cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.25573/data.10304306.v11
title: Monthly Rain_ACP_Vertical.xlsx

description: Monthly summaries of the Panama Canal Authority meteorological 
monitoring program. These data were collected from approximately 50 
stations located in the Panama Canal watershed. Information about 
station locations can be found in the metadata in the file.<br><br>This file has been formatted vertically so that long-term trends can be easily analyzed.<br><br>Published with permission from the Panama Canal Authority.
DOI: 10.5281/zenodo.10798995
title: Figure 2 stimulus induced brain activity data

description: This data set shows brain activity in response to an airpuff stimulus applied to the right whiskers. A 2 s, 3 Hz airpuff stimulus is applied to the right whiskers 20 times. Raw .dat files produced by the camera contain wide field images of the mouse brain collected at four different wavelengths. Processed data are included in a .h5 file that contains relative changes in neuronal calcium activity, extracellular acetylcholine, oxyhemoglobin, and deoxyhemoglobin. A video of the mouse face and a recording from an accelerometer placed under the mouse are also included. A trigger file recorded by the data acquisition system shows the timing of measurements and stimuli. This data was used to produce the stimulus response parts of figure 2 in the following article.

Doran, P., Fomin-Thunemann, N., Tang, R., Zimmerman, B., Kilic, K., Kura, S., Fisher, H., Chabbot, G., Herbert, J., Jiang, J., Sakadzic, S., Boas, D., Devor, A., Chen, I., & Thunemann, M. (2023). Widefield in vivo imaging system with two fluorescence and two reflectance channels, a single sCMOS detector, and shielded illumination. bioRxiv. https://doi.org/https://doi.org/10.1101/2023.11.07.566086do
DOI: 10.5281/zenodo.10798996
title: Figure 2 stimulus induced brain activity data

description: This data set shows brain activity in response to an airpuff stimulus applied to the right whiskers. A 2 s, 3 Hz airpuff stimulus is applied to the right whiskers 20 times. Raw .dat files produced by the camera contain wide field images of the mouse brain collected at four different wavelengths. Processed data are included in a .h5 file that contains relative changes in neuronal calcium activity, extracellular acetylcholine, oxyhemoglobin, and deoxyhemoglobin. A video of the mouse face and a recording from an accelerometer placed under the mouse are also included. A trigger file recorded by the data acquisition system shows the timing of measurements and stimuli. This data was used to produce the stimulus response parts of figure 2 in the following article.

Doran, P., Fomin-Thunemann, N., Tang, R., Zimmerman, B., Kilic, K., Kura, S., Fisher, H., Chabbot, G., Herbert, J., Jiang, J., Sakadzic, S., Boas, D., Devor, A., Chen, I., & Thunemann, M. (2023). Widefield in vivo imaging system with two fluorescence and two reflectance channels, a single sCMOS detector, and shielded illumination. bioRxiv. https://doi.org/https://doi.org/10.1101/2023.11.07.566086do
DOI: 10.6084/m9.figshare.25382647
title: Untitled Item

description: The objective of this work is to predict location using an optimization approach using a Genetic Algorithm with GIS coordinates as the data model.The objective of this work is to predict location using an optimization approach using a Genetic Algorithm with GIS coordinates as the data model.
DOI: 10.6084/m9.figshare.25382647.v1
title: Untitled Item

description: The objective of this work is to predict location using an optimization approach using a Genetic Algorithm with GIS coordinates as the data model.The objective of this work is to predict location using an optimization approach using a Genetic Algorithm with GIS coordinates as the data model.
DOI: 10.6084/m9.figshare.24648066
title: Mawrth Vallis, Mars, classified using the NOAH-H deep-learning terrain classification system

