cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.22002/d1.1651
title: PhotoSpec solar-induced fluorescence and meteorological data: Soy, Iowa, 2017

description: Eddy‐covariance (EC) data were collected at long‐term and well‐characterized USDA agricultural flux towers in C3 (soybeans, Glycine max L. Merr.) cropping systems in
central Iowa. Specific sites are Brooks Field (41.974536°N, −93.693711°W). These farming systems are typical for those in the Upper Midwest corn belt (more details in Dold et al., 2017, 2019). Data were excluded under unfavorable weather conditions (e.g., rainfall, low wind turbu- lence, and high humidity) (Baker & Griffis, 2005), screened for outliers (Dold et al., 2017), and gap‐filled. Turbulent CO2 fluxes were computed using the EC method (Burba, 2013), and then net ecosystem exchange was partitioned into GPP and ecosystem respiration (Re). 

We installed a PhotoSpec instrument in a soybean (Brooks Field, 41.974203°N, −93.695839°W) in central Iowa following planting in late May 2017 and measured SIF until harvest in September 2017 (Magney, Frankenberg, et al., 2019). PhotoSpec consists of a 2D scanning telescope to guide reflected radiances into a set of high‐resolution spectrometers (Grossmann et al., 2018) to infer SIF using the solar Fraunhofer line in‐filling technique, similar to all current satellite retrievals. The scanning telescope was placed atop a 7‐m tower, and we calculate a "canopy average" of all viewing angles at a half-hourly time step to match the temporal resolution of flux tower data (following Magney, Frankenberg, et al., 2019). Because the scanning telescope revisits every measuring point within a half-hour, this canopy average is more representative of a hemispherical sensor with a footprint of a few meters around the tower (an average of all viewing directions). Notably, while the escape ratio and angular dependencies are an important consideration for tower‐based SIF measurements (Zeng et al., 2019), this makes little difference in our study for the canopy structure is relatively stable during the peaking growing season. More details on PhotoSpec retrievals and instrument specifications can be found in Grossmann et al. (2018) and Magney, Frankenberg, et al. (2019).

Relevant publications:
He, L., Magney, T., Dutta, D., Yin, Y., Köhler, P., Grossmann, K., … Frankenberg, C. (2020). From the ground to space: Using solar‐induced chlorophyll fluorescence (SIF) to estimate crop productivity. Geophysical Research Letters, 0–3. https://doi.org/10.1029/2020GL087474

Magney, T. S., Frankenberg, C., Köhler, P., North, G., Davis, T. S., Dold, C., … Porcar-Castell, A. (2019). Disentangling Changes in the Spectral Shape of Chlorophyll Fluorescence: Implications for Remote Sensing of Photosynthesis. Journal of Geophysical Research: Biogeosciences. https://doi.org/10.1029/2019JG005029

For more information or higher resolution data please contact Troy Magney: tmagney@ucdavis.edu
DOI: 10.22002/d1.1650
title: PhotoSpec solar-induced fluorescence and meteorological data: Corn, Iowa, 2017

description: Eddy‐covariance (EC) data were collected at long‐term and well‐characterized USDA agricultural flux towers within C4 (corn, Zea mays L.) cropping systems in
central Iowa. Specific sites are Coles Field (42.488414°N, −93.522582°W) for the PhotoSpec comparison in 2017. These farming systems are typical for those in the Upper Midwest corn belt (more details in Dold et al., 2017, 2019). Data were excluded under unfavorable weather conditions (e.g., rainfall, low wind turbu- lence, and high humidity) (Baker & Griffis, 2005), screened for outliers (Dold et al., 2017), and gap‐filled. Turbulent CO2 fluxes were computed using the EC method (Burba, 2013), and then net ecosystem exchange was partitioned into GPP and ecosystem respiration (Re). 

