cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.22002/d1.20028
title: Dataset: Role of the RNA-directed DNA Methylation pathway in the regulation of maternal effects in Arabidopsis thaliana seed germination

description: Raw data for the article "Role of the RNA-directed DNA Methylation pathway in the regulation of maternal effects in Arabidopsis thaliana seed germination". The file shows the final germination counts and the total number of incubated seeds for the mutant lines used in the study to test for maternal effects of ambient temperatures on seeds of Arabidopsis thaliana.
description: Related Publication:

Role of the RNA-directed DNA Methylation pathway in the regulation of maternal effects in Arabidopsis thaliana seed germination


Ailén Authier Fundación Instituto Leloir, Buenos Aires, Argentina, Consejo Nacional de Investigaciones Científicas y Tecnológicas (CONICET), Argentina, Instituto de Biociencias, Biotecnología y Biología Traslacional (iB3), Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires, Buenos Aires, Argentina

Pablo Cerdán Fundación Instituto Leloir, Buenos Aires, Argentina, Consejo Nacional de Investigaciones Científicas y Tecnológicas (CONICET), Argentina

Gabriela A. Auge Fundación Instituto Leloir, Buenos Aires, Argentina, Consejo Nacional de Investigaciones Científicas y Tecnológicas (CONICET), Argentina, Instituto de Biociencias, Biotecnología y Biología Traslacional (iB3), Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires, Buenos Aires, Argentina

https://doi.org/10.17912/micropub.biology.000504
eng
DOI: 10.22002/d1.1971
title: Formation of Magnesium Carbonates on Earth and Implications for Mars - Fig. 6 dataset

description: This is the data set used to create Fig. 6 in the paper "Formation of Magnesium Carbonates on Earth and Implications for Mars" by Scheller et al., published in JGR: Planets. The data set was created through a literature review. The associated references are listed for all data entries.
DOI: 10.22002/d1.20049
title: Longitudinal SARS-CoV-2 Viral Loads

description: Companion data for Viloria Winnett et al., 2022. Uploaded to medRxiv. 
This dataset provides viral load quantification and analysis for individuals with acute SARS-CoV-2 infection participating in the Caltech COVID-19 Study (https://covid-study.caltech.edu/). Data is de-identified. 
Raw data is listed for each figure.
DOI: 10.22002/d1.1985
title: CLARS-FTS XGHGs Dataset (2011-2020)

description: The California Laboratory for Atmospheric Remote Sensing (CLARS) built by the Jet Propulsion Laboratory (JPL) is an observing facility for the measurement of greenhouse gases and pollutant emissions from sources in the South Coast Air Basin. The facility also serves as a testbed for new optical instruments for future NASA satellite missions. CLARS is located on Mt. Wilson, California, overlooking the Los Angeles basin at an altitude of 5700 ft (~1.7 km). It consists of a laboratory for optical instrumentation, a telescope, and a precision pointing system for the collection of atmospheric data.

The instruments at CLARS includes both point and imaging Fourier transform spectrometers (FTS). These instruments operate autonomously, measuring dry air mixing ratios of carbon dioxide (CO2), methane (CH4), carbon monoxide (CO), water vapor (H2O, HDO), nitrous oxide (N2O), and aerosols. The CLARS-FTS has been measuring GHGs and air pollutants continuously since September 2011, thus providing the longest available data record that covers the entire LA basin.
DOI: 10.22002/d1.20065
title: Dataset: Genetic mapping of Uba3O.2.2, a pupal lethal mutation in Drosophila melanogaster

description: Complementation mapping data
description: Related Publication:
DOI: 10.22002/d1.1964
title: Extended Data 1: Mitochondrial variant calls for all samples used in the study (vcf format).

description: Mitochondrial variant calls for all samples used in the study (vcf format).
description: Related Publication:
Evidence for biased segregation and recombination of mitochondrial genomes during crossing and meiosis of different Schizosaccharomyces pombe strains