description: A deep learning (DL) terrain classification system, the Novelty and Anomaly Hunter – HiRISE (NOAH-H) was used to produce a terrain map of Mawrth Vallis, Mars. With it, we digitised the extent and distribution of transverse aeolian ridges (TARs), a common type of martian aeolian bedform. We present maps of the site, classifying terrain into descriptive classes and interpretive groups. TAR density maps are calculated, and the network output is compared to a manually produced map of TAR density, highlighting the differences in approach and results between these methods. Even when mapping on a small scale, humans must divide the terrain into coherent patches in order to map a large area in a reasonable time frame. Conversely, the speed of DL systems enables mapping on the pixel scale, producing a more detailed product, but one which is also “noisier”, and less immediately informative. There are pros and cons to both approaches. A morphological map of Marth Vallis, Mars, has been created, classifying variations in surface texture into 14 descriptive classes.A deep learning (DL) convolutional neural network was trained to predict these classes in further HiRISE images, which had not been used for training.The resulting classified rasters were orthorectified and mosaicked using ArcGIS.Appropriate classes from the resulting map were compared with manual digitisation of the spatial densities of Transverse Aeolian Ridges (TARs).This comparison highlights the different scales at which human and DL mapping takes place, and that the two datasets have different strengths and weaknesses.The speed at which the network can complete its task allows it to attempt a higher level of fidelity than is possible for a human.Derived maps of the density of boulders and TARs were also produced using both the DL and manual datasets. A morphological map of Marth Vallis, Mars, has been created, classifying variations in surface texture into 14 descriptive classes. A deep learning (DL) convolutional neural network was trained to predict these classes in further HiRISE images, which had not been used for training. The resulting classified rasters were orthorectified and mosaicked using ArcGIS. Appropriate classes from the resulting map were compared with manual digitisation of the spatial densities of Transverse Aeolian Ridges (TARs). This comparison highlights the different scales at which human and DL mapping takes place, and that the two datasets have different strengths and weaknesses. The speed at which the network can complete its task allows it to attempt a higher level of fidelity than is possible for a human. Derived maps of the density of boulders and TARs were also produced using both the DL and manual datasets.
DOI: 10.6084/m9.figshare.24648066.v2
title: Mawrth Vallis, Mars, classified using the NOAH-H deep-learning terrain classification system

description: A deep learning (DL) terrain classification system, the Novelty and Anomaly Hunter – HiRISE (NOAH-H) was used to produce a terrain map of Mawrth Vallis, Mars. With it, we digitised the extent and distribution of transverse aeolian ridges (TARs), a common type of martian aeolian bedform. We present maps of the site, classifying terrain into descriptive classes and interpretive groups. TAR density maps are calculated, and the network output is compared to a manually produced map of TAR density, highlighting the differences in approach and results between these methods. Even when mapping on a small scale, humans must divide the terrain into coherent patches in order to map a large area in a reasonable time frame. Conversely, the speed of DL systems enables mapping on the pixel scale, producing a more detailed product, but one which is also “noisier”, and less immediately informative. There are pros and cons to both approaches. A morphological map of Marth Vallis, Mars, has been created, classifying variations in surface texture into 14 descriptive classes.A deep learning (DL) convolutional neural network was trained to predict these classes in further HiRISE images, which had not been used for training.The resulting classified rasters were orthorectified and mosaicked using ArcGIS.Appropriate classes from the resulting map were compared with manual digitisation of the spatial densities of Transverse Aeolian Ridges (TARs).This comparison highlights the different scales at which human and DL mapping takes place, and that the two datasets have different strengths and weaknesses.The speed at which the network can complete its task allows it to attempt a higher level of fidelity than is possible for a human.Derived maps of the density of boulders and TARs were also produced using both the DL and manual datasets. A morphological map of Marth Vallis, Mars, has been created, classifying variations in surface texture into 14 descriptive classes. A deep learning (DL) convolutional neural network was trained to predict these classes in further HiRISE images, which had not been used for training. The resulting classified rasters were orthorectified and mosaicked using ArcGIS. Appropriate classes from the resulting map were compared with manual digitisation of the spatial densities of Transverse Aeolian Ridges (TARs). This comparison highlights the different scales at which human and DL mapping takes place, and that the two datasets have different strengths and weaknesses. The speed at which the network can complete its task allows it to attempt a higher level of fidelity than is possible for a human. Derived maps of the density of boulders and TARs were also produced using both the DL and manual datasets.
DOI: 10.5281/zenodo.10009480
title: Data archive: Remy et al. Effects of thinning and prescribed burning on future forest productivity and composition in the southwest US