We installed two PhotoSpec instruments in a corn field (Coles Field, 42.48655°N, −93.52641°W) in central Iowa following planting in late May 2017 and measured SIF until harvest in September 2017 (Magney, Frankenberg, et al., 2019). PhotoSpec consists of a 2D scanning telescope to guide reflected radiances into a set of high‐resolution spectrometers (Grossmann et al., 2018) to infer SIF using the solar Fraunhofer line in‐filling technique, similar to all current satellite retrievals. The scanning telescope was placed atop a 7‐m tower, and we calculate a "canopy average" of all viewing angles at a half-hourly time step to match the temporal resolution of flux tower data (following Magney, Frankenberg, et al., 2019). Because the scanning telescope revisits every measuring point within a half-hour, this canopy average is more representative of a hemispherical sensor with a footprint of a few meters around the tower (an average of all viewing directions).  Notably, while the escape ratio and angular dependencies are an important consideration for tower‐based SIF measurements (Zeng et al., 2019), this makes little difference in our study for the canopy structure is relatively stable during the peaking growing season. More details on PhotoSpec retrievals and instrument specifications can be found in Grossmann et al. (2018).

We also include pictures of the instrument at certain times during the growing season.

More details can be found in the following publications:

He, L., Magney, T., Dutta, D., Yin, Y., Köhler, P., Grossmann, K., … Frankenberg, C. (2020). From the ground to space: Using solar‐induced chlorophyll fluorescence (SIF) to estimate crop productivity. Geophysical Research Letters, 0–3. https://doi.org/10.1029/2020GL087474

Chang, C. Y., Guanter, L., Frankenberg, C., Köhler, P., Gu, L., Magney, T. S., … Sun, Y. (2020). Systematic assessment of retrieval methods for canopy far‐red solar‐induced chlorophyll fluorescence (SIF) using high‐frequency automated field spectroscopy. Journal of Geophysical Research: Biogeosciences. https://doi.org/10.1029/2019jg005533

Please contact Troy Magney at tmagney@ucdavis.edu if you would like access to higher resolution data.
DOI: 10.22002/d1.1637
title: Data for "Top-of-atmosphere albedo bias from neglecting three-dimensional cloud radiative effects''

description: This dataset contains 3D fields from the PyCLES large-eddy simulation model post-processed into the format required for the libRadtran MYSTIC radiative transfer solver. These data were used in the paper "Top-of-atmosphere albedo bias from neglecting three-dimensional cloud radiative effects''. Also included are the uvspec.template files required by libRadtran.
DOI: 10.22002/d1.1625
title: Thermal Expansion of the Acetylene-Ammonia Co-crystal under Titan's Conditions

description: Acetylene and ammonia are known to form a stable orthorhombic co-crystal under the surface condi-tions of Saturn's moon Titan (1.5 bar, 94 K). Such material represents a potential new class of organic minerals that can play an important role in Titan's geology. In this work, the thermal expansion of this co-crystalline system has been derived from in situ powder X-ray diffraction data obtained between 85 and 120 K. The results indicate significant anisotropy, with the majority of the expansion occurring along the c axis (~ 2% over the temperature range of interest). Rietveld refinements reveal little chang-es to the structure as compared to that previously reported by Boese et al. (2009). The expansion is consistent with the alignment of C-H…N interactions along the chains in the a and b axes, and the weak intermolecular bonding in the structural layers along the c axis
description: Related Publication:
Anisotropic thermal expansion of the acetyl­ene–ammonia co-crystal under Titan's conditions