Jürg Bähler University College London, Institute of Healthy Ageing and Department of Genetics, Evolution & Environment, London, U.K.

microPublication Biology

2021-05-05

https://doi.org/10.17912/micropub.biology.000390
eng
description: Contact person: Jürg Bähler j.bahler@ucl.ac.uk
DOI: 10.22002/d1.1955
title: Earthquake Waveforms from Curvelet-denoising Paper (Data Supplement)

description: These are MAT files of the earthquake waveforms used to create figures in the paper "A unified wavefield-partitioning approach for distributed acoustic sensing."
DOI: 10.22002/d1.1970
title: S-wave velocity model of Long Beach, CA

description: S-wave velocity model of Long Beach, California.
description: Related Publication:
The fine-scale structure of Long Beach, California, and its impact on ground motion acceleration

Jorge C. Castellanos Seismological Laboratory, Department of Earth and Planetary Sciences, Caltech, Pasadena, California, USA.

Journal of Geophysical Research: Solid Earth
eng
DOI: 10.22002/d1.1926
title: Extended Data File 2. Atg27p co-fractionates with clathrin-coated vesicles in budding yeast

description: CCVs clathrin null strain, all mass spectrometry hits with full information, one slice per tab.
description: Related Publication:
Atg27p co-fractionates with clathrin-coated vesicles in budding yeast

Verónica A. Segarra  Department of Biology, High Point University, High Point, NC, USA 27268

2021-03-25

https://doi.org/10.17912/micropub.biology.000380
eng
description: Contact person: Verónica A. Segarra  vsegarra@highpoint.edu
DOI: 10.22002/d1.1925
title: Extended Data 1: Atg27p co-fractionates with clathrin-coated vesicles in budding yeast

description: CCVs clathrin null strain, all mass spectrometry hits, sorted, and with abbreviated information per slice.
description: Related Publication:
Atg27p co-fractionates with clathrin-coated vesicles in budding yeast

Verónica A. Segarra  Department of Biology, High Point University, High Point, NC, USA 27268

microPublication Biology

2021-03-26

https://doi.org/10.17912/micropub.biology.000380
eng
description: Contact person: Verónica A. Segarra  vsegarra@highpoint.edu
DOI: 10.22002/d1.1965
title: Extended Data 2: Genotype information and meta-data for all samples used in the study (csv format).

description: Genotype information and meta-data for all samples used in the study (csv format).
description: Related Publication:
Evidence for biased segregation and recombination of mitochondrial genomes during crossing and meiosis of different Schizosaccharomyces pombe strains

Jürg Bähler University College London, Institute of Healthy Ageing and Department of Genetics, Evolution & Environment, London, U.K.

microPublication Biology

2021-05-05

https://doi.org/10.17912/micropub.biology.000390
eng
description: Contact person: Jürg Bähler j.bahler@ucl.ac.uk
DOI: 10.22002/d1.1919
title: Data set VIII related to "Evolutionary assembly of cooperating cell types in a multi-compound chemical defense system"

description: Assembled genomes and transcriptomes of rove beetles. Script for genome assembly and processing is provided.
DOI: 10.22002/d1.1918
title: Data set VII related to "Evolutionary assembly of cooperating cell types in a multi-compound chemical defense system"

description: We deploy single-cell RNA sequencing (10x) and tissue specific ultra-low input RNAseq methods to delineate the molecular evolution of a rove beetle gland. We deconstruct the molecular assembly of new cellular functions comprising a biosynthetic organ novelty and uncover how gland function was pieced together from ancestral molecular source material through the assembly of two novel secretory cell types, each of which synthesize distinct compound classes. --- Code used for data analyses
DOI: 10.22002/d1.1916
title: Data set V related to "Evolutionary assembly of cooperating cell types in a multi-compound chemical defense system"

