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64 results for “PAM”
Pulse amplitude modulated (PAM) 5-minute chlorophyll fluorescence (ChlF) with accompanying environmental variables from the GCE-LTER Keenan Field site on Sapelo Island, GA in July 2020
Pulse amplitude modulated (PAM) chlorophyll fluorescence (ChlF) from July 11, 2020 to July 27, 2020 collected over a Spartina alterniflora marsh located on the western side of Sapelo Island bounded by the Duplin River. PAM ChlF were processed in WinControl-3.25. Additional biophysical variables included are photosynthetically active radiation (PAR) from onsite quantum sensors (Licor-192), and tide height from an onsite pressure transducer (Hobo U20).
Catalog of PAM and MBON cell types
<p>A catalog of some of the published anatomical findings on DAN PAM and MBON cell types in the mushroom body of <em>Drosophila melanogaster.</em> Major source is the major table in Aso <em>et al. </em>2014 (https://doi.org/10.7554/eLife.04577). Also includes results from other papers and combines into a single spreadsheet.</p>
Duke PAM Dataset
<p>Duke PAM is a photoacoustic microscopy (PAM) dataset collected at Duke University with the optical resolution PAM system described in (M. Chen et al., "Simultaneous photoacoustic imaging of intravascular and tissue oxygenation," <em>Optics Letters</em>, vol. 44, no. 15, pp. 3773-3776, 2019.) at a wavelength of 532 nm. This dataset is composed of primarily mouse brain microvasculature images, with a few images of mouse ear and tumors. Although collected in 3-D, for the purposes of viewing, collection, and storage, the images have been projected into 2-D using maximum amplitude projection (MAP). These data were collected with support from the National Institutes of Health (R01 EB028143, R01 NS111039, R01 NS115581, R21 EB027304, R43 CA243822, R43 CA239830, R44 HL138185); Duke MEDx Basic Science Grant; Duke Center for Genomic and Computational Biology Faculty Research Grant; Duke Institute of Brain Science Incubator Award; American Heart Association Collaborative Sciences Award (18CSA34080277).</p> <p>The "clean" subset contains PAM images of variable size that have been preprocessed and stored as uint8 .jpg images. The "patches" subset contains non-overlapping 128-by-128 pixel patches of the "clean" images stored as uint8 .jpg images. The "raw" subset contains PAM images of variable size before they have been preprocessed (stored as uint16 .png images). For general deep learning tasks, the "clean" dataset can be used with random crop (none of the images have dimensions less than 128-by-128). If uniformly-sized images are desired without needing to use random crop, the "patches" subset would work best. The "raw" subset works best for deep learning tasks that expect input images that are closer to raw/unprocessed PAM images and are willing to take on the memory burden of loading uint16 .png images.</p>
Concordance of the Qumran Cave 4 'Unidentified fragments' on PAM 43691 (IAA # 96)
<p>Lists of agreement with the PAM 43691 (IAA # 96) Qumran Cave 4 unidentified fragments with fragments on earlier photographs in the series of Unidentified fragments (cf. DJD 33) </p>
Agreements between PAM 43662 and PAM 43697
<p>PAM 43662 displays 109 fragments of which 64 are also displayed on PAM 43697 (and 1 on PAM 43691). </p>
Experimental characterization of TERIPHIC 4-fold and 8-fold InP photodiode arrays - Detection of 50Gbaud signals with NRZ and PAM-4 modulation formats
<p>The data sets refer to the results from the experimental characterization of the TERIPHIC 4-fold and 8-fold InP-photodiode arrays, which operate in the O-band. The experimental setup consisted of a commercially available off-the-shelf (COTS) laser source, a COTS Mach-Zehnder modulator, and the TERIPHIC PD arrays. For the purposes of the experiments, signals with NRZ and PAM-4 modulation formats and 50 Gbaud symbol rates were generated, transmitted, and detected by the TERIPHIC photodetectors. Two different subassemblies were evaluated. The first subassembly had four InP photodiodes and the second eight. The generated photocurrents were sampled by a real-time oscilloscope with a 256 Gbaud sample rate. The data sets are actually the samples extracted from the oscilloscope. The data sets have a filename in the format “Symbol rate#Modulation formats#PDn#Transmission length#version#Subassemblyn.bin”, where<br> Symbol rate = 50 Gbaud<br> PDn, for n= 1,2, ...,8<br> Transmission length = B2B (0 km), 2 km, and 10 km<br> Subassembly for n=1 and 2<br> <br> The data sets are parts of the Open data management plan of the TERIPHIC ICT project (GA No. 825502)</p>
Experimental characterization of TERIPHIC quad InP EML array - Generation and transmission of 50Gbaud signals with NRZ and PAM-4 modulation formats
<p>The data sets refer to the results from the experimental characterization conducted on the TERIPHIC quad InP-EML array, which operates in the O-band. Each EML incorporates a DFB laser, an Electroabsorption modulator, and a Semiconductor Optical Amplifier to provide additional power boost, all on the same die. Three out of the four EMLs were characterized successively and generated signals at symbol rates of 50 Gbaud and transmitted them over various fiber lengths. The modulated optical signals were detected by a single commercially avalaible photodetector with more than 70 GHz 3-dB bandwidth. The generated electrical signals were then sampled by a real-time oscilloscope with a 256 Gbaud sample rate. A low-pass filter with a 50 GHz 3-dB cut-off frequency was digitally applied to the oscilloscope to improve the signal-to-noise ratio.<br> The data sets have a filename in the format “Symbol rate#Modulation formats#EMLn#Transmission length#version.bin”, where<br> SYmbol rate = 50 Gbaud<br> EMLn, for n= 2, 3, 4<br> Transmission length = B2B (0 km), 2 km, and 10 km<br> Version: v1, v2 and v3. Same operating parameters but at different time index<br> <br> The data sets are parts of the Open data management plan of the TERIPHIC ICT project (GA No. 825502)</p>
Partners at Meals - Respite Care and Home (PAM)
ClinicalTrials.gov study NCT03622814. IPD Sharing: YES. Countries: 1. Publications: 1.
