cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6073/pasta/aefd890c600efa3736c0d13d7c365b57
title: Canopy LiDAR Measurements in Hemlock Removal Experiment at Harvard Forest 2005

description: As the ecological functioning of a forest stand is often related to the spatial organization of the canopy, we used a portable canopy LiDAR (PCL; Parker et al. 2004) to measure volumetric canopy structure in the simulated HWA management treatments. In September and October 2005, prior to leaf abscission, we set up 16 parallel transects spaced 2 meters apart in the 900 m2 (30 x 30 m) interior of each of the eight treatment plots. The orientation of the transects were either north-south or east-west to minimize the difficulty of traversing the stand. The distances to canopy surfaces more than1 m above the ground along the transects were recorded with the PCL. Assuming a constant horizontal sampling rate, the continual height measures were binned into 1 m intervals. From these measures, vertical canopy profiles, canopy openness, canopy rugosity, and other metrics related to the three-dimensional structure of the canopy can be derived. These canopy measures will be repeated minimally at 5 and 15 year intervals to develop an understanding of early structural dynamics and micrometeorological consequences associated with the simulated HWA treatments. (Parker, G.G., D.J. Harding, and M.L. Berger. 2004. A portable LIDAR system for rapid determination of forest canopy structure. Journal of Applied Ecology 41, 755-767).
DOI: 10.5281/zenodo.10263661
title: Dataset containing all action and intervention indicators (KPI) in Valencia Demo Site for the MAtchUP project.

description: KPIs added for interventions I1A, I2A and I2B, from June 2023 till September 2023.
DOI: 10.25438/wes02.24749376
title: <b>The Impact of New Transparency in Digital Advertising on Media Coverage</b> (Ad Library Data & Codebook)

description: In response to foreign meddling in the 2016 U.S. presidential campaign through social media—and subsequent congressional threats to tightly regulate online political advertising—major digital platforms in the U.S. established databases that allow users to look up online political ads, their sponsors and how much they spend on advertising. What has been the impact of this new transparency? This research examines media coverage of digital political advertising in three news outlets both before and after the release of the Facebook, Google and Twitter political ads libraries in May 2018. We find that media coverage of digital advertising increased after the libraries’ introduction, that the libraries are sometimes referenced in coverage, that discussion of ad costs has increased as has fact-checking and discussion of misinformation.
DOI: 10.25438/wes02.24749376.v1
title: <b>The Impact of New Transparency in Digital Advertising on Media Coverage</b> (Ad Library Data & Codebook)

description: In response to foreign meddling in the 2016 U.S. presidential campaign through social media—and subsequent congressional threats to tightly regulate online political advertising—major digital platforms in the U.S. established databases that allow users to look up online political ads, their sponsors and how much they spend on advertising. What has been the impact of this new transparency? This research examines media coverage of digital political advertising in three news outlets both before and after the release of the Facebook, Google and Twitter political ads libraries in May 2018. We find that media coverage of digital advertising increased after the libraries’ introduction, that the libraries are sometimes referenced in coverage, that discussion of ad costs has increased as has fact-checking and discussion of misinformation.
DOI: 10.25438/wes02.24749376.v2
title: <b>The Impact of New Transparency in Digital Advertising on Media Coverage</b> (Ad Library Data & Codebook)

description: In response to foreign meddling in the 2016 U.S. presidential campaign through social media—and subsequent congressional threats to tightly regulate online political advertising—major digital platforms in the U.S. established databases that allow users to look up online political ads, their sponsors and how much they spend on advertising. What has been the impact of this new transparency? This research examines media coverage of digital political advertising in three news outlets both before and after the release of the Facebook, Google and Twitter political ads libraries in May 2018. We find that media coverage of digital advertising increased after the libraries’ introduction, that the libraries are sometimes referenced in coverage, that discussion of ad costs has increased as has fact-checking and discussion of misinformation.
DOI: 10.6073/pasta/aa1c581b4bf6a32f33f57111b108eff8
title: Deer and Moose Browsing in Hemlock Removal Experiment at Harvard Forest 2008