description: This repository contains the data and codes used to write the Remy et al. manuscript. Effects of thinning and prescribed burning on future forest productivity and composition in the southwestern United States.
DOI: 10.57780/esa-c9d5673
title: Landsat MSS ESA Archive

description: Landsat MSS ESA Archive
DOI: 10.14473/csda/ul6muo/pzdc70
title: TI_V1005.pdf

description: Technická informace
DOI: 10.14473/csda/ul6muo/1h2yqu
title: OM_V1005.pdf

description: Ostatní materiály
DOI: 10.14473/csda/ul6muo/oxdhvi
title: D_V1005.pdf

description: Dotazník
DOI: 10.14473/csda/ul6muo/smjq5h
title: Nesstar_NS_1005_DataFile.tab

description: Data
DOI: 10.14473/csda/ul6muo/dkrr0l
title: K_V1005.pdf

description: Karty
DOI: 10.14473/csda/ul6muo/wfbkof
title: PR01_V1005.pdf

description: Stranické preference a volební model v květnu 2010. Tisková zpráva CVVM.
DOI: 10.14473/csda/ul6muo/cv6m08
title: PR05_V1005.pdf

description: Česká veřejnost o životním prostředí. Tisková zpráva CVVM.
DOI: 10.14473/csda/ul6muo/lss7tw
title: PR03_V1005.pdf

description: Názory občanů na drogy. Tisková zpráva CVVM.
DOI: 10.14473/csda/ul6muo/1gb9lk
title: PR04_V1005.pdf

description: Názory české veřejnosti na práva lidí s homosexuální orientací. Tisková zpráva CVVM.
DOI: 10.14473/csda/ul6muo/7y4exd
title: PR06_V1005.pdf

description: Veřejné mínění o interrupci, eutanazii a trestu smrti. Tisková zpráva CVVM.
DOI: 10.14473/csda/ul6muo
title: Naše společnost 2010 - květen

description: Kontinuální měsíční výzkum provedl výzkumný tým CVVM Sociologického ústavu AV ČR v rámci pravidelného měsíčního výzkumného projektu. Jsou při něm zjišťovány postoje a názory občanů. Výzkum provedl výzkumný tým CVVM Sociologického ústavu AV ČR v rámci výzkumu. "Naše společnost 2010". Sběr dat provedla tazatelská síť CVVM.
DOI: 10.14473/csda/ul6muo/mwhajm
title: PR02_V1005.pdf

description: Důvěra stranickým představitelům. Tisková zpráva CVVM.
DOI: 10.34740/kaggle/dsv/7816411
title: Pizza Hut Ratings and Reviews
DOI: 10.18746/bmth.data.00000357
title: Eczema Cochrane Review RoB files
DOI: 10.5281/zenodo.10213531
title: Formalized information from the study protocols of three decentralized studies on rare diseases within the CORD project
title: CORD - Collaboration on Rare Diseases

description: The file contains formalized information from the study protocols of decentralized studies on rare diseases within the CORD project. This includes the diagnoses that are coded with ICD-10-GM. The following diseases or use cases are described:

