cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6073/pasta/93361f7bb4b2418cd1ad1ae4fd9c1de3
title: Impact of Hemlock Woolly Adelgid on Canopy Throughfall in Southern New England 2002

description: Non-native insect pests may strongly disrupt forest ecosystems and trigger major shifts on nutrient cycling, structure and composition. Although the immediate impact of these pests are frequently examined as physical disturbances (i.e., defoliation, decline in leaf area, and tree mortality) that initiate changes in ecosystem function, the insects often generate fundamental biochemical and trophic changes in tree canopies that may be equally important in altering ecosystem dynamics. Consequently, investigation of the linkages between canopy-level, ecosystem and environmental impacts may be critical for a thorough understanding of functional, structural, and compositional changes resulting from pest infestation. We sought to establish a better understanding of these linkages for the hemlock woolly adelgid (HWA), which is devastating hemlock forests in an expanding region across eastern North American and has the potential to eliminate this long-lived and extremely shade-tolerant species across much of its range. We examined the impact of the adelgid on hemlock needle chemistry and epiphytic microorganisms, litter production, and shoot growth in stands differing in their levels of infestation and linked these to shifts in canopy nutrient cycling and stand and landscape dynamics. HWA initiated major changes in canopy biomass and distribution. Whereas uninfested trees exhibit a decline in canopy biomass from the center to the periphery and a positive correlation between total needle litter and estimated biomass, infested trees support predominantly woody biomass, have significantly less total canopy biomass, produce less new foliage and exhibit no correlation between litter and canopy biomass. Foliar %N was strongly influenced by needle age and the level of infestation and was highest in young foliage supporting the highest densities of HWA. Foliar %C was unaffected by HWA or foliar age. Epiphytic microorganisms on hemlock needles exhibited little variation in abundance within canopies, but bacteria, yeasts and filamentous fungi were significantly more abundant on medium and heavily infested than uninfested trees. Throughfall chemistry, quantity, and spatial pattern were strongly altered by HWA. Beneath uninfested trees throughfall exhibits a strong gradient, decreasing in volumes from the canopy periphery to the trunk. Beneath infested trees the amount of throughfall is greatly increased, spatially unpatterned and characterized by higher concentrations of nitrogen compounds, carbon and cations. Across the southern New England landscape there is a strong south to north gradient of decreasing tree and sapling mortality and understory compositional change that correspond to the duration of infestation. Regionally, black birch, a nitrogen demanding species that is competitively enhanced by increasing nitrogen availability is profiting most from hemlock decline.
DOI: 10.5281/zenodo.10083535
title: Whole genome sequencing data for Saccharomyces cerevisiae CBS 493.94

description: SNP distance matrix.
DOI: 10.5281/zenodo.10083536
title: Whole genome sequencing data for Saccharomyces cerevisiae CBS 493.94
DOI: 10.5281/zenodo.10209995
title: Whole genome sequencing data for Saccharomyces cerevisiae CBS 493.94
DOI: 10.5281/zenodo.10260328
title: Whole genome sequencing data for Saccharomyces cerevisiae CBS 493.94

description: AGUSTUS coding sequences results
DOI: 10.5281/zenodo.10262057
title: Whole genome sequencing data for Saccharomyces cerevisiae CBS 493.94

description: SNP distance matrix.
DOI: 10.18462/iir.icr.2023.0251
title: Experimental study on an adsorption desalination prototype with performance enhanced by heat and mass recovery scheme.
DOI: 10.18462/iir.icr.2023.0247
title: Measurement and investigation of adhesion force of cationic surfactant mixture on copper plate with voltage applied.
DOI: 10.18462/iir.icr.2023.0246
title: A novel performance model based on capacity utilization rate of variable refrigerant flow air conditioning system.
DOI: 10.4121/21400218
title: Aperture dataset: Sensory weighting of position and force feedback during pinching

description: The provided Matlab structure consists of three tables, two data structures, and one main data array called "SIFdataRAW". The main data structure is a 1799 by 7 double. Columns from left to right:<br>1. participant2. block3. condition4. repetition5. pinch force6. aperture7. timing button press<br>The tables contain information about the participants (nr, code, gender, handedness), the experiment blocks (stiffness), and the conditions (trial types). The data structures contain data during the full reach of the experiment and data sections cut around the moment of button press.
DOI: 10.4121/21400218.v1
title: Aperture dataset: Sensory weighting of position and force feedback during pinching

