cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.7302/e8eb-7959
title: Big Ship Data: Pre- and Post-Processed Spatiotemporal Data for 2006-2014 for Great Lakes Air Temperature, Dew Point, Surface Water Temperature, and Wind Speed

description: This data is in support of the WRR paper by Fries and Kerkez: Big Ship Data: Using Vessel Measurements to Improve Estimates of Temperature and Wind Speed on the Great Lakes

Code is also provided
description: Pre-Processed data was acquired from the NDFD for air temperature, dew point, and wind speed, and from the GLCFS for lake surface temperature. This data was re-gridded to be on a 0.1-degree grid and at hourly resolution (3-hourly for lake temperature).

Ship Observations were acquired from NOAA's Volunteer Observing Ships program.

Using Gaussian Process Regression, the ship observations were assimilated into the modeled data to generate new spatiotemporal estimates of the 4 study variables. Additionally, uncertainty estimates were provided
DOI: 10.7302/vkyk-tf90
title: PTB microbial data

description: This is the bacterial DNA data extracted from the gram stain slides. The targeted bacteria genera and species include: Atopobium spp., bacterial vaginosis-associated bacterium (BVAB) types 1, 2 and 3 in the order Clostridiales, Escherichia coli, Gardnerella vaginalis, Group B Streptococcus, Lactobacillus spp., Mobiluncus spp., Mycoplasma spp., and Ureaplasma spp. We also used a primer set for Lactic Acid Bacteria (LAB) that includes lactic acid producing bacteria of the genera Lactobacillus, Pediococcus, Leuconostoc, and Weissella. We calculated the relative proportion of each bacterial taxon using the bacterial copies measured by each specific bacteria primer divided by the total bacterial copies. The limit of detection was 100 copies and readings lower than the limit were considered negative

description: DNA was extracted from previous stored vaginal slides
description: and DNA was pre-amplified using universal bacterial primers based on 16s rDNA
description: total bacterial and species specific bacterial copy numbers were identified using total bacteria primers and primers specific to each bacteria taxa
description: samples with copy numbers fewer than 100 were under the limit of detection and were considered to be negative
DOI: 10.7302/ykz6-cn05
title: Virtual patient phantom dataset for DblurDoseNet

description: Current methods for patient-specific voxel-level dosimetry in radionuclide therapy suffer from a trade-off between accuracy and computational efficiency. Monte Carlo (MC) radiation transport algorithms are considered the gold standard for voxel-level dosimetry but can be computationally expensive, whereas faster dose voxel kernel (DVK) convolution can be sub-optimal in the presence of tissue heterogeneities. Furthermore, the accuracies of both these methods are limited by the spatial resolution of the reconstructed emission image. To overcome these limitations, this paper considers a single deep convolutional neural network (CNN) with residual learning (named DblurDoseNet) that learns to produce dose-rate maps while compensating for the limited resolution of SPECT images. 

We took the novel approach of constructing a convolutional neural network with residual learning to handle the accuracy-efficiency tradeoff while compensating for the limited resolution of SPECT images. We then test our CNN on clinically relevant phantoms and patients undergoing Lu-177 DOTATATE therapy in our clinic. Our network demonstrated superior results than Monte Carlo, the current gold standard for voxel dosimetry, but only takes a fraction of time. Thus, the DblurDoseNet has the potential for real-time patient-specific dosimetry in clinical treatment planning due to its demonstrated improvement in accuracy, resolution, noise and speed over the DVK/MC approaches.

Matlab is needed to access the phantoms and Python (with Numpy package installed) is needed to access the DVKs.
description: SPECT activity maps: We first collected 14 Ga-68 DOTATATE PET/CT images from our Siemens mCT scanner and reconstructed using the standard clinic protocol: 3D ordered subset expectation maximization (OSEM) with 3 iterations, 21 subsets that included resolution recovery, time-of-flight (TOF), and a 5mm (FWHM) Gaussian post-reconstruction filter. Next, we ran SIMIND MC code to generate Lu-177 SPECT projections using the PET images as activity maps. Finally, we used an in-house 3D OSEM algorithm with CT-based attenuation correction, triple energy window scatter correction and collimator-detector response modeling (4 subsets and 16 iterations, 128×128×81 matrix with voxel size 4.8×4.8×4.8mm^3, no Gaussian smoothing) to reconstruct the SPECT images.