Data from: Optimizing passive acoustic monitoring (PAM) for Biodiversity Studies: using species-area relationship (SAR) to predict species richness
Open the record for dataset details and reuse information.
Simulation of 50 GBaud PAM-4 signals transmitted over multiple fiber lengths for WDM operation
<p>The data sets consist of simulated waveforms of 50 Gbaud PAM-4 signals generated using optical transmitters based on EML arrays operating in the O-band, each one integrating on the same die a DFB laser, an Electroabsorption modulator and a Semiconductor Optical Amplifier for extra power boost. The purpose was to simulate the operation of 400 GbE, 800 GbE and 1600 GbE optical interconnects over various transmission distances. The optical signals from the EML transmitters are multiplexed using an AWG with 100-GHz 3-dB channel bandwidth and then transmitted over different lengths of SMF optical fiber. Each EML has 35 GHz bandwidth 3-dB bandwidth and 0 dBm optical output power. The data sets have a filename in the format “channel_N_channel#_amplifier_#km_waveform.csv”, where<br> N (the total number of channels in the optical interconnect) = 1, 4, 8, 16<br> Channel# (the specific channel that the data set corresponds to) = 1, 2, 3… N<br> Amplifier (the presence or not of an amplifier) = SOA : with SOA present, NOSOA : without SOA present<br> #km : the number of transmission kilometers<br> The data sets are parts of the Open data management plan of the TERIPHIC ICT project (GA No. 825502)</p>
LCAT_PAM data
<p>Simulation trajectories for LCAT_PAM paper:</p> <p>Positive allosteric modulators of lecithin:cholesterol acyltransferase adjust the orientation of the membrane-binding domain and alter its spatial free energy profile</p> <p>Published in BioRxiv</p>
PAM-altering SNP-based allele-specific CRISPR-Cas9 therapeutic strategies for Huntington's disease
<p>Huntington's disease (HD) is caused by an expanded CAG repeat in huntingtin (<em>HTT</em>). Since HD is dominant, and loss of <em>HTT </em>leads to neurological abnormalities, safe therapeutic strategies require selective inactivation of mutant <em>HTT</em>. Previously, we proposed a concept of CRISPR-Cas9 using mutant-specific PAM sites generated by SNPs to selectively inactivate mutant <em>HTT</em>. Aiming at revealing suitable targets for clinical development, we analyzed the largest HD genotype dataset to reveal target <strong>P</strong>AM-<strong>a</strong>ltering <strong>S</strong>NPs (PAS) and subsequently evaluated their allele specificities. The gRNAs based on the PAM sites generated by rs2857935, rs16843804, and rs16843836 showed high levels of allele specificity in patient-derived cells. Simultaneous use of two gRNAs based on rs2857935-rs16843804 or rs2857935-rs16843836 produced selective genomic deletions in mutant <em>HTT </em>and prevented the transcription of mutant <em>HTT </em>mRNA without impacting the expression of normal counterpart or re-integration of the excised fragment elsewhere in the genome. RNAseq and off-target analysis confirmed high levels of allele specificity and the lack of recurrent off-targeting. Approximately 60% of HD subjects are eligible for mutant-specific CRISPR-Cas9 strategies of targeting one of these 3 PAS in conjunction with one non-allele-specific site, supporting high applicability of PAS-based allele-specific CRISPR approaches in the HD patient population.</p>
Compilation of existing underwater PAM repositories, libraries, and applications for sound processing
<p>Resources for passive acoustic monitoring (PAM) are continuously expanding and being developed, yet a major challenge for users is staying up-to-date and finding the best software or application for their acoustics investigation. We expand on previous efforts (Rhinehart & Nicholson, 2022; Felgate, 2023) with the aim of providing a current, comprehensive list of 1) underwater sound repositories of raw sound data without significant processing, 2) biological sound reference libraries, with species or taxa identification, and 3) sound processing tools for visualization, annotation, or analysis. This spreadsheet contains three pages, one dedicated to each of the aforementioned items, along with some descriptive information to help users identify the best resources for their needs.</p> <p>This work was done to support the Global Library of Underwater Biological Sounds (GLUBS) project and funded in part by the Richard Lounsbery Foundation and from funding to SCOR WG #169 (GLUBS) provided by national committees of the Scientific Committee on Oceanic Research (SCOR) and from a grant to SCOR from the US National Science Foundation (OCE--2140395), with support from the International Quiet Ocean Experiment.</p> <p> </p>
