cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.5607038
title: AFM-IR images and spectra of commercial polymers

description: This data set contains photothermal IR images (AFM-IR) and spectra of a commercial polymers taken with a Bruker nanoIR3. A Daylight solutions MIRcat-QT external cavity quantum cascade laser. Fourier transform infrared (FTIR) spectra were recorded with Bruker Tensor 35 spectrometer using a "Platinum ATR" (Bruker) attenuated total reflection sampling accessory with a diamond ATR element. The AFM-IR raw data files (".axz") are gzipped XML files that can be opened with the anasyspythontools python library. FTIR files (".txt") are CSV files. The first column represents wavenumbers, the second column represents absorption.
DOI: 10.6084/m9.figshare.17087657.v1
title: Supplementary Figure 7 raw data

description: <b>Supplementary Figure 7. Violin plots showing mRNA level of only ACSM5 is significantly altered in the post-mortem autopsy brains with Alzheimer’s disease (AD).</b> qRT-PCR analysis showing mRNA levels of ACSM5, but none of the other bottom GOI, are significantly altered in post-mortem temporal cortices of AD compared to age matched controls (Ctrl). Data shown are mean + s.e.m; two-tailed <i>t </i>tests Welch-corrected and Tukey’s for outlier removal; *p&lt;0.05; n=10 healthy controls and n=8 sporadic AD; n=3 technical replicates).
DOI: 10.21227/mjek-j791
title: Bell Labs robot garage for DANCE: Domain Adaptation of Networks for Camera Pose Estimation

description: This dataset is a supplement of the paperDomain Adaptation of Networks for Camera Pose Estimation:Learning Camera Pose Estimation Without Pose Labels [URL here]. The dataset contains a sample scene of a robot garage. The scene was captured by a Leica BLK360 laser scanner, and 16 scans were merged into a single point cloud of 118M colored points. The dataset also contains ~100k synthetically rendered images and scene coordinates generated form the point cloud. Furthermore, the dataset includes ~30k real photos of the space recorded by an iPhone 6 together with camera poses captured by a WorldViz system.
DOI: 10.6073/pasta/55eda6881dcf45977626c58e3f24b82e
title: Farmer surveys at the Kellogg Biological Station, Hickory Corners, MI (2011)

description: Dataset AbstractFarmers are surveyed to understand their perception of and response to climate change. This data forms part of the basis for Stuart, D., R. L. Schewe, and M. McDermott. 2012. Responding to climate change: barriers to reflexive modernization in US agriculture. Organization & Environment 25:308-327original data source http://lter.kbs.msu.edu/datasets/123
DOI: 10.5283/orgelpr.portal
title: Orgelpredigt

description: Das Portal "Orgelpredigt" präsentiert gedruckte Orgelweihpredigten des 17. und 18. Jahrhunderts in einer digitalen Volltextedition. Die Texte sind wissenschaftlich kommentiert. Einführungen bieten Einblick in die historischen, konfessionellen und musikalischen Hintergründe der jeweiligen Orgelweihe. Die Autoren der Predigten und die damals erbauten Instrumente werden in begleitenden Artikeln vorgestellt.
DOI: 10.6084/m9.figshare.16618255.v2
title: Pearl River estuary microbiome and virome