description: The provided Matlab structure consists of three tables, two data structures, and one main data array called "SIFdataRAW". The main data structure is a 1799 by 7 double. Columns from left to right:<br>1. participant2. block3. condition4. repetition5. pinch force6. aperture7. timing button press<br>The tables contain information about the participants (nr, code, gender, handedness), the experiment blocks (stiffness), and the conditions (trial types). The data structures contain data during the full reach of the experiment and data sections cut around the moment of button press.
DOI: 10.18462/iir.icr.2023.0232
title: Single-phase parallel ejector: an experimental study.
DOI: 10.18462/iir.icr.2023.0228
title: Investigation of a novel CO2 ultrahigh-lift ejector cycle with an additional subcooling heat exchanger.
DOI: 10.5517/ccdc.csd.cc27vkd2
title: CCDC 2081104: Experimental Crystal Structure Determination

description: Related Article: Yu-Bai Wei, Dong Luo, Xiao Xiong, Yong-Liang Huang, Mo Xie, Weigang Lu, Dan Li|2022|Chemical Science|13|4813|doi:10.1039/D2SC00188H
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.6073/pasta/ae495f267c5e897277ae0cfd2c8bc77d
title: Avian Response to Hemlock Woolly Adelgid in Southern New England 2000-2001

description: This study examines changes in avian community composition associated with the decline and loss of eastern hemlock (Tsuga canadensis (L.) Carr.) resulting from chronic hemlock woolly adelgid (Adelges tsugae Annand; HWA) infestations. Overstory hemlock mortality was highly correlated with avian community composition. Abundance of eastern wood-pewee (Contopus virens), brown-headed cowbird (Molothrus ater), tufted titmouse (Baeolophus bicolor), white-breasted nuthatch (Sitta carolinensis), red-eyed vireo (Vireo olivaceus),hooded warbler (Wilsonia citrina), and several woodpecker species was highest at points with greater than 60% mortality. Black-throated green warbler (Dendroica virens), Acadian flycatcher (Empidonax virescens), blackburnian warbler (Dendroica fusca), and hermit thrush (Catharus guttatus) were strongly associated with intact hemlock stands that exhibit little or no mortality from HWA. Eastern hemlock has unique structural characteristics that provide important habitat for numerous bird species in the northeastern U.S. As a result, removal of hemlock by HWA has profound effects on avian communities. Black-throated green warbler, blackburnian warbler, and Acadian flycatcher are very strongly associated with hemlock forests in southern New England and appear to be the species that are particularly sensitive to hemlock removal. The hooded warbler, a species whose status is of regional concern, may actually benefit from the development of a dense seedling layer associated with high hemlock mortality.
DOI: 10.5517/ccdc.csd.cc28ztmq
title: CCDC 2114994: Experimental Crystal Structure Determination

description: Related Article: Lifang Bian, Min Tang, Jiali Liu, Yimin Liang, Lin Wu, Zhichang Liu|2022|J.Mater.Chem.C|10|15394|doi:10.1039/D2TC03506E
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc29y2p1
title: CCDC 2143113: Experimental Crystal Structure Determination

description: Related Article: Hao Zhang, Feng-Yu Chen, Zhi-Yong Liu, Yu-Hui Luo, Zi-Lin Zhou, Xue-Meng Jia, Xin Wang, Yun-Qiong Yang|2023|New J.Chem.|47|21081|doi:10.1039/D3NJ03470D
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2bjpk4
title: CCDC 2160996: Experimental Crystal Structure Determination

description: Related Article: Shu-Fang Li, Liang Hu, Yao Ma, Fei-Fei Mao, Jie Zheng, Xiu-Du Zhang, Dong Yan|2022|Inorg.Chem.|61|10182|doi:10.1021/acs.inorgchem.2c01381
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2cpdn4
title: CCDC 2195316: Experimental Crystal Structure Determination