Cystic Fibrosis and Pregnancy or Delivery
Phenylketonuria, Comorbidities and Pregnancy or Delivery
Kawasaki and Pediatric Inflammatory Multisystem Syndrome (PIMS)
DOI: 10.4121/0fef9f19-2ee1-4b8c-8bc5-2614c94fe687
title: Supporting Data for A retrainable neuromorphic biosensor for on-chip learning and classification

description: Supporting Data for A retrainable neuromorphic biosensor for on-chip learning and classification. The data can be used to recreate the figures in the paper. Each figure, or sub-figure, has its own file (xlsx or txt) and with it the figure can be plotted. All the methods of the study are described in the paper.
DOI: 10.4121/0fef9f19-2ee1-4b8c-8bc5-2614c94fe687.v1
title: Supporting Data for A retrainable neuromorphic biosensor for on-chip learning and classification

description: Supporting Data for A retrainable neuromorphic biosensor for on-chip learning and classification. The data can be used to recreate the figures in the paper. Each figure, or sub-figure, has its own file (xlsx or txt) and with it the figure can be plotted. All the methods of the study are described in the paper.
DOI: 10.5281/zenodo.10358455
title: Mechanism of the dibutyl 4-nitrophenyl phosphate hydrolysis by Pd-PTE phosphotriesterase revealed by QM/MM MD simulations

description: 1. Topology psf file of the model system comprosing Pd-PTE phosphotriesterase and dibutyl 4-nitrophenyl phosphate solvated in the rectangular water box and neutralized. PDB files obtained from QM/MM MD rajectories of correspondig regions: ES – enzyme-substrate complex; TS1 and TS2 – transition states; INT – intermediate; EP – enzyme product.

2. A complete set of classical MD, QM/MM and QM/MM MD files.

Notation:

Substrates: S10 - substrate (1), S01 - substrate (2), S11 - substrate (3), S08 - substrate (4).

Stationary points: ES – reactants (enzyme-substrate complex), TS1 and TS2 – transition states of the first and second steps, respectively, INT – reaction intermediate, EP – enzyme-product complex.

Files:

par_* - parameter files.

*.psf - topology files.

md.conf - example config file for classical MD run.

Pd-PTE_ES_S10.pdb, Pd-PTE_ES_S01.pdb, Pd-PTE_ES_S11.pdb, Pd-PTE_ES_S08.pdb - structures selected from classical molecular dynamics trajectories for further calculations QM/MM calculations.

qmmm_md.conf - example config file for QM/MM MD run.

run_terachem.py - script for terachem operation, contains a description of the quantum part.

QMpart_S* - file containing the quantum part (beta 1 - atoms in the quantum part, occupancy 1 - atoms on the border of QM and MM regions).

*_INT_QMMM_MD_pbe0.dcd -  QM/MM MD trajectories of the INT states.

opt.chm - example config for optimization in chemshell.

ES_mult*.molden, INT_mult*.molden, EP_mult*.molden - optimized stationary points with different multiplicities.

US.7z – files containing reaction coordinate values at each QM/MM MD step and corresponding parameters of biasing potential, k and x0.

PES.7z - stationary points on potential energy surface for S10.

mechanism.7z - representative frames from QM/MM MD with the addition of a biasing potential in the stationary point regions on the Gibbs energy profiles for substrate (1) containing system.
DOI: 10.5281/zenodo.10358456
title: Mechanism of the dibutyl 4-nitrophenyl phosphate hydrolysis by Pd-PTE phosphotriesterase revealed by QM/MM MD simulations

description: Topology psf file of the model system comprosing Pd-PTE phosphotriesterase and dibutyl 4-nitrophenyl phosphate solvated in the rectangular water box and neutralized. PDB files obtained from QM/MM tMD rajectories of correspondig regions: ES – enzyme-substrate complex; TS1 and TS2 – transition states; INT – intermediate; EP – enzyme product.
DOI: 10.5281/zenodo.10804835
title: Mechanism of the dibutyl 4-nitrophenyl phosphate hydrolysis by Pd-PTE phosphotriesterase revealed by QM/MM MD simulations

description: 1. Topology psf file of the model system comprosing Pd-PTE phosphotriesterase and dibutyl 4-nitrophenyl phosphate solvated in the rectangular water box and neutralized. PDB files obtained from QM/MM MD rajectories of correspondig regions: ES – enzyme-substrate complex; TS1 and TS2 – transition states; INT – intermediate; EP – enzyme product.