description: <b>Project description:</b> Deep metagenomic sequencing on microbial and viral communities in surface waters of the Pearl River estuary (PRE), a typical subtropical. <b>Data description: </b>Data for assembly, MAGs, viral like contigs and populations generated using the PRE microbial metagenomic data sets - data includes:PRET1608S??F00_idba-ud_final.fna.gz: the contigs generated from virome(&lt;0.2 μm) (5 files).PRET1608S??F0{2/7}_megahit_final.fna.gz: the contigs generated from cellular metagenome(0.2-0.7 μm and 0.7-2.7μm) (10 files).PRE_viral_contigs.fasta: Putative viral contigs identified from contigs of all the three size fractions in PRE (1 file).PRE_viral_contigs_95-80.fna: Viral populations based on 95% nucleotide identity and 80% of the genome coverage criterion (1 file).Table1-SingleCopyMarkers.xlsx: The information of 122 archaeal single-copy marker proteins and 120 bacterial single-copy marker proteins were used to infer the maximum likelihood trees of archaeal and bacterial phylogenetic trees, respectively (1 file). Table2-MAGsGTDBdatabaseTaxonomicClassification.xlsx: Taxonomic classification of the final MAGs conducted by applying GTDB-tk (v1.4.0) based on the GTDB Release 202 (1 file).Table3-ViralPopulationQualitySummary.xlsx: Summary of the completeness and quality of the identified viral populations (1 file). Table4-ViralPopulationTaxonomy.xlsx: Taxonomic classification of viral populations (1 file).File1-PRE_archaea.trimmed.concat.alignment & File2-PRE_bacteria.trimmed.concat.alignment: The concatenated alignment for further phylogenomic analysis (2 files).File3-PRE_archaea.trimmed.concat.newick & File4-PRE_bacteria.trimmed.concat.newick: The genome trees (2 files).<br>File5-PRE_archaea.tree.iTOL.labels.txt & File6-PRE_bacteria.tree.iTOL.labels.txt: The iTOL annotation file of the genome trees (2 files).<br>
DOI: 10.25345/c50g4v
title: MassIVE MSV000088470 - Regulation of the BCR signalosome by the class II peptide editor, H2-M, affects the development and repertoire of innate-like B cells
title: Immunopeptidome analysis from WT and H2M-KO mice using M5/114, 15G4 and KH74 antibody were analyzed. Details are published in the paper "Regulation of the BCR signalosome by the class II peptide editor, H2-M, affects the development and repertoire of innate-like B cells".
DOI: 10.6084/m9.figshare.14467068.v1
title: Galapagos Snapper Tracking Data and Hydrophone Location

description: During 2013 and 2014, 20 pacific dog snapper were collected and acoustically tagged in two mangrove creeks on the southern side of Isla Isabella in the Galapagos archipelago. Dog snapper were tracked using 12 acoustic receivers haphazardly placed throughout the two creeks from June of 2013 to March of 2014. Additionally, two HOBO environmental loggers were placed in each creek along with 1 pressure logger used to measure salinity, temperature, and water level associated with tidal shifts. Of the twenty dog snapper tagged all of which were detected in the creek that they were tagged, 16 (80%) remained for the duration of the study. <br>The data presented herein are individual detections in east creek and west creek with environmental conditions from each HOBO and water level sensor. Measurements were inferred as the distance to the creek mouth measured to receivers and areas of receiver detection overlap. <br><br>To infer distance to mouth, we used areas of receiver detection overlap. We have included the .csv of the combination of receiver overlap and their corresponding distance from the creek mouth.<br>
DOI: 10.6084/m9.figshare.14467068
title: Galapagos Snapper Tracking Data and Hydrophone Location

description: During 2013 and 2014, 20 pacific dog snapper were collected and acoustically tagged in two mangrove creeks on the southern side of Isla Isabella in the Galapagos archipelago. Dog snapper were tracked using 12 acoustic receivers haphazardly placed throughout the two creeks from June of 2013 to March of 2014. Additionally, two HOBO environmental loggers were placed in each creek along with 1 pressure logger used to measure salinity, temperature, and water level associated with tidal shifts. Of the twenty dog snapper tagged all of which were detected in the creek that they were tagged, 16 (80%) remained for the duration of the study. <br>The data presented herein are individual detections in east creek and west creek with environmental conditions from each HOBO and water level sensor. Measurements were inferred as the distance to the creek mouth measured to receivers and areas of receiver detection overlap. <br><br>To infer distance to mouth, we used areas of receiver detection overlap. We have included the .csv of the combination of receiver overlap and their corresponding distance from the creek mouth.<br>
DOI: 10.5445/ir/1000140344
title: Reconstructed ptychographic X-ray computed tomography data sets of the dried gel Ni/Al$_{2}$O$_{3}$-dr, Al$_{2}$O$_{3}$-dr samples and the calcined samples Ni/Al$_{2}$O$_{3}$-calc, Al$_{2}$O$_{3}$-calc