description: We deploy single-cell RNA sequencing (10x) and tissue specific ultra-low input RNAseq methods to delineate the molecular evolution of a rove beetle gland. We deconstruct the molecular assembly of new cellular functions comprising a biosynthetic organ novelty and uncover how gland function was pieced together from ancestral molecular source material through the assembly of two novel secretory cell types, each of which synthesize distinct compound classes. --- alignment files, tree files, and phylogenetic trees
DOI: 10.22002/d1.1917
title: Data set VI related to "Evolutionary assembly of cooperating cell types in a multi-compound chemical defense system"

description: We deploy single-cell RNA sequencing (10x) and tissue specific ultra-low input RNAseq methods to delineate the molecular evolution of a rove beetle gland. We deconstruct the molecular assembly of new cellular functions comprising a biosynthetic organ novelty and uncover how gland function was pieced together from ancestral molecular source material through the assembly of two novel secretory cell types, each of which synthesize distinct compound classes. --- experimental data related to RNAi experiments, survival assays, in vitro enzyme data
DOI: 10.22002/d1.1914
title: Data set III related to "Evolutionary assembly of cooperating cell types in a multi-compound chemical defense system"

description: We deploy single-cell RNA sequencing (10x) and tissue specific ultra-low input RNAseq methods to delineate the molecular evolution of a rove beetle gland. We deconstruct the molecular assembly of new cellular functions comprising a biosynthetic organ novelty and uncover how gland function was pieced together from ancestral molecular source material through the assembly of two novel secretory cell types, each of which synthesize distinct compound classes. --- Dalotia coriaria transcriptome and annotation
DOI: 10.22002/d1.1915
title: Data set IV related to "Evolutionary assembly of cooperating cell types in a multi-compound chemical defense system"

description: We deploy single-cell RNA sequencing (10x) and tissue specific ultra-low input RNAseq methods to delineate the molecular evolution of a rove beetle gland. We deconstruct the molecular assembly of new cellular functions comprising a biosynthetic organ novelty and uncover how gland function was pieced together from ancestral molecular source material through the assembly of two novel secretory cell types, each of which synthesize distinct compound classes. --- processed scRNAseq data (kallisto, Seurat, cNMF)
DOI: 10.22002/d1.1905
title: Data set II related to "Evolutionary assembly of cooperating cell types in a multi-compound chemical defense system"

description: We deploy single-cell RNA sequencing (10x) and tissue specific ultra-low input RNAseq methods to delineate the molecular evolution of a rove beetle gland. We deconstruct the molecular assembly of new cellular functions comprising a biosynthetic organ novelty and uncover how gland function was pieced together from ancestral molecular source material through the assembly of two novel secretory cell types, each of which synthesize distinct compound classes.
---
Raw data (images) of dripping-onto-substrate (DoS) rheology measurements used to calculate the viscosity of compound mixtures
DOI: 10.22002/d1.1900
title: Data set I related to "Evolutionary assembly of cooperating cell types in a multi-compound chemical defense system"

description: We deploy single-cell RNA sequencing (10x) and tissue specific ultra-low input RNAseq methods to delineate the molecular evolution of a rove beetle gland. We deconstruct the molecular assembly of new cellular functions comprising a biosynthetic organ novelty and uncover how gland function was pieced together from ancestral molecular source material through the assembly of two novel secretory cell types, each of which synthesize distinct compound classes.

Analyzed tissue-specific transcriptome (SMARTseq) data. Raw sequencing data has been deposited in the NCBI Sequence Read Archive (SRA). See bioproject: PRJNA707010
DOI: 10.22002/d1.1877
title: Data related to "The Archegozetes longisetosus genome project"

description: All data related to the Archegozetes longisetosus genome (excluding sequencing data which are available on NCBI: PRJNA683935 and PRJNA683999). The data includes all fasta files (transcriptome, genome), gff-files, annotations, RNAseq analysis, GO-terms, KEGG-annotation, repeat masking and supplementary figures.
description: Contact person: Sheila A. Kitchen sak3097@caltech.edu
DOI: 10.22002/d1.1884
title: D_grimshawi_Rheb_geneModel_gff_faa_fna Files

description: Fasta sequence for the D. grimshawi Rheb gene model
description: Related Publication:
Drosophila grimshawi – Rheb