description: Hemlock decline in New England is caused by direct and indirect effects of invasion of the hemlock woolly adelgid. Direct damage from the insect is causing gradual mortality of hemlock, and widespread harvesting of hemlock in advance of mortality, in contrast, causes immediate mortality and removal of biomass from the site. Although both processes affect thousands of acres of forest annually we have only a limited understanding of their effects on forest ecosystem function and productivity and the nature of the subsequent forest community. We anticipate that harvesting will yield different consequences than gradual mortality from the insect. Therefore we designed an experiment to simulate these contrasting impacts, by logging or girdling hemlock stands. Results from the experimental treatments will be compared to the changes observed in forests that are being infested by the adelgid, and can also be included in integrated analyses of a suite of large experiments that form a core component of the Harvard Forest LTER program. Deer and moose foraging can play a key role in shaping forest regeneration after disturbance in temperate forest. In 2008, we initiated a browsing survey of woody stems in the Simes hemlock removal experiment plots. There are regular moose sightings in the study area, and moose pellets are commonly found within the plots. Also, extensive browsing of tree regeneration in the logged plots was noted starting in 2007. Sampling of the 8 study plots was completed in Summer 2008. The next sampling is tentatively scheduled for Summer 2013.
DOI: 10.5281/zenodo.10263662
title: Dataset containing all action and intervention indicators (KPI) in Valencia Demo Site for the MAtchUP project.

description: KPIs added for interventions I1A, I2A and I2B, from June 2023 till September 2023.
DOI: 10.5519/qd.528gv80j
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (105 records)
DOI: 10.6073/pasta/78bd1db933d302665f65ea10c1830d82
title: Coarse Woody Debris in Hemlock Removal Experiment at Harvard Forest since 2005

description: The woody detritus survey is designed to measure coarse woody detritus that includes snags, logs, and stumps, and to estimate fine woody detritus which includes smaller pieces of downed wood. To capture both standing and downed wood, we based our survey around two main types of methods, the line intercept method and the fixed radius plot method. Surveys have been completed for 2005, 2007, 2009, 2011, 2013, 2015, 2017, and 2021.
DOI: 10.25345/c55x25q13
title: MassIVE MSV000093576 - AP-MS analyses of Halo- Sin3 complex subunits stably expressed in 293T cells.
title: Sin3 complex subunits tagged with an N-terminal Halo affinity tag were stably expressed in Flp-In-293 cells. The resulting lysates were used to capture Sin3 associated proteins. Purified protein complexes were identified by AP-MS.
DOI: 10.48544/55d1a226-dcac-400e-9f38-7e48bceb6863
title: Effectiveness of CTF education: Measuring the learning outcomes of Jeopardy CTF’s
DOI: 10.6073/pasta/4bb80f703eda8f77351eaa99bbe01eea
title: Overstory Vegetation in Hemlock Removal Experiment at Harvard Forest since 2003

description: Hemlock decline in New England is caused by direct and indirect effects of invasion of the hemlock woolly adelgid. Direct damage from the insect is causing gradual mortality of hemlock. Widespread harvesting of hemlock in advance of mortality, in contrast, causes immediate mortality and removal of biomass from the site. Although both processes affect thousands of acres of forest annually we have only a limited understanding of their effects on forest ecosystem function and productivity and the nature of the subsequent forest community. We anticipate that harvesting will yield different consequences than gradual mortality from the insect. Therefore, we designed an experiment to simulate these contrasting impacts, by logging or girdling hemlock stands. Results from the experimental treatments will be compared to the changes observed in forests that are being infested by adelgid and can also be included in integrated analyses of a suite of large experiments that form a core component of the Harvard Forest LTER program.
DOI: 10.6073/pasta/2fdda5359882b28932b37fa226251b03
title: Timber Harvesting Field Study in Western Massachusetts 2004-2005