description: Reconstructed ptychographic X-ray computed tomography data sets acquired at Swiss Light Source, Beamline cSAXS (proposal MG24079-1) of the dried gels Al2O3-dr and NiAl2O3-dr and the calcined samples Al2O3-calc and NiAl2O3-calc of the identical particles. Detailed information regarding sample preparation and experimental conditions are available in the respective publication and electronic supplementary information.
DOI: 10.6073/pasta/7385985f68b02c0deb2a9e425a9f3ad8
title: Hourly water temperature from the San Francisco Estuary, 1986 - 2019

description: Projected temperature increases due to global climate change are likely to have localized impacts on the San Francisco Estuary (SFE). Increased water temperature in the SFE will lead to challenges for managing water resources. Many native species, such as salmon and smelt, rely on cooler water, and will be further stressed by increased water temperature. While real-time water temperature is collected by several state and federal agencies in the San Francisco Estuary, a landscape-scale synthesis of available water temperature data has not been conducted for the SFE. For this dataset, we compiled continuous water temperature data and associated metadata from the SFE to generate an integrated and usable dataset of known quality for climate and ecological analysis. Data were obtained from the California Data Exchange Center (CDEC; https://cdec.water.ca.gov/) for consistency (data are untreated) and efficiency (existing code to download data directly from CDEC). Data were integrated and standardized to hourly water temperature data in degrees Celsius. A series of quality control (QC) checks were then applied in a consistent manner to all stations. Datasets included in this package include raw hourly data, flagged data, and filtered data (where flagged data are removed). Additionally, information regarding current and historical sensors used for water temperature data collection was obtained from station managers for each station, and compiled in a metadata table.
DOI: 10.6073/pasta/99f6b6ab2db87ea601152f21a78e9533
title: Eddy covariance 30-minute CO2 fluxes with accompanying biophysical variables from the GCE-LTER flux tower site from December 2018 to January 2020

description: Eddy covariance (EC) CO2 fluxes from December 2018 to January 2020 collected over a Spartina alterniflora marsh located on the western side of Sapelo Island bounded by the Duplin River and Barn Creek. EC fluxes were processed in EddyPro 7. Additional biophysical variables included are air temperature, relative humidity, vapor pressure deficit, soil temperature, and water table height from a nearby tidal creek.
DOI: 10.6073/pasta/be53e3d4e7fb5091e16913fe251867c8
title: Monthly Vegetation and Invertebrate Population Monitoring near the Georgia Coastal Ecosystems LTER Flux Tower

description: Permanent study plots were established in a Spartina alterniflora-dominated marsh in the vicinity of the Georgia Coastal Ecosystems LTER Flux Tower to provide measurements of plant biomass and invertebrate population density over time for comparison with marsh-atmospheric CO2 exchange. Six replicate plots were randomly placed within each of three height zones of Spartina alterniflora (i.e. short, medium and tall Spartina). Beginning in June 2013, surveys were conducted approximately monthly to determine abundance of Littoraria irrorata, Prokelisia marginata, and grasshoppers in each plot. Plant species, stem density, height, and flowering status were also measured in each of the plots, and biomass was calculated using allometric relationships between plant height, flowering status and mass from plant clipping studies. During these surveys, destructive core sampling was also performed in the proximity of the plots (n = 2 per zone) to measure above and below ground biomass for each Spartina zone. Beginning in February 2016, chlorophyll measurements were taken in the proximity of the plots in each Spartina zone (n = 15 per zone).
DOI: 10.25550/b-vqm4
title: Harnessing the therapeutic potential of neural crest cells by manipulating the primary cilium

