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116 results for “stem maps”
Aspen Forest Stem Map and Tree Census at the University of Michigan Biological Station, Pellston, MI 1974-2018
In 1974, a one hectare plot was established at the University of Michigan Biological Station to further understand successional trajectories of birch and aspen forests in northern Michigan. Trees with a DBH greater than 5 cm were inventoried and later, the location of the tree within the plot was documented by the UMBS resident biologist. Plots were remeasured 5 additional times by different groups at the station.
Stem maps of eight 1 ha forest plots distributed around Ann Arbor, MI and around the University of Michigan Biological Station (UMBS)
In this project we established a network of forest inventory plots to gather the data needed to forecast future forest performance under global change. Data collected from forest inventory plots, i.e., size and location of individual trees from all ages and species, have been shown to be particularly useful to link tree species demographic rates (survival, growth, age at maturity, fecundity) with community characteristics (assemblages and species turnovers), and are also widely used to estimate biomass removal (logging) and biomass production (carbon sequestration).
Nanoscale mapping of point defect concentrations with 4D-STEM
<p>The following 4D-STEM data sets were collected on the ThemIS and TitanX scanning transmission electron microscopes located at the National Center for Electron Microscopy, Molecular Foundry, Lawrence Berkeley National Laboratory, Berkeley, CA, USA. </p> <p>1• Au_thermal_beforeHT_17C.dm4, Au_thermal_HT_800C.dm4, Au_thermal_HT_1000C.dm4 and Au_thermal_afterHT_17C.dm4 are datasets from 4D-STEM measurements conducted <em>in situ</em> on an FEI ThemIS image corrected microscope at 300 kV during a thermal cycling experiment. These digital micrograph (.dm4) files were collected at 17 C before heat treatment, 800 C during heat treatment, 1000 C during heat treatment, and 17 C after heat treatment, respectively. Nano-diffraction data was collected using a Gatan K2-IS (2k x 2k) detector at 400 frames per second. Each dataset contains a set of electron diffraction patterns taken at each scan position with a ~ 1 nm probe step size. Approximately 80 x 80 scan positions were recorded from each region with a dwell time of 0.0025 seconds per frame. A custom 40µm patterned “bullseye” circular probe forming aperture was used to enhance the accuracy of 4D-STEM strain analysis by facilitating the identification of the center of diffraction discs. A convergence angle of 3.20 milli-radians, spot size of 8, and diffraction pixel size of 0.16 Å<sup>-1</sup> was used in micro-probe lens configuration. The data was machine and software binned to 512 x 512 pixels to increase the signal to noise ratio before computational analysis. Data processing were performed using strain mapping scripts provided in the open source py4DSTEM software package. Au_thermal_calibration.h5 contains the py4DSTEM calibration and diffraction standard data from the analysis. Polycrystalline Al standard sample was used to calibrate the reciprocal space pixel size as well as measure the elliptical distortion present in the data set.</p> <p>2• Al_irradiated.dm4 is a dataset from 4D-STEM measurement conducted <em>in situ </em>on an FEI TitanX microscope equipped to do high-angle STEM tomography and operating at 300 kV. Nano-diffraction data was acquired using a Gatan Orius 830 (2k x 2k) detector capable of collecting 30 frames per second. Each dataset contains a stack of convergent beam electron diffraction (CBED) patterns taken at each scan position with maximum resolution equivalent to 1.6 nm probe size. Approximately 50 x 50 frame scan regions were recorded with a dwell time of 0.01 seconds per frame. A custom 70 µm patterned “bullseye” circular C2 aperture was used to greatly enhance the accuracy of 4D-STEM strain analysis by facilitating the identification of the center of diffraction discs. A convergence angle of 2.7 milli-radians, spot size 10, and camera length 195 mm was used in micro-probe lens configuration. With a measured screen current of 300 pA in this configuration, the total sum of electrons incident in a region of the sample, commonly known as the fluence (total dose), was determined at 67,100 electronsÅ<sup>-2</sup> per 4D-STEM scan. The 4D-STEM data was machine and software binned to 512 x 512 pixels to increase the signal to noise ratio before computational analysis. Al_irradiated_calibration.h5 contains the py4DSTEM calibration and diffraction standard data from the analysis. Polycrystalline Al standard sample was used to calibrate the reciprocal space pixel size as well as measure the elliptical distortion present in the data set.</p>