Journal of Applied Crystallography

2020

https://doi.org/10.1107/S1600576720014028
eng
DOI: 10.22002/d1.1620
title: Propagation of large earthquakes as self-healing pulses or mild cracks

description: Source properties from simulated self-healing pulses and crack-like ruptures from simulations of earthquake and aseismic slip with and without enhanced dynamic weakening due to the thermal pressurization of pore fluids and flash heating.
DOI: 10.22002/d1.1619
title: Absolute stress levels on numerically simulated faults

description: Measures of average stress, rupture size and source properties for simulated ruptures in simulations of sequences of earthquakes and aseismic slip with and without thermal pressurization.
DOI: 10.22002/d1.1612
title: Scale dependence of earthquake rupture prestress in models with enhanced weakening: implications for event statistics and inferences of fault stress

description: Included are rupture source properties , including rupture length, slip, average shear stress, in simulated sequences of earthquakes and aseismic slip with and without enhanced weakening due to thermal pressurization.
DOI: 10.6084/m9.figshare.21585675
title: Round 1 - Lower secondary literature scores

description: This dataset contains literature scores for lower secondary grade 7 students in 2017 in Vietnam.
DOI: 10.6084/m9.figshare.21585675.v1
title: Round 1 - Lower secondary literature scores

description: This dataset contains literature scores for lower secondary grade 7 students in 2017 in Vietnam.
DOI: 10.22002/d1.1607
title: Location and Setting of the InSight Lander, Instruments and Landing Site

description: This file describes data related to Golombek et al. 2020 submission "Location and Setting of the InSight Lander, Instruments and Landing Site" to the journal of Earth and Space Science. This work was performed at the Jet Propulsion Laboratory, California Institute of Technology, under a contract with the National Aeronautics and Space Administration (80NM0018D0004). Questions regarding these data or the paper should be directed to Matthew.P.Golombek@jpl.nasa.gov or Nathan.R.Williams@jpl.nasa.gov.

This .zip archive contains data used in the analyses contained within the paper and its figures. Unless specified otherwise, all coordinates are reported in an equirectangular projection with a planetary radius 3396190 m corresponding to the IAU/IAG Mars 2000 positive east planetocentric coordinate system, and all measurements are reported in meters. If desired, to convert coordinates (reported as meters easting and northing) to degrees, multiply by [360/(2*pi*Radius)].
description: Related Publication:
Location and Setting of the InSight Lander, Instruments and Landing Site

Matthew Golombek,   Caltech JPL

Earth and Space Science

2020
eng
DOI: 10.22002/d1.1605
title: Quaternary Oxide Photoanode Discovery in Cu-V-X-O (X=Mg,Ca,Sr,Fe)  composition libraries

description: Raw photoelectrochemical data obtained by scanning droplet cell, and other  related data for figures used in the paper which will be published in Matter.
DOI: 10.22002/d1.1598
title: Dynamics and functional roles of splicing factor autoregulation

description: Source data for manuscript "Dynamics and functional roles of splicing factor autoregulation"
DOI: 10.22002/d1.1460
title: Interactive visualization of Crystal Knob xenoliths project

description: Files for interactive visualization of the Crystal Knob xenolith project.
DOI: 10.22002/d1.1458
title: KBSS Data: structure and kinematics of circumgalactic H I

description: This tarball collects the processed data that are included 
in Y. Chen et al, 2020, "The Keck Baryonic Structure Survey: Using 
foreground/background galaxy pairs to trace the structure and 
kinematics of circumgalactic neutral hydrogen at z~2".

Here is how this file is organised. 
  cats - KBSS catalogs as of Jan 2019, organized as FITS tables. 
         This can be slightly different to the most recent KBSS 
         catalog released at http://ramekin.caltech.edu/KBSS.

  lya_spec - The stacked spectra near Lya for the KGPS-Full and KGPS-
             zneb samples. Wavelengths are included as FITS-WCS in 
             the header. The weight spectra are 1/sigma^2, estimated
             from bootstrap. These files are used to make Figure 5,
             and subsequently the 2D optical depth maps. 

  wlya - Lya equivalent width as a function of impact parameter, 
         stored as FITS tables. The table entries are,
         [dtran] - impact parameter;
         [dtran_lo] - lower edge of the "dtran" bins;
         [dtran_hi] - higher edge of the "dtran" bins;
         [ew] - Lya equivalent width;
         [ew_lo] - the lower 1-sigma limit of "ew";
         [ew_hi] - the higher 1-sigma limit of "ew".
         These data are used to make Figure 6.