description: Craniofacial anomalies (CFAs) comprise 75% of congenital defects and represent a biomedical burden of almost 700 million dollars per year in the United States. Surgical repair of CFAs is difficult and often requires a large source of skeletal tissue to replace/reconstruct the facial skeleton. Bone grafts used to repair CFAs frequently fail to integrate and are commonly allografts from mesodermally derived bone. This is a suboptimal tissue source since the facial skeleton is embryonically derived from an entirely different population of cells called neural crest cells (NCCs). NCCs; however, have not been used in tissue engineering approaches because a robust, postnatal source of cells does not exist and their multipotent nature raises concerns of regarding uncontrolled differentiation. The over-arching, long-term goal of my laboratory is to integrate our understanding of the cellular, molecular and biochemical mechanisms of NCC development and apply this knowledge towards generating novel therapeutic strategies for generating a robust source of NCC-derived tissues amenable for the surgical repair of craniofacial anomalies. To achieve this goal, we are focusing on precisely directing NCCs proliferation and differentiation into skeletal tissue via manipulation of the primary cilia, the cellular organelle which functions as the signaling hub of all cells. Gaining a firm understanding of how the primary cilia work to transduce molecular signals in NCCs, and other cells, will likely identify several novel therapeutic options for disease treatment. The impact of our work would be broad and far-reaching as it has the potential to revolutionize how CFAs and ciliopathies are treated.
DOI: 10.6073/pasta/3e78ff1dc5e4f102ddbca5e876c9c861
title: Eddy covariance 30-minute CO2 fluxes with accompanying biophysical variables from the Grand Bay, Mississippi flux tower site from March 2018 to January 2019

description: Eddy covariance (EC) CO2 fluxes from March 2018 to January 2019 collected over a Juncus roemerianus marsh located in the Grand Bay National Estuarine Research Reserve (NERR) in Mississippi. EC fluxes were processed in EddyPro 7. Additional biophysical variables included are air temperature, relative humidity, vapor pressure deficit, soil temperature, and water table height within the marsh.
DOI: 10.6073/pasta/6b9e1cb50a6f13f944fd3eba3d37a65c
title: Leaf area index and above ground biomass for Juncus roemerianus in the Grand Bay National Estuarine Research Reserve from 2015 to 2019

description: Leaf area index (LAI) and above ground biomass were measured in 16 permanent Juncus roemerianus vegetation plots located in the Grand Bay National Estuarine Research Reserve in Mississippi. Data were collected from 2015 to 2019. LAI were measured using a handheld ceptometer. Above ground biomass for each plot were collected from core samples.
DOI: 10.15468/rkbxdt
title: A new choristodere (Reptilia: Diapsida) from the Lower Cretaceous of western Liaoning Province, China, and phylogenetic relationships of Monjurosuchidae

description: This dataset contains the digitized treatments in Plazi based on the original journal article Gao, Ke-Qin, Fox, Richard C. (2005): A new choristodere (Reptilia: Diapsida) from the Lower Cretaceous of western Liaoning Province, China, and phylogenetic relationships of Monjurosuchidae. Zoological Journal of the Linnean Society 145 (3): 427-444, DOI: 10.1111/j.1096-3642.2005.00191.x, URL: https://academic.oup.com/zoolinnean/article-lookup/doi/10.1111/j.1096-3642.2005.00191.x
DOI: 10.6073/pasta/b452c7c780079060e0cd17db08f6089e
title: McMurdo Dry Valleys LTER: High frequency seasonal stream gage measurements from Von Guerard Stream at F6 in Taylor Valley, Antarctica from 1990 to present