description: Related Article:  Yutong Wang, Mingyue Fu, Sainan Zhou, Hongyan Liu, Xiaokang Wang, Weidong Fan, Zhanning Liu, Zhikun Wang, Dacheng Li, Hongguo Hao, Xiaoqing Lu, Songqing Hu, Daofeng Sun|2022|Chem (Cell Press)|8|3263|doi:10.1016/j.chempr.2022.08.014
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2d7z2q
title: CCDC 2212193: Experimental Crystal Structure Determination

description: Related Article: Wenhui Li, Shuangping Huang, Qiang Liu, Xing Li, Wenwen Chen|2023|Org.Chem.Front.|10|6172|doi:10.1039/D3QO01208E
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5281/zenodo.10261848
title: Transcription Factor Co-Expression Mediates Lineage Priming for Embryonic and Extra-Embryonic Differentiation

description: In early mammalian development, cleavage stage blastomeres and inner cell mass (ICM) cells co-express embryonic and extra-embryonic transcriptional determinants. Using a double protein-based reporter we identify an embryonic stem cell (ESC)population that co-expresses the extra-embryonic factor GATA6 alongside the embryonic factor SOX2. Based on single cell transcriptomics, we find this population resembles the unsegregated ICM, exhibiting enhanced differentiation potential for endoderm while maintaining epiblast competence. To relate transcription factor binding in these to future fate, we describe a complete enhancer set in both ESCs and naïve extra-embryonic endoderm stem cells and assess SOX2 and GATA6 binding at these elements in the ICM-like ESC sub-population. Both factors support cooperative recognition in these lineages, with GATA6 bound alongside SOX2 on a fraction of pluripotency enhancers and SOX2 alongside GATA6 more extensively on endoderm enhancers, suggesting that cooperative binding between these antagonistic factors both supports self-renewal and prepares progenitor cells for later differentiation.
DOI: 10.5281/zenodo.10261849
title: Transcription Factor Co-Expression Mediates Lineage Priming for Embryonic and Extra-Embryonic Differentiation

description: In early mammalian development, cleavage stage blastomeres and inner cell mass (ICM) cells co-express embryonic and extra-embryonic transcriptional determinants. Using a double protein-based reporter we identify an embryonic stem cell (ESC)population that co-expresses the extra-embryonic factor GATA6 alongside the embryonic factor SOX2. Based on single cell transcriptomics, we find this population resembles the unsegregated ICM, exhibiting enhanced differentiation potential for endoderm while maintaining epiblast competence. To relate transcription factor binding in these to future fate, we describe a complete enhancer set in both ESCs and naïve extra-embryonic endoderm stem cells and assess SOX2 and GATA6 binding at these elements in the ICM-like ESC sub-population. Both factors support cooperative recognition in these lineages, with GATA6 bound alongside SOX2 on a fraction of pluripotency enhancers and SOX2 alongside GATA6 more extensively on endoderm enhancers, suggesting that cooperative binding between these antagonistic factors both supports self-renewal and prepares progenitor cells for later differentiation.
DOI: 10.6073/pasta/8086dbebb71dc98ba492345258ca67b7
title: Dendrochronological Record in Hemlock Removal Experiment at Harvard Forest 2004-2006

description: As part of the long-term goal of reconstructing the stand and land-use history of the Simes Tract at Harvard Forest, trees were cored from the 8 hemlock and hardwood plots in the Hemlock Removal Experiment. Cores were sanded and growth was measured. The data were used for the 2006 senior thesis (Division III paper) of Peter Bettman-Kerson at Hampshire College ("Dendrochronological reconstruction of historical disturbances in a hemlock forest at the Harvard Forest, Petersham, MA"). This dataset is the raw growth data for 230 trees sampled across the 8 plots.
DOI: 10.6084/m9.figshare.24746607
title: Antimicrobial peptides

description: The data set collected 5,000 antimicrobial peptide chains for research combining deep learning and clinical medicine
DOI: 10.6073/pasta/944199f2497a20ff7ca1346509e7d2f4
title: Witness Tree Data in Southern New England and Long Island 1640-1999