description: Forest harvesting is one of the most significant disturbances affecting forest plant composition and structure in Western Massachusetts, yet few studies have quantified the effects of harvesting in this region. Massachusetts requires all commercial harvest operations above 87 m3 to file a Forest Cutting Plan (FCP) with the state. We have digitized these FCPs (see McDonald et al. 2006), covering all harvests from 1984 to 2003. Our study area is Massachusetts west of the coastal basin, as defined by Motts and O’Brian (1981). We selected 126 sites for sampling. Two-thirds of the sites (89) were harvested once between 1984 and 2003, and these were selected randomly from the larger FCP database. The remaining one-third of the sites (37) were control sites selected randomly from all unharvested forest in the study area. The boundaries for our field surveys were those filed with the FCP for harvested sites, and were circular for control sites, proportional in size to the mean FCP in the physiographic region (Motts and O'Brien 1981): Connecticut River Valley (10.7 ha), Central Upland (11.3 ha), Berkshire Valley and Taconic Mountains (12.6 ha), and the Western Upland (15.9 ha). Note that our sampled sites were well-dispersed over the study area, and encompassed the variety of past agricultural land-use.
DOI: 10.6073/pasta/94fcd23751f04c1aa1eb0fee05df3180
title: Impacts of Hemlock Harvesting in Central Massachusetts 2003-2009

description: The recent unimpeded infestation of the hemlock woolly adelgid (HWA; Adelges tsugae) across the northeastern U.S. is driving large-scale hemlock decline and mortality. HWA has already infested over 40% of the towns in Massachusetts and, as a result, many landowners are considering pre-emptively harvesting their eastern hemlock (Tsuga canadensis) stands. To examine the local impacts of this cutting activity, we examined stand and ecosystem dynamics in 10 hemlock-dominated sites on public and private lands where hemlocks were harvested between 1 to12 years ago with nearby uncut forests. Forty-two to ninety-seven percent of hemlock stems and basal area were removed from the harvested sites. Sapling densities of 10,500 to 24,000 stems ha-1 dominated the vegetation at older cuts and consisted primarily of black birch (Betula lenta), red maple (Acer rubrum), and white pine (Pinus strobus). Seedling densities averaged 5 m-2 across sites, peaked at 20 m-2 at 6 to 9 year old sites, and consisted of hemlock, white pine, black birch, and red maple. Additional understory species that were common in cuts sites included various raspberry (Rubus) species, often averaging 30% cover, hay-scented fern (Dennstaedtia punctilobula), and various sedge (Carex) species. Harvesting resulted in soils that were 3 to 5 (deg C) warmer and tended to be drier in recent vs. older cuts. Net nitrogen mineralization rates in organic soils averaged just over 10 kg N ha-1yr-1 in recent cuts and approx. 5 kg N ha-1yr-1 in older cuts. Mineral soil net mineralization rates were lower among all cuts, ranging from 2.1 to 3.5 kg N ha-1yr-1. Nitrification rates were low in both soil horizons at all harvest ages. Recent cuts had much higher nitrogen capture (NH4- + NO3+) on resin bags averaging around 1200 μg N g resin-1 vs. 300 to 600 μg N g resin-1 captured in older cuts. Nitrification rates and nitrate capture on resin bags were lower in Massachusetts sites than those reported on sites with a long history of HWA that were then subsequently logged. Findings from this study corroborate past work, as more recent cuts also exhibited increased birch and maple establishment and higher N availability than older cuts. In contrast to prior studies, cutting in Massachusetts sites also led to abundant conifer regeneration of white pine and hemlock, suggesting that seed tree availability, seedbed characteristics, and lack of HWA at several of the MA sites contributed to the higher conifer seedling densities found in this study.
DOI: 10.5281/zenodo.10267716
title: Guanabara Bay sea level data and processing routines

description: Sea level data from Guanabara Bay and processing routines used in the article entitled "Mean sea level, tidal components and surges in Guanabara Bay Guanabara Bay (Rio de Janeiro) from 1990 to 2021, submitted to the International Journal of Climatology".
DOI: 10.5281/zenodo.10267717
title: Guanabara Bay sea level data and processing routines

description: Sea level data from Guanabara Bay and processing routines used in the article entitled "Mean sea level, tidal components and surges in Guanabara Bay Guanabara Bay (Rio de Janeiro) from 1990 to 2021, submitted to the International Journal of Climatology".
DOI: 10.6084/m9.figshare.23898549
title: Raw data for "New Insight into the Source and Sink of <sup>227</sup>Ac in the Ocean".

description: The activities of <sup>227</sup>Ac measured by onboard filtration method using discrete 60 L samples in the East Sea (sheet 1), the activities of <sup>227</sup>Ac measured from the Mn-fiber mooring method in the East Sea (sheet 2), and the activities of <sup>227</sup>Ac and <sup>228</sup>Ra in the East China Sea and Yellow Sea shelf water (sheet 3).
DOI: 10.6084/m9.figshare.23898549.v4
title: Raw data for "New Insight into the Source and Sink of <sup>227</sup>Ac in the Ocean".