Chinmay P Rele University of Alabama

Jared Williams California State University Stanislas

Laura K Reed University of Alabama

James J Youngblom California State University Stanislas

Wilson Leung Washington University in St. Louis

microPublication Biology

https://doi.org/10.17912/micropub.biology.000371
eng
DOI: 10.22002/d1.1869
title: Marker and Differentially Expressed Genes for Clytia Multiplexed Experimentation

description: (G-zipped) Excel file with marker genes and differentially expressed genes for Clytia multiplexed experimentation under starvation and various stimulation perturbations
DOI: 10.22002/d1.1838
title: ClickTag Counts for Clytia Stimulation Dataset

description: h5ad file for Scanpy analysis of ClickTag counts from Clytia stimulation experiment
DOI: 10.22002/d1.1837
title: Gene Markers for Clytia Neurons

description: csv of gene markers for neuron subpopulations in Clytia
DOI: 10.22002/d1.1833
title: Annotated, Clustered, Kallisto-processed Clytia Starvation Data with Original Annotation

description: h5ad file for Scanpy analysis of clustered/annotated Clytia starvation data after processing with original (Cufflinks) transcriptome
DOI: 10.22002/d1.1832
title: Raw Kallisto-processed Clytia Starvation Data with Original Annotation

description: h5ad file for Scanpy analysis of processed Clytia starvation data with original Clytia transcriptome annotation (Cufflinks), including all nonzero genes
DOI: 10.22002/d1.1823
title: Merged Multiplexed Clytia Experimental Datasets

description: h5ad file for Scanpy analysis with stimulation and starvation Clytia experiments merged and annotated for cell types
DOI: 10.22002/d1.1821
title: Annotated Clustered, Kallisto-processed Clytia Stimulation Data

description: h5ad file for Scanpy analysis of Clytia stimulation data with cluster/cell type annotations
DOI: 10.22002/d1.1818
title: Perturbed Genes for Clytia Stimulation Experiment

description: csv of genes significantly perturbed in Clytia stimulation experiment, across all cell types
DOI: 10.22002/d1.1817
title: Filtered Cell Barcodes for Clytia Stimulation Dataset

description: .mat matrix file of cell barcodes filtered by ClickTag demultiplexing of Clytia stimuation data with metadata for cells
DOI: 10.22002/d1.1814
title: Raw Kallisto-processed Clytia Stimulation Data

description: h5ad file for Scanpy analysis of Clytia Stimulation data with all nonzero genes
DOI: 10.22002/d1.1813
title: Gene Modules Expression Matrix

description: h5ad for Scanpy analysis of perturbed genes' expression profiles with annotations of assigned gene modules
DOI: 10.22002/d1.1810
title: Perturbed Genes for Clytia Cell Atlas

description: csv of genes significantly affected by starvation in Clytia medusae across all cell types
DOI: 10.22002/d1.1809
title: Genes for Clytia Cell Atlas Main Markers

description: csv of top ranked Clytia Cell Atlas marker genes
DOI: 10.22002/d1.1808
title: Pseudotime Ranked Genes for Clytia Nematocytes

description: csv of ranked genes in relation to pseudotime of Clytia nematocytes
DOI: 10.22002/d1.1807
title: Pseudotime Ranked Genes for Clytia Neurons

description: csv of ranked genes in relation to pseudotime of Clytia neurons
DOI: 10.22002/d1.1806
title: Pseudotime Data for Clytia Neurons

description: h5ad for Scanpy analysis of neurons in pseudotime lineage for Clytia medusae
DOI: 10.22002/d1.1805
title: Pseudotime Data for Clytia Nematocytes