2. A complete set of classical MD, QM/MM and QM/MM MD files.

Notation:

Substrates: S10 - substrate (1), S01 - substrate (2), S11 - substrate (3), S08 - substrate (4).

Stationary points: ES – reactants (enzyme-substrate complex), TS1 and TS2 – transition states of the first and second steps, respectively, INT – reaction intermediate, EP – enzyme-product complex.

Files:

par_* - parameter files.

*.psf - topology files.

md.conf - example config file for classical MD run.

Pd-PTE_ES_S10.pdb, Pd-PTE_ES_S01.pdb, Pd-PTE_ES_S11.pdb, Pd-PTE_ES_S08.pdb - structures selected from classical molecular dynamics trajectories for further calculations QM/MM calculations.

qmmm_md.conf - example config file for QM/MM MD run.

run_terachem.py - script for terachem operation, contains a description of the quantum part.

QMpart_S* - file containing the quantum part (beta 1 - atoms in the quantum part, occupancy 1 - atoms on the border of QM and MM regions).

*_INT_QMMM_MD_pbe0.dcd -  QM/MM MD trajectories of the INT states.

opt.chm - example config for optimization in chemshell.

ES_mult*.molden, INT_mult*.molden, EP_mult*.molden - optimized stationary points with different multiplicities.

US.7z – files containing reaction coordinate values at each QM/MM MD step and corresponding parameters of biasing potential, k and x0.

PES.7z - stationary points on potential energy surface for S10.

mechanism.7z - representative frames from QM/MM MD with the addition of a biasing potential in the stationary point regions on the Gibbs energy profiles for substrate (1) containing system.
DOI: 10.5281/zenodo.10665251
title: Pieris napi microRNA mirDeep2 output pdfs

description: miRDeep2 pdf outputs for diapausing Pieris napi.

Code used for miRNA identification and mapping (miRNA_identification_code.txt)

Code for identification of nearest feature to miRNAs (closest_featuress_code.txt)

Code for identifying differentially expressed genes and clustering (clustering.R)

Code for cluster gene set enrichment analysis (GSEA_diapause_all.R)

Code for ideification of differentially expressed genes in diapause termination (DEG_specific_comps.R)

 

From the paper "A time course analysis through diapause reveals dynamic temporal patterns of microRNAs associated with endocrine regulation in the butterfly Pieris napi"
DOI: 10.5281/zenodo.10665252
title: Pieris napi microRNA mirDeep2 output pdfs

description: miRDeep2 pdf outputs for diapausing Pieris napi.

From the paper "A time course analysis through diapause reveals dynamic temporal patterns of microRNAs associated with endocrine regulation in the butterfly Pieris napi"
DOI: 10.5281/zenodo.10805148
title: Pieris napi microRNA mirDeep2 output pdfs

description: miRDeep2 pdf outputs for diapausing Pieris napi.

Code used for miRNA identification and mapping (miRNA_identification_code.txt)

Code for identification of nearest feature to miRNAs (closest_featuress_code.txt)

Code for identifying differentially expressed genes and clustering (clustering.R)

Code for cluster gene set enrichment analysis (GSEA_diapause_all.R)

Code for ideification of differentially expressed genes in diapause termination (DEG_specific_comps.R)

 