  tau_2d - 2D absorption maps, stored as multi-extension FITS files. 
           [ext 0] - apparent optical depth;
           [ext 1] - 1-sigma error of ext 1;
           [ext 2] - dtran and vlos grids of ext 1 and 2.
           These are used to make Figures 7, 8, 9, 13, 14, 16, 17, 18.

  model - Best-fit model of the 2D absorption map, in multi-extension 
          FITS.
          [ext 0] - modeled apparent optical depth;
          [ext 1] - grid.
          These are used to make Figure 13.
DOI: 10.22002/d1.1452
title: Data for "The impact of securities regulation on financial development and entrepreneurship"

description: A backup of the data and code available here: https://github.com/michaelewens/Blue-Sky-Laws
DOI: 10.22002/d1.1449
title: Photoelectrochemistry of Cu2V2O7 alloyed with Ca,Zr,Hf,Lu,La,Gd

description: Raw data files with metadata, provided in format described in detail in doi: 10.1038/s41524-019-0216-x

fom_data.csv is the result of data processing to establish descriptors for each photoanode sample. The most pertinent columns are:
(Cu	V	Zr	Ca	Hf	Gd	La	Lu) collectively give the composition
Pmax.W is the photoelectrochemical power generation in Watts
agg_Pmax.W is the representative value of Pmax.W for the given composition
abs_1.5_2.0 is the unitless absorption coefficient averaged over 1.5 to 2 eV
agg_abs_1.5_2.0 is the representative value of abs_1.5_2.0  for the given composition
DOI: 10.22002/d1.1445
title: Regional averaged daily precipitation in California

description: Daily precipitation in California by regions.
DOI: 10.22002/d1.1429
title: Data for "Seasonal cycle of idealized polar clouds: large eddy simulations driven by a GCM"

description: We provide data sets used to produce results in the paper "Seasonal cycle of idealized polar clouds: large eddy simulations driven by a GCM". Data sets include GCM forcing files, ensemble mean LES output files, and offline RRTMG (radiative transfer) files. Update 2021-10-01: Rerun offline RRTMG for cloud liquid + ice and liquid-only cases, then calculated the ensemble average of radiative fluxes
description: Related Publication:
Seasonal cycle of idealized polar clouds: large eddy simulations driven by a GCM
eng
DOI: 10.22002/d1.1424
title: [dataset] Commercial stocks of SARS-CoV-2 RNA may report low concentration values, leading to artificially increased apparent sensitivity of diagnostic assays

description: Full dataset for "Commercial stocks of SARS-CoV-2 RNA may report low concentration values, leading to artificially increased apparent sensitivity of diagnostic assays " published as pre-print in medrxiv
description: Related Publication:
Commercial stocks of SARS-CoV-2 RNA may report low concentration values, leading to artificially increased apparent sensitivity of diagnostic assays

Jue, Erik Caltech

Ismagilov, Rustem F.  Caltech

medRxiv

2020-05-04

https://doi.org/10.1101/2020.04.28.20077602
eng
DOI: 10.22002/d1.1421
title: Dry mass and MSE adjusted data

description: Below, we provide MERRA2 zonal wind, meridional wind and meridional energy transport that has been corrected to close the dry mass and the moist static energy budgets. Data here are at pentad resolution
DOI: 10.22002/d1.1405
title: Data set for: Illuminating the physics of dynamic friction through laboratory earthquakes on thrust faults

description: The data set includes the following time series of slip, sliding velocity, and shear and normal stresses near the free surface for the six rupture experiments.
DOI: 10.25810/jck1-hf50.55
title: United States Newspaper Coverage of Climate Change or Global Warming, 2000-2022 - October 2022

description: The Media and Climate Change Observatory Data monitors 127 sources (across newspapers, radio and TV) in 59 countries in seven different regions around the world. Data is assembled by accessing archives through the Lexis Nexis, Proquest and Factiva databases via the University of Colorado libraries. More information may be found at: http://mecco.colorado.edu.
DOI: 10.22002/d1.1380
title: Supplementary Data for manuscript entitled "Subduction Duration and Slab Dip"

description: Table S1: Compilation of dip angles and subduction parameters of the 153 transects along major subduction zones.