description: h5ad for Scanpy analysis of nematocytes in pseudotime lineage for Clytia medusae
DOI: 10.22002/d1.1804
title: Sub-clustered Neurons in Clytia Medusae

description: h5ad for Scanpy analysis of neuron subpopulations in Clytia medusae
DOI: 10.22002/d1.1797
title: Raw Kallisto-processed Clytia Starvation Data

description: h5ad file for Scanpy analysis of cells from fed (Control) and starved animals with all nonzero genes included
DOI: 10.22002/d1.1796
title: Annotated Clustered, Kallisto-processed Clytia Starvation Data

description: h5ad file for Scanpy analysis of cells from fed (Control) and starved animals with clustering/annotations, post-Kallisto bus processing
DOI: 10.22002/d1.1705
title: Sedimentation dataset

description: ArcGIS .tif files for the derived sedimentation maps in the surveyed reservoir in 2012, 2015, and 2018 respectively.
DOI: 10.22002/d1.1703
title: Metrics and proxies of landslide sizes and related controls (Li and Moon, 2021)

description: Datasets used to produce figures in Li and Moon (2021), topographic stress controls of bedrock landslide size (https://dx.doi.org/10.1038/s41561-021-00739-8)
This dataset contains metrics of bedrock landslide dimensions (including area, width) and 14 proxies for topographic stress, topography, seismic shaking and precipitation. Each proxy value includes maximum and mean values when available.
description: Related Publication:
Topographic stress controls of bedrock landslide size

Gen Li and Seulgi Moon Caltech, UCLA

Nature Geoscience

2021-04-29

https://doi.org/10.1038/s41561-021-00739-8
eng
DOI: 10.22002/d1.1678
title: Table 1 Extended data: Ubiquitylome of developing cortical neurons

description: Ubiquitylome of four mouse genotypes and netrin treatment in triplicate. These data is composed of a list of 854 unique proteins and 1454 unique peptides that were ubiquitylated during early neuronal development.

The data are represented in sheets that include gene names of identified proteins with NCBI identifiers; the peptide sequences identified by MS; the peptides with ubiquiylated lysine; the number of glycine adducts per peptide; the types of samples (genotype and netrin treatment) and replicates; and median subtracted intensity before and after batch correction.
description: Related Publication:
The ubiquitylome of developing cortical neurons

Shalani Menon University of North Carolina at Chapel Hill

Dennis Goldfarb University of North Carolina at Chapel Hill

Emily M Cousins University of North Carolina at Chapel Hill

M Ben Major University of North Carolina at Chapel Hill

Stephanie Gupton University of North Carolina at Chapel Hill

microPublication Biology

https://doi.org/10.17912/micropub.biology.000333
eng
DOI: 10.22002/d1.1649
title: Idealized simulations with zonally symmetric continents with different equator ward coastlines

description: These are netCDF files with precipitation, temperature, specific humidity and Geopotential height data from simulations with a seasonal cycle and with a fully saturated lower boundary. The mixed layer depth is reduced (to account for the effects of land on the thermal inertia of the lower boundary) over zonally symmetric continents extending to the norther pole from a specified southern boundary. The filename indicates the latitude of the southern boundary.
DOI: 10.22002/d1.1668
title: Curie Data - Zhan et al. (2021)

description: This directory contains the necessary data to replicate the figures presented in:

Zhan, Z., Cantono, M., Kamalov, V., Mecozzi, A., Mueller, R., Shuang, Y., Castellanos, J. Optical polarization-based seismic and water wave sensing on transoceanic cables. Science, 2021.
description: Related Publication:
Zhan, Z., Cantono, M., Kamalov, V., Mecozzi, A., Mueller, R., Shuang, Y., Castellanos, J. Optical polarization-based seismic and water wave sensing on transoceanic cables. Science, 2021

Zhongwen Zhan California Institute of technology

Science

2021-01-05
eng
description: Contact person: Zhongwen Zhan zwzhan@caltech.edu
DOI: 10.22002/d1.1647
title: STARE2 Data of ST 200428A (=FRB 200428)

description: candidate_ovro_200428.fil - filterbank data of ST 200428A from OVRO. 
candidate_gdscc_200428.fil - filterbank data of ST 200428A from GDSCC. 
candidate_delta_200428.fil - filterbank data of ST 200428A from Delta. 