From the paper "A time course analysis through diapause reveals dynamic temporal patterns of microRNAs associated with endocrine regulation in the butterfly Pieris napi"
DOI: 10.6084/m9.figshare.23790852.v1
title: deus spss edited -PHAMACOLOGICAL.sav

description: The available dataset are for A hospital-based prospective cohort study was carried out among 72 patients, a structured questionnaire was used to collect data from selected patients who underwent cold tonsillectomy. Postoperative pain assessment was conducted at 6, 12, and 18 hours from initiation of pharmacological management following tonsillectomy. An interviewer-administered numerical rating scale was used for assessing postoperative pain scores.
DOI: 10.15161/oar.it/143462
title: Carta Geologica d'Italia alla scala 1:50.000, F. 557 Cagliari

description: Foglio geologico alla scala 1:50.000 basato su rilevamenti alla scala 1:10.000 (eseguiti tra il 1998 e il 2000) comprensivo di legenda, schemi a cornice, sezioni geologiche.
DOI: 10.15161/oar.it/143463
title: Carta Geologica d'Italia alla scala 1:50.000, F. 557 Cagliari

description: Foglio geologico alla scala 1:50.000 basato su rilevamenti alla scala 1:10.000 (eseguiti tra il 1998 e il 2000) comprensivo di legenda, schemi a cornice, sezioni geologiche.
DOI: 10.34740/kaggle/dsv/7816656
title: Gold Silver Price Nepal
DOI: 10.15161/oar.it/143467
title: Carta Geologica d'Italia alla scala 1:50.000, F. 563 Isola di S. Pietro

description: Foglio geologico alla scala 1:50.000 basato su rilevamenti alla scala 1:10.000 (eseguiti tra il 2004 e il 2006) comprensivo di legenda, schemi a cornice, sezioni geologiche.
DOI: 10.15161/oar.it/143466
title: Carta Geologica d'Italia alla scala 1:50.000, F. 563 Isola di S. Pietro

description: Foglio geologico alla scala 1:50.000 basato su rilevamenti alla scala 1:10.000 (eseguiti tra il 2004 e il 2006) comprensivo di legenda, schemi a cornice, sezioni geologiche.
DOI: 10.5281/zenodo.10800610
title: Data from: Macaque mothers' responses to the deaths of their infants: evidence for protest grief?

description: Data were collected on adult female rhesus macaques on Cayo Santiago. Included is the dataset and the R code used to analyse the data.

Data variables:

Date: Date of observation

Troop: Troop to which the female belongs

Status: Whether the focal individual is bereaved (Bereaved), a control female without an infant (Control), or a control female with an infant (ConMum)

Rank: Estimated rank (three categories: Low, Middle, High)

ID: Individual code for the female

Age: Age in years

Diplacement: Time (s) spent in displacement behaviours

Feeding: Time (s) spent feeding

Rest: Time (s) spent resting

Grooming: Time (s) spent grooming

Total: Duration (s) of the observation

HOUR: hour of the day in which the observation took place

Cluster: the group of females observed for the same infant death

days_since_start: days since the death of the infant
DOI: 10.5281/zenodo.10800611
title: Data from: Macaque mothers' responses to the deaths of their infants: evidence for protest grief?

description: Data were collected on adult female rhesus macaques on Cayo Santiago. Included is the dataset and the R code used to analyse the data.

Data variables:

Date: Date of observation

Troop: Troop to which the female belongs

Status: Whether the focal individual is bereaved (Bereaved), a control female without an infant (Control), or a control female with an infant (ConMum)

Rank: Estimated rank (three categories: Low, Middle, High)

ID: Individual code for the female

Age: Age in years

Diplacement: Time (s) spent in displacement behaviours

Feeding: Time (s) spent feeding

Rest: Time (s) spent resting

Grooming: Time (s) spent grooming

Total: Duration (s) of the observation

HOUR: hour of the day in which the observation took place

Cluster: the group of females observed for the same infant death

days_since_start: days since the death of the infant
DOI: 10.5281/zenodo.10805237
title: Diverging Deltas_data and code
DOI: 10.5281/zenodo.10805238
title: Diverging Deltas_data and code
DOI: 10.34740/kaggle/dsv/7816787
title: Mahanagar Yatayat Transport Dataset