description: As part of the Long Term Ecological Research (LTER) project in the McMurdo Dry Valleys of Antarctica, a systematic sampling program has been undertaken to monitor the glacial meltwater streams in that region. This package contains data pertaining to continuous monitored water quality and quantity parameters measured with automatic recording devices on streams in this region. Specifically, this metadata record describes the hydrology data set for the McMurdo Dry Valley's Von Guerard Stream at F6, located in the Fryxell Basin of Taylor Valley. Measurements commenced during the 1990-91 season. The Von Guerard Stream gage (at -77.608269, 163.253853) was removed on 20 Dec 2012 due to lake level rise. A new gage upstream (at -77.609210, 163.254203) has been in use since the 2012-2013 season.Â
DOI: 10.6073/pasta/81cfcad244f7d3f6a6fcdab83ea75849
title: McMurdo Dry Valleys Stream Nutrients (nitrate, nitrite, ammonium, reactive phosphorus)

description: As part of the Long Term Ecological Research (LTER) project in the McMurdo Dry Valleys of Antarctica, a systematic sampling program has been undertaken to monitor the glacial meltwater streams in that region. This table contains macronutrient concentrations found at specific locations in McMurdo Dry Valley streams.
DOI: 10.6073/pasta/d6e4301bf93fba0fef6fd5c33a092aaf
title: Surface and hyporheic porewater chemistry and sediment nitrification potentials in Von Guerard Stream, McMurdo Dry Valleys, Antarctica (2018-2020)

description: Surface water and hyporheic porewater samples were collected at high frequency during the 2017-18 (01/20/2018-01/21/2018) and 2018-19 (01/10/2019-01/12/2019) flow seasons, and opportunistically throughout the 2019-20 flow season (12/17/2019-1/25/2020) from the lower reaches of Von Guerard Stream, Taylor Valley, McMurdo Dry Valleys, Antarctica. Porewater samples were collected using plastic tubing inserted to depths of 15 or 30 cm and drawn out by syringe. This data package includes sampling locations and water chemistry data (including concentrations for dissolved organic nitrogen species, dissolved organic carbon, silica, as well as water isotopes). A laboratory nitrification potential assay was performed on sediments collected from Von Guerard stream during the 2017-18 flow season to assess the functional microbial potential of the hyporheic microbial community to perform nitrification.
DOI: 10.25921/h0ch-ng07
title: AZFP Water Column Sonar Data Collected Duringen615-vac-55144 Deployment
DOI: 10.25345/c5w00k
title: MassIVE Reanalysis RMSV000000352.1 - MSV000081468: add ReDU metadata
title: MSV000081468 breastmilk negative mode: add ReDU metadata for reanalysis
DOI: 10.25386/genetics.16908922
title: Supplemental Material for Yang et al., 2021

description: Supplementary File S1. This file. Supplemental methods and results.<br>Supplementary File S2. Sequence and annotation for the plasmid used to generate the phiC31 landing pad via MosSCI. SnapGene compatible file. <br>Supplementary File S3. PhiC31 recombination mediated cassette exchange (RMCE) protocol. <br>Supplementary File S4. Fasta file containing 7 sequences: attB_retrofitted_Sinv47D10_short (original and partially corrected) and attB_retrofitted_Sinv47D10 (original and partially corrected) BACs as well as the LG II sequences, which carry the antIs31, antIs32, and antIs33 sequences, for BRC0566, BRC0906, and BRC0882, respectively.<br><br><br>Supplementary Figure S1. Construction of pCG150_double_phiC31_attB plasmid.<br>Supplementary Figure S2. Design of dual color operon reporters.<br>Supplementary Figure S3. Ladder PCR of single-copy insertions of transgenes.<br>Supplementary Figure S4. Confirmation that phiC31 expressed from the antIs30 transgene is spliced.<br>Supplementary Figure S5. phiC31 integrase mediated RMCE using antIs30 in C. elegans.<br>Supplementary Figure S6. Validation of 33.4 kb BAC integration.<br>Supplementary Figure S7. Large BAC integration attempt.<br><br><br>Supplementary Table S1. Strains used and generated in this study.<br>Supplementary Table S2. Information for RMCE and other plasmids used in this study.<br>Supplementary Table S3. Primers used in this study and associated important sequences.<br>Supplementary Table S4. PCR assay results for candidate insertion lines derived from the longer BAC, attB_retrofitted_Si47D10<br>
DOI: 10.25386/genetics.16908922.v2
title: Supplemental Material for Yang et al., 2021