Table S2: Compilation of mean dip angles and mean subduction parameters averaged over subduction zones.
DOI: 10.22002/d1.1379
title: Supplemental Data for manuscript titled 'Laser-Induced Fluorescence Measurement of Very Slow Neutral Flows in a Dusty Plasma Experiment'

description: Data used in the Review of Scientific Instruments manuscript titled "Laser-Induced Fluorescence Measurement of Very Slow Neutral Flows in a Dusty Plasma Experiment"

The three zip files each contain measured data used in different parts of the manuscript. 

LIFTemperatureData.zip: Contains 82 .csv files and 1 .txt file. The number .csv files from 1 to 81 contain LIF data use to calculate temperature while the electrodes are cooling. The first column is piezo voltage, the second column is LIF signal amplitude. Times.txt contains the time in minutes that has passed between when cooling the electrodes began and the measurement was taken. IceGrains11.csv is an LIF scan taken while there are ice grains present in the plasma, used to create the figure.

FlowImpactOnIceGrains.zip: Contains a .avi movie file and a .jpg image. The image is used as a length calibration as the nozzle on the left side is 1/4" in diameter. The .avi movie is recorded at 250 frames per second. It shows how the ice grains move when Nozzle 2 is toggled exposing the grains to a force from the argon atoms flowing past them. Field of view during the movie is the same as the calibration image, the only thing visible in the movie is the ice grains. 

y_equals_0_plane_FlowMeasurement.zip: Contains folders Nozzle1 and Nozzle2 which each contain 1890 .csv files inside them. Each csv file is one LIF scan taken when the nozzle in the folder name is open. The format of the naming of the files is x_y_z_i.csv where x = x position, y = y position, z = z position of my LIF diagnostic in stepper motor coordinates, and i = scan number between 1 and 30. If i is odd, the -z beam is shining. If i is even, the +z beam is shining. The two columns of data are piezo voltage and LIF signal. ScanOrder.txt is a text file listing the order the scan positions from beginning to end.
DOI: 10.22002/d1.1377
title: Nearly magnitude-invariant stress drops in simulated crack-like earthquake sequences on rate-and-state faults with thermal pressurization of pore fluids

description: Data from simulations of earthquake sequences and aseismic slip with thermal pressurization and different VS properties, as included in the Perry, Lambert and Lapusta, JGR 2020 (DOI: 10.1029/2019JB018597)
description: Related Publication:
Nearly magnitude-invariant stress drops in simulated crack-like earthquake sequences on rate-and-state faults with thermal pressurization of pore fluids

Perry, Stephen, Lambert, Valère and Nadia Lapusta Caltech

Journal of Geophysical Research: Solid Earth

2020-03-02

https://doi.org/10.1029/2019JB018597
eng
description: Contact person: Nadia Lapusta lapusta@caltech.edu
DOI: 10.22002/d1.1376
title: Slab Rollback Orogeny model: A test-of-concept

description: This dataset contains data used in Dal Zilio et al., (2020): Slab Rollback Orogeny model: A test-of-concept
DOI: 10.22002/d1.1375
title: Fracture Diodes: Directional asymmetry of fracture toughness