Pam Nad ydyk ni'n gadarn…
<p>A short animation about what is linguistic assertiveness</p> <p> </p> <p>This animation is intended to be used as part of the Trainers' Toolkit of the LISTEN project (https://listen-europe.eu/trainers-toolkit/.</p> <p>*Full credits*</p> <p>Concept art: Reka Kassay, Sapientia University, Romania</p> <p>Animation: Judith Vicsi and Bence Orosz, Zoom Animation Studio, Romania</p> <p>Graphics: Éva Páncél, Zoom Animation Studio, Romania</p> <p>Narration text: Erika Keszeg, Bálványos Institute, Romania and Tibor Toró, Sapientia University, Romania</p> <p>Translation: IAITH (UK)</p> <p>Voice: Aled Wyn Hughes, Stiwdio Sain (UK)</p>
Pam Nad ydyk ni'n gadarn… Sut i ddatrys hyn?
<p>The animation presents several resources, that can be used in face-to-face situations that can help minoritized language speakers to overcome linguistic submissiveness.</p> <p>This animation is intended to be used as part of the Trainers' Toolkit of the LISTEN project (https://listen-europe.eu/trainers-toolkit/.</p> <p>*Full credits*</p> <p>Concept art: Reka Kassay, Sapientia University, Romania</p> <p>Animation: Judith Vicsi and Bence Orosz, Zoom Animation Studio, Romania</p> <p>Graphics: Éva Páncél, Zoom Animation Studio, Romania</p> <p>Narration text: Erika Keszeg, Bálványos Institute, Romania and Tibor Toró, Sapientia University, Romania</p> <p>Translation: IAITH (UK)</p> <p>Voice: Aled Wyn Hughes, Stiwdio Sain (UK)</p>
PAM-Flexible Genome Editing with an Engineered Chimeric Cas9
<p>CRISPR enzymes require a defined protospacer adjacent motif (PAM) flanking a guide RNA-programmed target site, limiting their sequence accessibility for robust genome editing applications. In this study, we recombine the PAM-interacting domain of SpRY, a broad-targeting Cas9 possessing an NRN > NYN PAM preference, with the N-terminus of Sc++, a Cas9 with simultaneously broad, efficient, and accurate NNG editing capabilities, to generate a chimeric enzyme with highly flexible PAM preference: SpRYc. We demonstrate that SpRYc leverages properties of both enzymes to specifically edit diverse NNN PAMs and disease-related loci for potential therapeutic applications. In total, the unique approaches to generate SpRYc, coupled with its robust flexibility, highlight the power of integrative protein design for Cas9 engineering and motivate downstream editing applications that require precise genomic positioning.</p>
PAM-altering SNP-based allele-specific CRISPR-Cas9 therapeutic strategies for Huntington's disease
Open the record for dataset details and reuse information.
WiDiv_PAM_Clustering_Integrated_Phenotypes
<p>Root phenotype and performance data for the Wisconsin Diversity Panel collected from the field under well-watered and water stress conditions in Willcox, AZ, in 2016. Images of root architecture and anatomy were analyzed for each genotype, two replicates per treatment. Architectural data was collected using DIRT. Anatomical data was collected with RootScan2 and MIPAR. Also included is the R script to conduct a PAM clustering analysis to identify clusters of root phenotypes related to performance.</p>
Brain δ13C-PAM GC-C-IRMS Chromatograms
<p>Mouse brain GC-C-IRMS chromatograms analyzed for δ13C-PAM (Figure 1C) as dxf files. HP, high PAM; LP, low PAM; MP, medium PAM; P0, postnatal day 0; P10, postnatal day 10; P21, postnatal day 21; P35, postnatal day 35. </p>
Liver δ13C-PAM GC-C-IRMS Chromatograms
<p>Mouse liver GC-C-IRMS chromatograms analyzed for δ13C-PAM (Figure 1D) as dxf files. HP, high PAM; LP, low PAM; MP, medium PAM; P0, postnatal day 0; P10, postnatal day 10; P21, postnatal day 21; P35, postnatal day 35. </p>
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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.