Stem maps in 4 1-hectare plots in the FASET and DIRT experiments at the University of Michigan Biological Station, Pellston, MI (2006-07)
Our primary objective is to provide an improved understanding of the biological and climatic controls over carbon (C) and energy cycles during and after a successional shift from a mature aspen to a young mixed confer/deciduous forest ecosystem that will be widely distributed across the upper Great Lakes region in coming decades. In Spring 2008, we implemented the Forest Accelerated Succession ExperimenT (FASET) by stem girdling all aspen and birch (gt;6,700 trees, ~35% canopy LAI) within a 39 ha area. A suite of ongoing ecological and meteorological measurements conducted in treatment and control stands before (2007) and after (2008 onwards) the succession treatment are used to quantify effects of climate, species composition, and canopy structure on the forest C cycle. We have established paired treatment and control plots, and surveyed a 25 m grid system within our treatment plots, begun operation of a eddy-covariance tower within the 33 ha treatment plot, conducted intercomparisons of carbon exchange and N allocation between treatment and control plots, remote sensed forest canopy structure, and begun or continued collaborative projects with investigators utilizing this project as a platform for further studies. Our overarching hypothesis is that forest NEP across much of the upper Great Lakes region will increase following transition from aspen dominated ecosystems to those of later-successional species with biologically and structurally more complex canopies. Specific hypotheses: a) Tree mortality will prompt a short-term reduction in NEP. A rapid recovery and stabilization of NEP above that of the control forest will be linked to the magnitude of N leaching losses and the pattern of redistribution of available N. Stands with more species and structurally diverse canopies and greater allocation of N to photosynthetic tissues will have higher NEP. b) Successional change will increase spatial variation in microclimate and nutrient distribution, both of which con
Forest metrics derived from the 2008 Lidar point clouds, includes canopy closure, percentile height, and stem mapping for the Andrews Experimental Forest.
There are three types of forest metrics within this database. They all are derived from the raw Lidar point clouds using the FUSION software. The three types are canopy closure, height metric, and stem mapping. The canopy closure and height metric grids cover a variety of canopy heights and grid cell sizes. 1. Canopy closure: This metric measures the canopy closure of a given horizontal cell above a given vertical threshold (height break). Canopy closure can inform many landscape models and provide insight on how much light will reach the forest floor. 2. Height Metric: This metric measures the height at which a given percent of the first return points are below. This analysis is done in a given grid cell size. Height metrics give various statistics of the elevation above ground for a given set of Lidar points. In forested landscapes, first return height metrics describe the forest canopy. 3.This stem map locates the approximate center of all trees in the HJ Andrews Research Forest greater than 10 meters. In addition to the stem location, a canopy radius is also provided. FUSION and TreeVaWA software programs were used to develop this data. Watershed Sciences, Inc. (WS) collected Light Detection and Ranging (LiDAR) data from HJ Andrews and the Willamette National Forest (NF) on August 10th and 11th 2008. Total area for this AOI is 17,705 acres. The total area of delivered LiDAR including 100 m buffer is 19,493 acres.