description: The activities of <sup>227</sup>Ac measured by onboard filtration method using discrete 60 L samples in the East Sea (sheet 1), the activities of <sup>227</sup>Ac measured from the Mn-fiber mooring method in the East Sea (sheet 2), and the activities of <sup>227</sup>Ac and <sup>228</sup>Ra in the East China Sea and Yellow Sea shelf water (sheet 3).
DOI: 10.25625/s7ltjp/wttbqn
title: Diers et al._Data_Site.tab

description: Names, IDs, coordinates of the study sites
DOI: 10.25625/s7ltjp
title: Replication Data for: Increasing winter temperatures stimulate Scots pine growth in the North German Lowlands despite stationary sensitivity to summer drought

description: More than half of the forest area of the North German Lowlands is stocked with Scots pine-dominated forests, mostly plantations. Climate change suggests a declining suitability of Europe’s temperate zone for conifer plantations, but only few studies have examined the long-term growth trends of Scots pine in relation to environmental and site factors in this region. We studied the radial growth patterns of Scots pine over the last 60 years at ten sites along a precipitation gradient (830–530 mm mean annual precipitation) from an oceanic to a sub-continental climate, analyzing the spatial and temporal variability of the climate sensitivity of growth in order to identify the main climatic factors influencing pine growth across this gradient, which covers a large part of the species’ tolerated precipitation range. Annual radial increment was sensitive to late-winter temperatures (February, March) and summer drought and heat (June–August), with sensitivity increasing from the oceanic to the drier continental sites. Warmer late-winter periods apparently have stimulated growth during the last decades, while the sensitivity to summer-drought has remained fairly stable. Until recently, the negative impact of warming summers on growth has been compensated by the positive effect of late-winter warming, resulting in stable (or increasing) growth trends. However, our comparison of the climate sensitivity across sites suggests that the drought effect compensation through winter warming will in future be limited by increasing drought exposure. Thus, future productivity declines are likely in the northern German lowlands despite warming winters, discouraging large-scale pine plantations in the face of climate warming.
DOI: 10.25625/s7ltjp/bctxtn
title: Diers et al._RW_BAI_DATA_20231203.tab

description: Ring width (RW, mm) and basal area increment (BAI, mm²) tree-ring chronologies by site and year in long format.
DOI: 10.34740/kaggle/dsv/7132845
title: consumer_guiana_france
DOI: 10.25345/c5251fw65
title: MassIVE MSV000093577 - Analysis of p53 independent functions of the Mdm2 MdmX complex using data independent acquisition based profiling
title: We utilized data independent acquisition (DIA) to study the poorly understood biology of Mdm2 and MdmX in a p53 null context. Mdm2 and MdmX form a E3 ligase complex that has as its most well studied function the negative regulation of the tumor suppressor p53, however, it is also known to interact with many other proteins in a p53 independent manner. In this work, small molecule and siRNA-based technology were used to modify Mdm2/Mdmx activity in a human non small cell lung carcinoma cell line lacking p53 expression. Study of the proteome of these cells helped identify biological processes where Mdm2 and MdmX may be playing role in a p53 independent manner. Proteins from H1299 cells, treated with the drug MEL23, siRNA against Mdm2 or MdmX were analyzed. Protein ontology and function were analyzed demonstrating which pathways are affected by modulation of the proteins that originate the complex. Insights on how those functions are dependent on the activity of the complex could also be proposed based on comparison among the three groups of samples. We selected a potential target from the DIA analysis and validated it by immunoblotting and qPCR demonstrating a new interaction partner of the Mdm2 MdmX complex in human cells.
DOI: 10.25444/nhlbi.24749181
title: Data from Casin et al "<b>Loss of cyclophilin D prolyl isomerase activity desensitizes mitochondrial permeability transition pore opening in isolated cardiac mitochondria, but does not protect in myocardial ischemia-reperfusion injury</b>"