Density maps were generated using an experimentally derived CT-to-density calibration curve from Ga-68 DOTATATE PET/CT images.

Dose voxel kernel(DVK) dose-rate maps are the convolution between SPECT reconstruction and DVKs (considering both beta particles and gamma rays).

Ground truth (GT) dose-rate maps were generated by running 1 billion histories of DPM MC simulation inputting with the true activity map and the density map. Monte Carlo (MC) dose-rate maps were generated with the same procedure but inputting with the SPECT reconstruction images instead of true activity map.

All images were in ".mat" format, having size 512x512x130 with voxel size 0.98x0.98x3mm^3.
DOI: 10.7302/1ynb-pk45
title: Terrestrial water and energy budget components simulations for the St. Lawrence River Basin

description: The datasets of this archive are produced for a research project on the development of an advanced hydrologic modeling system for the St. Lawrence river basin. The outputted datasets from model simulations are in Netcdf 4 format. The author recommend using the netCDF Operators (NCO) program for data processing. For visualization and plotting, the author recommend using software like MATLAB, Python or R.
description: A suit of uncoupled land surface model simulations of terrestrial water and energy budget components were produced using the state-of-the-art physically-based fully-distributed hydrologic model WRF-Hydro. Two global reanalysis products, namely ERA-5 and MERRA-2, and one regional precipitation analysis product called CaPA were used to form four sets of forcing variables for four model runs. The first two runs use air temperature, pressure, humidity, incident longwave and shortwave radiation, wind speed, and precipitation from ERA-5 and MERRA-2
description: the second two runs were formed by replacing the ERA-5 and MERRA-2 precipitation with the CaPA precipitation.
DOI: 10.7302/f2ht-xw04
title: Equilibrium Path Sampling Data for Two Glycosynthetic Reactions of Thermatoga maratima Alpha-L-Fucosidase D224G

description: This project aimed to discover and analyze the molecular mechanism of synthesis of two particular fucosylated oligosaccharide products in a mutant enzyme, Thermatoga maratima Alpha-L-Fucosidase D224G, whose wild type performs the opposite reaction (cleavage of fucosyl glycosidic bonds). Discovery of the mechanism was performed using an unbiased simulations method known as aimless shooting, whereas analysis of the mechanism in terms of the energy profile was performed using a separate method known as equilibrium path sampling. The data here concerns the latter method.;The contents of the atesa_master.zip are the ATESA GitHub project. A Python program for automating transition path sampling with aimless shooting using Amber. https://github.com/team-mayes/atesa
description: This data concerns equilibrium path sampling, which is a method of measuring the free energy along a specified reaction coordinate by dividing the reaction coordinate into discrete windows and sampling the relative frequencies with which unbiased simulations visit different parts of each window. The data was collected using the proprietary, open-source software ATESA: https://github.com/team-mayes/atesa
DOI: 10.7302/t0ty-pj64
title: CT Data of the partial cranium of SGS-UM 2009-002, Saadanius hijazensis (holotype).

description: Reconstructed CT slices for the partial cranium of the holotype specimen of Saadanius hijazensis in DICOM format.  Data supporting the publication: New Oligocene primate from Saudi Arabia and the divergence of apes and Old World monkeys, https://doi.org/10.1038/nature09094