Identification and fine mapping of gummy stem blight resistance gene Gsb-7(t) in Melon
<p>Gummy stem blight (GSB), caused by the <em>Didymella bryoniae</em> (Auersw.) Rehm, is a devastating fungal disease of melon worldwide. Breeding GSB-resistant cultivars with host resistance genes is considered to be the most economic and effective strategy to control this disease. In this study, 260 melon germplasm resources were screened for resistance to GSB, and an inbred line H55R exhibited immunity to GSB was identified. To further understand the resistance mechanism of H55R against GSB, an F<sub>2</sub> population was obtained from a cross between the GSB-susceptible line A15 and H55R, and genetic analysis indicated that the resistance in H55R was controlled by a single dominant gene, tentatively named <em>Gsb-7(</em><em>t</em><em>)</em>. The <em>Gsb-7(</em><em>t</em><em>)</em> gene was finally delimited to a 140 kb interval on chromosome 7 using bulked-segregant analysis and chromosome walking strategies. Ten putative genes were annotated in this region that contains a wall-associated receptor kinase (WAK) gene <em>MELO3C</em><em>010403</em>. The <em>MELO3C</em><em>010403</em> gene contains two alternative transcripts, T1 and T2, with five and seven non-synonymous mutation sites, respectively. Gene expression analysis showed that expression of T1 but not the T2 was significantly induced by the <em>D</em><em>.</em><em> bryoniae</em> at 24 hours post-inoculation (hpi), indicating that the T2 transcript of <em>MELO3C</em><em>010403</em> was the most likely candidate gene of <em>Gsb-7(t)</em><em>.</em> Our results offer new genetic resources and will be helpful for the development of GSB-resistant melon cultivars in the future.</p>
Text-fig. 3. Geology of the Cheringoma Plateau, Mozambique. Sections and geological map adapted from Tinley (1977). The star symbols close to Mhengere Hill represent fossil wood and stem sites. Note that the fault relationships proposed in the northernmost Inhaminga section require re-examination. The Nguere Hills were called Gadjiua by Tinley (1977). in Stratigraphy, Chronology And Palaeontology Of The Tertiary Rocks Of The Cheringoma Plateau, Mozambique
Text-fig. 3. Geology of the Cheringoma Plateau, Mozambique. Sections and geological map adapted from Tinley (1977). The star symbols close to Mhengere Hill represent fossil wood and stem sites. Note that the fault relationships proposed in the northernmost Inhaminga section require re-examination. The Nguere Hills were called Gadjiua by Tinley (1977).
STEM and EDX maps of biomass-MnO2 assemblages
<p>Raw images and maps described in:</p> <p>Contaminant loading and competitive access of Pb, Zn and Mn(III) to vacancy sites in biogenic MnO<sub>2</sub></p> <p>Julia Gonzalez Holguera<sup>1</sup>, Imelda Dossou Etui<sup>1</sup>, Jasquelin Peña<sup>1*</sup></p>
Factors associated with the gender gap in the STEM sector: Comparison of theoretical and empirical concept maps and qualitative SWOT analysis
<p>Word tree STEM</p>
Factors associated with the gender gap in the STEM sector: Comparison of theoretical and empirical concept maps and qualitative SWOT analysis
<p>Word tree gender</p>
Factors associated with the gender gap in the STEM sector: Comparison of theoretical and empirical concept maps and qualitative SWOT analysis
<p>Word tree gap</p>
Factors associated with the gender gap in the STEM sector: Comparison of theoretical and empirical concept maps and qualitative SWOT analysis
<p>Word tree rights</p>
Factors associated with the gender gap in the STEM sector: Comparison of theoretical and empirical concept maps and qualitative SWOT analysis
<p>Empirical conceptual map</p>
Factors associated with the gender gap in the STEM sector: Comparison of theoretical and empirical concept maps and qualitative SWOT analysis
<p>Theoretical concept map</p>
Mapping origins of variation in neural trajectories of human pluripotent stem cells [SOX21 KO RNA-seq]
GEO Series GSE164053. Homo sapiens. 18 samples. Type: Expression profiling by high throughput sequencing.
Mapping genome-wide binding sites of Kruppel-like factor-9 by ChIP-seq in human glioblastoma stem cells.
GEO Series GSE62211. Homo sapiens. 4 samples. Type: Genome binding/occupancy profiling by high throughput sequencing.
A multiscale map of the stem cell state in pancreatic adenocarcinoma
GEO Series GSE113712. Mus musculus. 2 samples. Type: Genome binding/occupancy profiling by high throughput sequencing.
Genome-wide mapping of miRNAs expressed in embryonic stem cells and pluripotent stem cells generated by different reprogramming strategies
GEO Series GSE52950. Mus musculus. 12 samples. Type: Non-coding RNA profiling by high throughput sequencing.
Genome wide maps of chromatin states of larval Drosophila neural stem cells (NSCs), their progeny and their tumorigenic counterparts
GEO Series GSE134509. Drosophila melanogaster. 30 samples. Type: Genome binding/occupancy profiling by high throughput sequencing.
Genome-wide maps of CTCF in R1/E embryonic stem cells
GEO Series GSE25777. Mus musculus. 2 samples. Type: Genome binding/occupancy profiling by high throughput sequencing.
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Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.