description: Supplementary File S1. This file. Supplemental methods and results.<br>Supplementary File S2. Sequence and annotation for the plasmid used to generate the phiC31 landing pad via MosSCI. SnapGene compatible file. <br>Supplementary File S3. PhiC31 recombination mediated cassette exchange (RMCE) protocol. <br>Supplementary File S4. Fasta file containing 7 sequences: attB_retrofitted_Sinv47D10_short (original and partially corrected) and attB_retrofitted_Sinv47D10 (original and partially corrected) BACs as well as the LG II sequences, which carry the antIs31, antIs32, and antIs33 sequences, for BRC0566, BRC0906, and BRC0882, respectively.<br><br><br>Supplementary Figure S1. Construction of pCG150_double_phiC31_attB plasmid.<br>Supplementary Figure S2. Design of dual color operon reporters.<br>Supplementary Figure S3. Ladder PCR of single-copy insertions of transgenes.<br>Supplementary Figure S4. Confirmation that phiC31 expressed from the antIs30 transgene is spliced.<br>Supplementary Figure S5. phiC31 integrase mediated RMCE using antIs30 in C. elegans.<br>Supplementary Figure S6. Validation of 33.4 kb BAC integration.<br>Supplementary Figure S7. Large BAC integration attempt.<br><br><br>Supplementary Table S1. Strains used and generated in this study.<br>Supplementary Table S2. Information for RMCE and other plasmids used in this study.<br>Supplementary Table S3. Primers used in this study and associated important sequences.<br>Supplementary Table S4. PCR assay results for candidate insertion lines derived from the longer BAC, attB_retrofitted_Si47D10<br>
DOI: 10.25386/genetics.16908922.v1
title: Supplemental Material for Yang et al., 2021

description: Supplementary File S1. This file. Supplemental methods and results.<br>Supplementary File S2. Sequence and annotation for the plasmid used to generate the phiC31 landing pad via MosSCI. SnapGene compatible file. <br>Supplementary File S3. PhiC31 recombination mediated cassette exchange (RMCE) protocol. <br>Supplementary File S4. Fasta file containing 7 sequences: attB_retrofitted_Sinv47D10_short (original and partially corrected) and attB_retrofitted_Sinv47D10 (original and partially corrected) BACs as well as the LG II sequences, which carry the antIs31, antIs32, and antIs33 sequences, for BRC0566, BRC0906, and BRC0882, respectively.<br><br><br>Supplementary Figure S1. Construction of pCG150_double_phiC31_attB plasmid.<br>Supplementary Figure S2. Design of dual color operon reporters.<br>Supplementary Figure S3. Ladder PCR of single-copy insertions of transgenes.<br>Supplementary Figure S4. Confirmation that phiC31 expressed from the antIs30 transgene is spliced.<br>Supplementary Figure S5. phiC31 integrase mediated RMCE using antIs30 in C. elegans.<br>Supplementary Figure S6. Validation of 33.4 kb BAC integration.<br>Supplementary Figure S7. Large BAC integration attempt.<br><br><br>Supplementary Table S1. Strains used and generated in this study.<br>Supplementary Table S2. Information for RMCE and other plasmids used in this study.<br>Supplementary Table S3. Primers used in this study and associated important sequences.<br>Supplementary Table S4. PCR assay results for candidate insertion lines derived from the longer BAC, attB_retrofitted_Si47D10<br>
DOI: 10.48366/r155248
title: Mineralogical analysis of Mars in Visible-infrared wavelength range of electromagnetic spectrum using MRO's CRISM-2

description: This comparison presents an overview of several minerals detected on the Martian surface from the Compact Reconnaissance Imaging Spectrometer for Mars (CRISM) spectrometer onboard Mars Reconnaissance Orbiter (MRO). Various contributions covering the key Martain locations are included in this comparison. This will help the students and researchers in the field of Martian geology.