description: Early surveyors' witness-tree records from initial land divisions are often used to reconstruct the vegetation at the time of European settlement and before extensive Euro-American land use. The following description of methods comes from the published paper (Hall, B., G .Motzkin, D. R. Foster, M. Syfert and J. Burk. 2002. Three hundred years of forest and land-use change in Massachusetts, USA. Journal of Biogeography 29, 1319-1335): "Following methods described more fully in Cogbill et al. (2002), we used early surveyors' tree records from initial land divisions in each town to reconstruct the vegetation at the time of European settlement and before extensive Euro-American land use. All available original 17th - early 19th century survey records located at the state archives and individual town halls were examined and colloquial or common names of marker trees were noted... With few exceptions, only surveys that occurred within 80 years of town settlement were gathered in order to limit the potential influence of European land use on species composition."
DOI: 10.6073/pasta/0d4bf41ee32cf5de5dac47193669374e
title: Massachusetts Growing Degree Day and Precipitation Maps 2003

description: A regression model that estimates monthly temperature and precipitation as a function of latitude, longitude, and elevation for the New England area was used to estimate annual growing degree days and precipitation for the state of Massachusetts. For details of the regression model please see the published paper (Ollinger, S.V., Aber, J.D., Federer, C.A., Lovett, G.M., Ellis, J.M., 1995. Modeling Physical and Chemical Climate of the Northeastern United States for a Geographic Information System. US Dept of Agriculture, Forest Service, Radnor, PA, USA).
DOI: 10.6073/pasta/948ab5fa297bdad159565ca3018cd734
title: Environment and History in a Rich Mesic Forest in Western Massachusetts 1999-2001

description: In rich mesic forests, modern vegetation varies among primary versus post-agricultural, secondary forests, in part as a result of differential rate and ability of forest herbs to colonize after disturbance. Species with seeds lacking morphological adaptations for dispersal (barochores) and those which produce seeds with elaisomes to encourage ant dispersal (myrmecochores) may remain less frequent in secondary forests for decades or more.
DOI: 10.6084/m9.figshare.24647532.v7
title: criminal-charge-in-taiwan.csv

description: This dataset is used for NLP research and primarily collects criminal judgment cases from Taiwan district courts from January 2020 to April 2022.
DOI: 10.5281/zenodo.10260472
title: Planacheaux 2007 autumn survey radar intensity data

description: Hourly intensity of bird migration within height intervals of 50m recorded by a fixed beam radar (see Komenda-Zehnder et al. 2010):
Komenda-Zehnder, S., L. Jenni, und Felix Liechti. "Do birds captures reflect migration intensity? - Trapping numbers on an Alpine pass compared with radar counts". Journal of Avian Biology 41 (2010): 434–44. https://doi.org/10.1111/j.1600-048X.2010.04891.x 
 
Description of variables
date: day – month – year
hour: 0 – 23 (0 corresponds to the time interval 00:00 – 00:59 UTC-1)
height: -275 – 5275 height intervals of 50m (e.g 125 corresponds to the height interval of 100 - 150m above the radar)
MTR: migration traffic rate (corresponds to the number of birds crossing a virtual line of 1km within 1h)
DOI: 10.5281/zenodo.10260473
title: Planacheaux 2007 autumn survey radar intensity data

description: Hourly intensity of bird migration within height intervals of 50m recorded by a fixed beam radar (see Komenda-Zehnder et al. 2010):
Komenda-Zehnder, S., L. Jenni, und Felix Liechti. "Do birds captures reflect migration intensity? - Trapping numbers on an Alpine pass compared with radar counts". Journal of Avian Biology 41 (2010): 434–44. https://doi.org/10.1111/j.1600-048X.2010.04891.x 
 
Description of variables
date: day – month – year
hour: 0 – 23 (0 corresponds to the time interval 00:00 – 00:59 UTC-1)
height: -275 – 5275 height intervals of 50m (e.g 125 corresponds to the height interval of 100 - 150m above the radar)
MTR: migration traffic rate (corresponds to the number of birds crossing a virtual line of 1km within 1h)
DOI: 10.5281/zenodo.10261987
title: eNATL60-BLBT02 TSW 60m y2010m01

description: Daily files of eNATL60-BLBT02 Temperature Salinity and Vertical velocity fields at 60m for year 2010 month 01
DOI: 10.5281/zenodo.10261988
title: eNATL60-BLBT02 TSW 60m y2010m01