Raw projections are not included in this dataset.
description: Specimen SGS-UM 2009-002 was scanned on the OMNI-X HD600 High Resolution Computed Tomography scanner in the Center for Quantitative Imaging at Pennsylvania State University. Scans were collected with the X-TEK X-ray tube with the following settings: energy settings 180 kV, 0.2 mA
description: source to object distance 215.03 mm
description: scanned with 1,440 views and five samples averaged per view
description: field of view 65.9 mm
description: x = y = 0.0644 mm (pixel size)
description: z = 0.069 mm (slice thickness and spacing)
description: matrix size 1,024 × 1,024 16-bit TIFF images. There were 1,864 slices taken
description: the specimen was scanned in volume mode with a Feldkamp reconstruction algorithm.  The data have been re-exported in DICOM format.
DOI: 10.7302/4vdx-ek59
title: CRIMSON open source project - Supplementary Material for PLOS Computational Biology Publication

description: This repository includes the following:;- Example Case A: complete process of creating a model, running the simulation and examining the results.;- Example Case B: segmenting and imposing a patient-specific aortic inflow velocity profile from a provide PC-MRI dataset.;- Example Case C: simulation of a patient under rest conditions, and then of the same patient under post-liver-transplant conditions.;- GUI Windows Binary Executable (version 2019.11.01);- Flow Solver Windows Binary Executable (version 1.4.4, 2019.11.01)
description: This data package contains the supplementary data files for the journal article "CRIMSON: An Open-Source Software Framework for Cardiovascular Integrated Modelling and Simulation", published in PLOS Computational Biology. Please see that article for instructions.
DOI: 10.7302/an6p-5y44
title: Bangime-speaking (Mali) village photos

description: images of villages in Mali in which Bangime is the primary language. Each file name contains important information about the photos, and are structured thus: LanguageFamily_Language_IdentificationNumber_GeographicCoordinate_Description_Date_InitialsOfThePhotographer
description: Photography
DOI: 10.7302/ssj9-n788
title: CRIMSON open source project - Build Dependencies

description: This repository contains several open-source components as well as software developed by our own lab that are required to build the GUI of the open source CRIMSON software from scratch using Visual Studio 2013 update 5:;cmake-3.13.5-win64-x64.zip: build tool;
nsis-3.05-setup.exe: packaging tool;
postgresql-9.5.21-1-windows-x64-binaries.zip: Qt dependency;
presolver_win.zip: windows binary for CRIMSON Presolver built using MinGW;
qt-opensource-windows-x86-msvc2013_64-5.7.0.exe: Qt GUI library;
mysql-5.7.29-winx64.zip: Qt dependencies;Software in this repository is a snapshot; please visit https://github.com/carthurs/CRIMSONGUI & www.crimson.software for more general information and the most up to date version of the software.;This repository completes the following Deep Blue repository:
GUI repository: https://doi.org/10.7302/679b-dw96
description: Using Visual Studio 2013 update 5, the following is need to build the open source CRIMSON GUI from scratch:
1. Download the repository (CRIMSON Open source GUI) at:
https://doi.org/10.7302/679b-dw96
description: 2. Download all files in this repository, below
(cmake-3.13.5-win64-x64.zip: build tool
description: nsis-3.05-setup.exe: packaging tool
description: postgresql-9.5.21-1-windows-x64-binaries.zip: Qt dependency
description: presolver_win.zip: windows binary for CRIMSON Presolver built using MinGW
description: qt-opensource-windows-x86-msvc2013_64-5.7.0.exe: Qt GUI library
description: mysql-5.7.29-winx64.zip: Qt dependencies)
description: 3. Follow instructions in GUI repository: readme.md file in: 	
https://doi.org/10.7302/679b-dw96
DOI: 10.7302/ab76-1628
title: Reverse faulting within a continental plate boundary transform system [Data set]

