysis scripts, to make the comparison of obtained results easier for any potential user.
DOI: 10.5281/zenodo.7157198
title: Dataset for the ALICE-FT machine layout design

description: This dataset contains all the information needed to run SixTrack simulations to reproduce the most recent scenario (September 2023) for the ALICE-FT design. An exemplary dataset is also included, together with some simple analysis scripts, to make the comparison of obtained results easier for any potential user.
DOI: 10.5281/zenodo.10822686
title: Dataset related to 'Full-waveform inversion reveals diverse origins of lower mantle positive wave speed anomalies'

description: This repository contains the global distribution of sources and receivers, tomographic models (netCDF4 format), stacked waveforms from the wavefield modelling (.h5 format), 2D grids of the time-depth correlations (.csv format), and Python scripts required for the full analysis and figures presented in the manuscript.
DOI: 10.5281/zenodo.10420619
title: Combinatorial expression of neurexin genes regulates glomerular targeting by olfactory sensory neurons

description: This deposit contains the MERFISH data used in this study.
DOI: 10.5281/zenodo.10420620
title: Combinatorial expression of neurexin genes regulates glomerular targeting by olfactory sensory neurons

description: This deposit contains the MERFISH data used in this study.
DOI: 10.5281/zenodo.10116163
title: Thesis Supplementary Tables

description: Thesis supplementary tables for chapters 3 and 4.
DOI: 10.5285/c5f0aa806ec444b4a4209b49efc4bb65
title: ESA River Discharge Climate Change Initiative (RD_cci): Nadir radar altimeters Water Level product, v1.1

description: This dataset contains water level (WL) data from the ESA Climate Change Initiative River Discharge project (RD_cci). Water level in this context corresponds to the distance between river surface water and a reference surface (the WGS84 ellipsoid). This physical variable might also be referred to as Water Surface Elevation (WSE) in other dataset or publications.

 These river water level time series have been computed in at 54 locations (within 18 river basins). The data has been derived from nadir viewing satellite radar altimeter missions (ERS-2, Envisat, Saral, Topex-Poseidon, Jason-1, Jason-2, Jason-3, Sentinel-3A/B and Sentinel 6). At each location, time series are provided for each available single nadir radar altimetry mission. Based on these single mission time series, merged multi-missions WL time series have also been produced.
DOI: 10.5281/zenodo.10815331
title: SARS-CoV-2-specific cellular and humoral immunity after bivalent BA.4/5 COVID-19-vaccination in previously infected and non-infected individuals

description: Data accompanying manuscript by Urschel et al.
DOI: 10.5281/zenodo.10815330
title: SARS-CoV-2-specific cellular and humoral immunity after bivalent BA.4/5 COVID-19-vaccination in previously infected and non-infected individuals

description: Data accompanying manuscript by Urschel et al.
DOI: 10.5281/zenodo.10814779
title: Data for paper "Information flow between motor cortex and striatum reverses during skill learning"

description: Simultaneous spiking activity and local field potential (LFP) recordings from motor cortex (M1) and dorsolateral striatum (DLS) during learning of a reach-to grasp task.Deposited data include spiking activity and LFP recordings, reaching trajectories, andi single-trial success data for the 8 animals included in the paper "Information flow between motor cortex and striatum reverses during skill learning".
DOI: 10.5281/zenodo.10814778
title: Data for paper "Information flow between motor cortex and striatum reverses during skill learning"

description: Simultaneous spiking activity and local field potential (LFP) recordings from motor cortex (M1) and dorsolateral striatum (DLS) during learning of a reach-to grasp task.Deposited data include spiking activity and LFP recordings, reaching trajectories, andi single-trial success data for the 8 animals included in the paper "Information flow between motor cortex and striatum reverses during skill learning".
DOI: 10.5281/zenodo.10815391
title: Toy macrophage data for LEMBAS tutorial
DOI: 10.5281/zenodo.10815390
title: Toy macrophage data for LEMBAS tutorial
DOI: 10.5281/zenodo.10802721
title: Participation of electrochemically inserted protons in the hydrogen evolution reaction on tungsten oxides

description: Understanding the mechanisms by which electrodes undergo the hydrogen evolution reaction (HER) isnecessary to design better materials for aqueous energy storage and conversion. Here, we investigatethe HER mechanism on tungsten oxide electrodes, which are stable in acidic electrolytes and canundergo proton-insertion coupled electron transfer concomitant with the HER. Electrochemicalcharacterization showed that anhydrous and hydrated tungsten oxides undergo changes in HER activitycoincident with changes in proton composition, with activity in the order HxWO3*H2O>HxWO3 >HxWO3*2H2O. We used operando X-ray diffraction and density functional theory to understand thestructural and electronic changes in the materials at high states of proton insertion, when the oxides aremost active towards the HER. H0.69WO3*H2O and H0.65WO3 have similar proton composition, structuralsymmetry, and electronic properties at the onset of the HER, yet exhibit different activity. Wehypothesize that the electrochemically inserted protons can diffuse in hydrogen bronzes and participatein the HER. This would render the oxide volume, and not just the surface, as a proton and electronreservoir at high overpotentials. HER activity is highest in HxWO3*H2O, which optimizes both the degreeof proton insertion and solid-state proton transport kinetics. Our results highlight the interplay betweenthe HER and proton insertion-coupled electron transfer on transition metal oxides, many of which arenon-blocking electrodes towards protons.
DOI: 10.5281/zenodo.10802720
title: Participation of electrochemically inserted protons in the hydrogen evolution reaction on tungsten oxides

description: Understanding the mechanisms by which electrodes undergo the hydrogen evolution reaction (HER) isnecessary to design better materials for aqueous energy storage and conversion. Here, we investigatethe HER mechanism on tungsten oxide electrodes, which are stable in acidic electrolytes and canundergo proton-insertion coupled electron transfer concomitant with the HER. Electrochemicalcharacterization showed that anhydrous and hydrated tungsten oxides undergo changes in HER activitycoincident with changes in proton composition, with activity in the order HxWO3*H2O>HxWO3 >HxWO3*2H2O. We used operando X-ray diffraction and density functional theory to understand thestructural and electronic changes in the materials at high states of proton insertion, when the oxides aremost active towards the HER. H0.69WO3*H2O and H0.65WO3 have similar proton composition, structuralsymmetry, and electronic properties at the onset of the HER, yet exhibit different activity. Wehypothesize that the electrochemically inserted protons can diffuse in hydrogen bronzes and participatein the HER. This would render the oxide volume, and not just the surface, as a proton and electronreservoir at high overpotentials. HER activity is highest in HxWO3*H2O, which optimizes both the degreeof proton insertion and solid-state proton transport kinetics. Our results highlight the interplay betweenthe HER and proton insertion-coupled electron transfer on transition metal oxides, many of which arenon-blocking electrodes towards protons.
DOI: 10.5281/zenodo.7776442
title: dataset for "Rapid Prediction of Liquid Structure from a Single Molecular Configuration Using Deep Learning"

description: The data sets are used to train, validate, and test the PointNet-MD model for rapid prediction of radial distribution functions for different liquids. Details about this work can be found in the paper entitled Rapid Prediction of a Liquid Structure from a Single Molecular Configuration Using Deep Learning.