description: Toughness describes the ability of a material to resist fracture or crack propagation. It is demonstrated here that fracture toughness of a material can be asymmetric, i.e., the resistance of a medium to a crack propagating from right to left can be significantly different from that to a crack propagating from left to right. Such asymmetry is unknown in natural materials, but can be built into artificial materials through the proper control of microstructure. This paves the way for control of crack paths, where fracture – when unavoidable – can be guided through pre-designed paths to minimize loss of critical components.
DOI: 10.22002/d1.1371
title: A quantitative sequencing framework for absolute abundance measurements of mucosal and lumenal microbial communities

description: Full dataset for "A quantitative sequencing framework for absolute abundance measurements of mucosal and lumenal microbial communities" currently in review.
DOI: 10.22002/d1.1370
title: UAVSAR Vertical Velocity Rate Map for the Sacramento-San Joaquin Delta (2009-2015)

description: Provided are the dat files for the UAVSAR rate map and corresponding uncertainties. The rate map shows vertical velocity values for the Sacramento-San Joaquin Delta with negative values representing subsidence. See Bekaert, D. P., Jones, C. E., An, K., & Huang, M.-H. (2019). Exploiting UAVSAR for a comprehensive analysis of subsidence in the Sacramento Delta. Remote Sensing of Environment, 220, 124–134. doi: 10.1016/j.rse.2018.10.023 for more information on how this data was prepared.
description: Related Publication:
Exploiting UAVSAR for a comprehensive analysis of subsidence in the Sacramento Delta

David P.S. Bekaert JPL-Caltech

Remote Sensing of Environment

2018-11-06

https://doi.org/10.1016/j.rse.2018.10.023
eng
description: Contact person: Victoria Bennett bennev@rpi.edu
DOI: 10.22002/d1.1349
title: MSL ChemCam Measurements of Normalized H Peak Area in Murray Fm. Bedrock Targets

description: Data table containing measured H peak area for every MSL ChemCam observation point of Murray formation bedrock as described in Thomas et al. (2020). The first column is the spacecraft clock (target identifier) and the second column is the fit H 656.5 nm peak area normalized by the fit O 778 nm peak area using the methods described by Thomas et al. (2018).
DOI: 10.22002/d1.1342
title: ECCITE-seq protein and mRNA counts

description: Protein data were acquired from https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM3596101, file GSM3596101_CTCL-ADT-count.csv.gz.

velocyto processing:

velocyto run (bam directory)/(BAM file).bam (transcriptome directory)/genes/genes.gtf
DOI: 10.22002/d1.1345
title: OER catalyst data for active learning benchmarking study

description: Collection of catalyst activity data for 4 sets of compositions. The py3 dictionary .pck is indexed first by the plate_id (identifier for the dataset) and then keys such as "comp" that provides the metals composition for each catalyst and "fom" that provides the catalyst figure of merit (overpotential at 3 mA/cm2) for each catalyst.
Example use of dataset in https://github.com/SantoshSuram-TRI/ACE-I
description: Related Publication:
Benchmarking the acceleration of materials discovery by sequential learning

https://doi.org/10.1039/C9SC05999G
eng
DOI: 10.22002/d1.1341
title: REAP-seq protein and mRNA counts

description: Protein count data were acquired from https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM2685243, file GSM2685243_protein_2_PBMCs_matrix.txt.gz, and processed into csv format.

Aligned bam file was acquired from https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM2685238, file mRNA_2_PBMCs_possorted_genome_bam.bam.

velocyto processing:

velocyto run (bam directory)/mRNA_2_PBMCs_possorted_genome_bam.bam(transcriptome directory)/genes/genes.gtf
DOI: 10.22002/d1.1340
title: CITE-seq protein and mRNA counts

description: Protein counts were acquired from https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE100866.

LOOM was generated from FASTQ.
cellranger processing:

cellranger count --id=(desired bam directory) --transcriptome=(transcriptome directory) --fastqs=(fastq directory) --localcores=40 --localmem=100 --chemistry=SC3Pv2

velocyto processing:

velocyto run10x --samtools-threads 60 --samtools-memory 5000 (desired bam directory) (transcriptome directory)/genes/genes.gtf