description: These datasets support the findings of Townsend et al. (in review) investigating the timing of faulting relative to changes in the orientation of the North American-Pacific plate boundary. Coeval with development of an oblique plate boundary segment (i.e. the “Big Bend” of the San Andreas fault), active shortening is inferred to have initiated at ~5 Ma in the Western Transverse Ranges (WTR). However, new low-temperature thermochronometric transects yield Miocene to Pleistocene apatite (U-Th-Sm)/He cooling ages and partially reset zircon (U-Th)/He ages. Inverse thermal modelling indicate that reverse faulting initiated as early as 10 Ma, several million years prior to our current understanding of the timing of the Big Bend. New and existing thermochronometry data delineate the WTR as the locus of rapid post-Miocene exhumation, and demonstrate that similar exhumation is not present in the broader region surrounding the Big Bend. We posit that reverse faulting is localized in the WTR because of a weak underlying lithosphere and predates the more recent geometric anomaly of the restraining bend in the transform margin.
description: The data are 67 apatite (U-Th)/He low-temperature thermochronometry sample analyses and 16 zircon (U-Th)/He low-temperature thermochronometry sample analyses. Bedrock samples were collected April 2016 through June 2018 to infer rates of cooling and timing of fault initiation. Samples were crushed, sieved, and separated using standard methods to isolate apatite and zircon by exploiting differences in density and magnetic susceptibility. Individual mineral grains were hand-selected under a high-powered binocular microscope. Grains selected for analysis were measured along major and minor axes, photographed, packaged into individual Pt tubes, and analyzed for 4He content. Grains were heated for 5 minutes at 900°C, released 4He was spiked with 3He, and the 4He /3He ratio was measured to determine the quantity of 4He. After measurement of 4He, grains were dissolved and analyzed for U, Th and Sm concentrations.
description: Individual grain dates were solved for numerically in Matlab using parent and daughter nuclide concentrations and the age equation. Analytical uncertainties were propagated through the age equation using Monte Carlo methods. Outliers were identified and excluded following the Dean-Dixon (1951) method based on the 90 percent confidence interval at two significant digits. See this dataset's readme for a full methodological description.
DOI: 10.7302/aeyd-fr42
title: Dogon Toro So (Yorno So) Audio Files

description: Yorno So is the variety of the Toro So subgroup of the Dogon language family. It is spoken in the Yendouma village cluster along the base of cliffs on the eastern side of the Dogon (Bandiagara) plateau in east-central Mali. It is not yet completely clear whether it is best described as a dialect of Toro So (which also includes Sangha So, Ibi So, and other varieties), or as a separate language. As of May 2018 my opinion is that it is a dialect. 

A grammar of Yorno So was published electronically at Language Description Heritage Library in 2017. http://ldh.clld.org/2017/09/01/escidoc2326768-2/ This is backed up at Deep Blue documents. http://hdl.handle.net/2027.42/139021. An excerpt of this document that includes a transcription and an English translation of audio files texts 1-6 is included in this dataset. Texts 07, 08, and 09 have not yet been transcribed. I give permission to other linguists to transcribe, translate, and/or analyze those texts.
description: The recordings were made in Yendouma in 2011 using a Tascam digital microphone. Several of the texts included in these recordings were transcribed several years later.
DOI: 10.5281/zenodo.10344761
title: St. Conlan's Church (TN014-045001-) Stone Head

description: Stone Head built into the south wall of St. Conlan's medieval church ruins at Youghalvillage (Sráidbhaile Eochaille), Co. Tipperary, in the parish of Youghalarra (Eochaill), barony of Owney and Arra, diocese of Killaloe.  For information on St. Conlan's Church ruins, visit: https://maps.archaeology.ie/HistoricEnvironment/?SMRS=TN014-045001-

Source: Objaverse 1.0 / Sketchfab
DOI: 10.5281/zenodo.10344760
title: St. Conlan's Church (TN014-045001-) Stone Head

description: Stone Head built into the south wall of St. Conlan's medieval church ruins at Youghalvillage (Sráidbhaile Eochaille), Co. Tipperary, in the parish of Youghalarra (Eochaill), barony of Owney and Arra, diocese of Killaloe.  For information on St. Conlan's Church ruins, visit: https://maps.archaeology.ie/HistoricEnvironment/?SMRS=TN014-045001-