description: Daily files of eNATL60-BLBT02 Temperature Salinity and Vertical velocity fields at 60m for year 2010 month 01
DOI: 10.17632/mcv528j9c6.1
title: Supplementary Tables

description: The study Investigated the correlation between fungal diversity and the spread of Epidendrum hybrids. I hypothesized that Epidendrum hybrids maintain a core group of conserved fungal taxa that demonstrates overlaps among different geographic regions. However, I also anticipated that each region would host its unique fungal community. In the supplementary tables TS1 and TS2, you will find the single-end forward reads processed through QIIME2 software version 2023.7. These reads underwent denoising, removal of chimera, and filtration of Amplicon Sequencing Variants (ASV) using the DADA2 plugin. Subsequently, supplementary tables TS2 and TS4 present the Operational Taxonomic Units (OTUs) obtained post the application of the 'vsearch' plugin. The taxonomic assignment of these OTUs was executed using the qiime feature classifier plugin, referencing the UNITE fungal database version 9.0 for Qiime2.
DOI: 10.15151/esrf-es-1324918289
title: Cryo-electron microscopy EPN BAG

description: At the EPN campus level structural biology work is carried out in all the 4 institutes (IBS, ESRF, ILL and EMBL). Today all structural biology groups are turning to cryo-EM. The EM demand is therefore extremely high and present in the 4 Institutes. In a nutshell, there are more than 45 PIs that could benefit from Krios time on the EPN campus (more than 90 different samples). Around 20 % of the sample are ready for high resolution data collection with already prepared grids that have been pre-screened on Glacios microscopes. Whereas some work could be carried out on Glacios microscopes, for difficult samples the use of a krios is indispensable (heterogeneous sample or limited concentration requiring a large number of images; small protein etc). Only these samples will be selected for Krios time at the BAG level
DOI: 10.6084/m9.figshare.24639531
title: CDR3b sequencing data

description: CDR3 beta files from Adaptive ImmunoSEQ analysed in the paper "T-cell receptor determinants of response to chemoradiation in locally-advanced HPV16-driven malignancies" and published in Frontiers in Oncology (DOI 10.3389/fonc.2023.1296948).
DOI: 10.6084/m9.figshare.24639531.v1
title: CDR3b sequencing data

description: CDR3 beta files from Adaptive ImmunoSEQ analysed in the paper "T-cell receptor determinants of response to chemoradiation in locally-advanced HPV16-driven malignancies" and published in Frontiers in Oncology (DOI 10.3389/fonc.2023.1296948).
DOI: 10.5281/zenodo.10262011
title: Alasmidonta viridis Central Michigan University survey data

description: Data collected by Central Michigan University during surveys for Alasmidonta viridis in Michigan in the summer of 2022. Data was analyzed for completion of Gabrielle Sanfilippo's M.S. thesis for Central Michigan University's Department of Biology, submitted December 2023. The Excel spreadsheet contains two sheets: (1) "General" with general site survey data, including person hours surveyed, number of A. viridis and other mussel species found, and abiotic site measurements; and (2) "A. viridis indv" which contains data collected on A. viridis specimens, including length, width, height, and the etch given to each A. viridis specimen, and other data collected within a 1x1 meter quadrat centered around the A. viridis individual.
DOI: 10.5281/zenodo.10262012
title: Alasmidonta viridis Central Michigan University survey data

description: Data collected by Central Michigan University during surveys for Alasmidonta viridis in Michigan in the summer of 2022. Data was analyzed for completion of Gabrielle Sanfilippo's M.S. thesis for Central Michigan University's Department of Biology, submitted December 2023. The Excel spreadsheet contains two sheets: (1) "General" with general site survey data, including person hours surveyed, number of A. viridis and other mussel species found, and abiotic site measurements; and (2) "A. viridis indv" which contains data collected on A. viridis specimens, including length, width, height, and the etch given to each A. viridis specimen, and other data collected within a 1x1 meter quadrat centered around the A. viridis individual.
DOI: 10.17632/rwfmpfy45g.1
title: Effects of Lycium barbarum polysaccharides supplemented to high soybean meal diet on immunity and hepatic health of spotted sea bass Lateolabrax maculatus

description: raw data