description: To define the role of CyPD prolyl isomerase activity in regulating PTP and necrotic cell death, we used CRISPR/Cas 9 to generate novel homozygous germline knock-in mice with a prolyl isomerase-dead CyPD R96G mutation in all cells (CyPD<sup>R96G</sup>). Our data suggest prolyl isomerase activity is required for Ca<sup>2+</sup>-activated PTP in isolated mitochondria. Loss of isomerase activity does not protect against I/R injury whereas CyPD deletion protects, implying that isomerase dead CyPD can activate I/R-mediated death. However, altered metabolism in CyPD knockout mice could play a role [7]. These data would be consistent with the hypothesis suggesting two PTPs. We propose that PTP1 activation by CyPD requires isomerase activity and is the main PTP activity measured in isolated mitochondria with Ca<sup>2+</sup> overload, whereas PTP2, which we hypothesize is primarily responsible for cell death in I/R, is potentiated by mutant CyPD lacking isomerase activity. If correct, this hypothesis would suggest that studies of PTP in isolated mitochondria may not translate to protection in I/R.
DOI: 10.25444/nhlbi.24749181.v1
title: Data from Casin et al "<b>Loss of cyclophilin D prolyl isomerase activity desensitizes mitochondrial permeability transition pore opening in isolated cardiac mitochondria, but does not protect in myocardial ischemia-reperfusion injury</b>"

description: To define the role of CyPD prolyl isomerase activity in regulating PTP and necrotic cell death, we used CRISPR/Cas 9 to generate novel homozygous germline knock-in mice with a prolyl isomerase-dead CyPD R96G mutation in all cells (CyPD<sup>R96G</sup>). Our data suggest prolyl isomerase activity is required for Ca<sup>2+</sup>-activated PTP in isolated mitochondria. Loss of isomerase activity does not protect against I/R injury whereas CyPD deletion protects, implying that isomerase dead CyPD can activate I/R-mediated death. However, altered metabolism in CyPD knockout mice could play a role [7]. These data would be consistent with the hypothesis suggesting two PTPs. We propose that PTP1 activation by CyPD requires isomerase activity and is the main PTP activity measured in isolated mitochondria with Ca<sup>2+</sup> overload, whereas PTP2, which we hypothesize is primarily responsible for cell death in I/R, is potentiated by mutant CyPD lacking isomerase activity. If correct, this hypothesis would suggest that studies of PTP in isolated mitochondria may not translate to protection in I/R.
DOI: 10.57703/ce-6yts4
title: Surface Topography Challenge C85 (Dektak) Auburn University Submission

description: There are 10 line scan raw data files from the Veeco Dektak 150. Five line scans were taken from the South to North directions, and five were taken from the East to West directions. The directions are defined in the write-up in Figure 3. The scans were performed at a speed of 64 seconds per line, yielding a total of 9600 data points across a distance of 1.5 mm. This results in 6.5 data points per micron. The stylus tip has a 2 µm radius.
DOI: 10.57703/ce-p9pdw
title: Surface Topography Challenge C86 (Dektak) Auburn University Submission

description: There are 10 line scan raw data files from the Veeco Dektak 150. Five line scans were taken from the South to North directions, and five were taken from the East to West directions. The directions are defined in the write-up in Figure 3. The scans were performed at a speed of 64 seconds per line, yielding a total of 9600 data points across a distance of 1.5 mm. This results in 6.5 data points per micron. The stylus tip has a 2 µm radius.
DOI: 10.57703/ce-4f7cb
title: Surface Topography Challenge R58 (Dektak) Auburn University Submission

description: There are 10 line scan raw data files from the Veeco Dektak 150. Five line scans were taken from the South to North directions, and five were taken from the East to West directions. The directions are defined in the write-up in Figure 3. The scans were performed at a speed of 64 seconds per line, yielding a total of 9600 data points across a distance of 1.5 mm. This results in 6.5 data points per micron. The stylus tip has a 2 µm radius.
DOI: 10.57703/ce-5nc47
title: Surface Topography Challenge R71 (Dektak) Auburn University Submission

description: There are 10 line scan raw data files from the Veeco Dektak 150. Five line scans were taken from the South to North directions, and five were taken from the East to West directions. The directions are defined in the write-up in Figure 3. The scans were performed at a speed of 64 seconds per line, yielding a total of 9600 data points across a distance of 1.5 mm. This results in 6.5 data points per micron. The stylus tip has a 2 µm radius.