Source: Objaverse 1.0 / Sketchfab
DOI: 10.5281/zenodo.10344762
title: Modern GB Currency (v0.1) .Blend FREE Low Poly

description: Introducing the Modern GB Currency made by ACBRadio, the programs used to make this object are as follows: Blender 2.92.0, & G.I.M.P 2.10.4…The 'Textures' inclued in this object are the following: Diffuse (One single texture, to rule them all)…free of Charge

Note: Will be adding in the £50, £20 and even a better 20p and 50p soon, may even add in some limited editions if any come my way and possibly transparant notes

360 backdrop's total poly count: Triangles: 4k Vertices: 2k

:D

Source: Objaverse 1.0 / Sketchfab
DOI: 10.5281/zenodo.10344763
title: Modern GB Currency (v0.1) .Blend FREE Low Poly

description: Introducing the Modern GB Currency made by ACBRadio, the programs used to make this object are as follows: Blender 2.92.0, & G.I.M.P 2.10.4…The 'Textures' inclued in this object are the following: Diffuse (One single texture, to rule them all)…free of Charge

Note: Will be adding in the £50, £20 and even a better 20p and 50p soon, may even add in some limited editions if any come my way and possibly transparant notes

360 backdrop's total poly count: Triangles: 4k Vertices: 2k

:D

Source: Objaverse 1.0 / Sketchfab
DOI: 10.5281/zenodo.10344765
title: Raven - Vikings 3D Prophecy - Episode 16

description: Ravens were a symbol of war in viking culture. It was said that Odin owned ravens and they brought him messages from earth. He was also known as the raven god.  

For the second week in a row we got to 3D scan a live animal on set. There are challenges when scanning live objects because they move all the time. But, we got real lucky with the raven because it held still long enough to capture a great 3D Scan. Which we then took into a 3D CAD program and did a little polishing up of the 3D model. We chose to 3D print this in a black photopolymer resin on the  [Form 2 3D printer](http://www.formlabs.com) because of the higher resolution needed for the raven model.

[Watch the Reveal](https://www.facebook.com/Vikings/videos/1036027049835502/)
 
 [See more at 3D Brooklyn](http://www.3dbrooklyn.com/case-studies/2016/11/30/vikings-3d-prophecy)

Source: Objaverse 1.0 / Sketchfab
DOI: 10.5281/zenodo.10344764
title: Raven - Vikings 3D Prophecy - Episode 16

description: Ravens were a symbol of war in viking culture. It was said that Odin owned ravens and they brought him messages from earth. He was also known as the raven god.  

For the second week in a row we got to 3D scan a live animal on set. There are challenges when scanning live objects because they move all the time. But, we got real lucky with the raven because it held still long enough to capture a great 3D Scan. Which we then took into a 3D CAD program and did a little polishing up of the 3D model. We chose to 3D print this in a black photopolymer resin on the  [Form 2 3D printer](http://www.formlabs.com) because of the higher resolution needed for the raven model.

[Watch the Reveal](https://www.facebook.com/Vikings/videos/1036027049835502/)
 
 [See more at 3D Brooklyn](http://www.3dbrooklyn.com/case-studies/2016/11/30/vikings-3d-prophecy)

Source: Objaverse 1.0 / Sketchfab
DOI: 10.5281/zenodo.10344768
title: "Boy Out Of Danger" Figurine

description: **MESH PARAMETERS**

**Object Description:** Digitized German; porcelain Goebel Hummel figurine; Real-life approximate dimensions 3.06"x3.75"x7"

**Watertight:** Yes


**TEXTURE PARAMETERS**

**Count:** 1

**Size:** 8,192 x 8,192

**Delighting:** Yes

Source: Objaverse 1.0 / Sketchfab
DOI: 10.5281/zenodo.10344769
title: "Boy Out Of Danger" Figurine

description: **MESH PARAMETERS**

**Object Description:** Digitized German; porcelain Goebel Hummel figurine; Real-life approximate dimensions 3.06"x3.75"x7"