The data are in filterbank format, which consists of a header that begins with HEADER START and ends with HEADER END, followed by unsigned shorts corresponding to the power in a given frequency channel at a given time. The data have been normalized by the passband and channels containing RFI have been replaced with the mean power.

We note that we use a custom filterbank header that includes the following keys in addition to the standard filterbank header keys:
MJD_hour - The hour (in MJD-7hr) that the (typically 5 hr long) observing track started. 
MJD_minute - The minute (in MJD-7hr) that the observing track started. 
MJD_second - The second (in MJD-7hr) that the observing track started. 
MJD_start - The integer day (in MJD-7hr) that the observing track started. 
cand_location - The number of time samples after the start of the observing track that the candidate is located. 
end_sample - The index of the last time sample contained in the filterbank file. 
start_sample - The sample of the first time sample contained in the filterbank file.
description: Related Publication:
A Fast Radio Burst Associated with a Galactic Magnetar

Christopher Bochenek Cahill Center for Astronomy and Astrophysics, Owens Valley Radio Observatory

Nature

2021-11-05
eng
DOI: 10.22002/d1.1632
title: Metal oxide catalyst activity for the oxygen reduction reaction

description: Dataset is a csv where every row is a unique catalyst composition. The first 8 columns are labeled by elemental symbol and the values are the normalized composition indicating the concentration of cation in the metal oxide samples. The additional columns are current density in microAmps per square centimeter.  
J.uAcm2_0.80_fromCV: at 0.8 V vs RHE extracted from a cyclic voltammogram at 0.05 V/s, acquired after 2 hours of catalyst operation
J.uAcm2_0.63_secondCA: at 0.63 V vs RHE from chronoamperometry measured after 2 hours of catalyst operation
J.uAcm2_0.63_initialCA: at 0.63 V vs RHE from chronoamperometry measured after short electrochemical pretreatment
DOI: 10.22002/d1.1626
title: Diolkos Project, Caltech Tier 2 Tofino performance data

description: Throughput per port of Caltech Tier 2 Tofino switches, gathered over 2.2 days in July 2018. The dataset also contains the IP address of the Tofino when it was deployed.
DOI: 10.22002/d1.1611
title: Impacts_of_Traffic_Reductions_Associated_with_COVID_19_on_Southern_California_Air_Quality_Dataset

description: South Coast Air Basin AQMD daily measurements for NOx, O3, and PM2.5 for 2015/01/01 to 2020/06/30. 

AQMD one hour measurements of NO2 and O3 for the Los Angeles main site, the Pasadena site, and the San Bernardino 3rd Street site from 2000/01/01 to 2020/06/30. 

Hourly temperature, humidity, rain, and solar radiance measurements from the meteorology site on the southwest side of the Caltech campus. 

One minute measurements of NO, NO2, NOy, O3, CO, SO2, PM2.5, PM10, temperature and pressure part of the Caltech Air Quality System (CITAQS) from 2020/03/20 to 2020/07/10. The site is located on the southwest side of the Caltech campus. 

TCCON column measurements of formaldehyde (CH2O) for 2015 to 2020 along with auxiliary data such as solar zenith angle and temperature also provided in separate temperature file.
DOI: 10.22002/d1.1599
title: CITAQS Data 2020-03-20 to 2020-07-10

description: Air quality data gathered in the Linde+Robinson building on the Caltech Campus. This data contains one minute measurements of ozone, nitrogen oxides (NO, NO2, and NOy), sulfur dioxide, carbon monoxide, particulate matter less than 10 and less than 2.5 microns, temperature, and pressure.