**Watertight:** Yes


**TEXTURE PARAMETERS**

**Count:** 1

**Size:** 8,192 x 8,192

**Delighting:** Yes

Source: Objaverse 1.0 / Sketchfab
DOI: 10.5281/zenodo.10344770
title: 76 mm cannon on the wreck of V-5706 Ostmark

description: V-5706 Ostmark was built at Akers Mekaniske Verksted in 1925 as a whaling boat under the name D/S Treff. Before the war she was requisitioned by the Norwegian marine and used as a patrol boat.

After the invasion in 1940 the Germans mounted a 76 mm cannon on the foredeck and equipped her with depth charges. She was renamed to V-5706 Ostmark. In June 1941 drunk German sailors ran the ship ashore on the Nessaskjæret in close to Linesøya in Trøndelag.

See http://dykkepedia.com/wiki/V_5706 for more details about the wreck.

Source: Objaverse 1.0 / Sketchfab
DOI: 10.5281/zenodo.10344771
title: 76 mm cannon on the wreck of V-5706 Ostmark

description: V-5706 Ostmark was built at Akers Mekaniske Verksted in 1925 as a whaling boat under the name D/S Treff. Before the war she was requisitioned by the Norwegian marine and used as a patrol boat.

After the invasion in 1940 the Germans mounted a 76 mm cannon on the foredeck and equipped her with depth charges. She was renamed to V-5706 Ostmark. In June 1941 drunk German sailors ran the ship ashore on the Nessaskjæret in close to Linesøya in Trøndelag.

See http://dykkepedia.com/wiki/V_5706 for more details about the wreck.

Source: Objaverse 1.0 / Sketchfab
DOI: 10.5281/zenodo.10344775
title: Molino San Vincenzo US 1800/S5/2018

description: Source: Objaverse 1.0 / Sketchfab
DOI: 10.5281/zenodo.10344774
title: Molino San Vincenzo US 1800/S5/2018

description: Source: Objaverse 1.0 / Sketchfab
DOI: 10.5281/zenodo.10344776
title: Stone Carving, Old Holy Trinity Church

description: A stone carving mounted in the wall of Old Holy Trinity Church, Wentworth, South Yorkshire (UK).

This atmospheric, partly ruined building started life as a church in the fifteenth century, but was converted to a mausoleum in 1877 after a new church was commissioned. Today, only the chancel and north chapel remain intact.


https://historicengland.org.uk/listing/the-list/list-entry/1314580


The model was created from 88 photographs.

Source: Objaverse 1.0 / Sketchfab
DOI: 10.5281/zenodo.10344777
title: Stone Carving, Old Holy Trinity Church

description: A stone carving mounted in the wall of Old Holy Trinity Church, Wentworth, South Yorkshire (UK).

This atmospheric, partly ruined building started life as a church in the fifteenth century, but was converted to a mausoleum in 1877 after a new church was commissioned. Today, only the chancel and north chapel remain intact.


https://historicengland.org.uk/listing/the-list/list-entry/1314580


The model was created from 88 photographs.

Source: Objaverse 1.0 / Sketchfab
DOI: 10.5281/zenodo.10344778
title: Alphenia Mounds

description: For more about this ancient mound site, see my photogrammetric model [here](https://sketchfab.com/3d-models/alphenia-mounds-2c498076c49c45548b4e13f585f5e4ab).

Source: Objaverse 1.0 / Sketchfab
DOI: 10.5281/zenodo.10344779
title: Alphenia Mounds

description: For more about this ancient mound site, see my photogrammetric model [here](https://sketchfab.com/3d-models/alphenia-mounds-2c498076c49c45548b4e13f585f5e4ab).

Source: Objaverse 1.0 / Sketchfab