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GOES satellite, WSR-88D radar, sounding balloon, surface weather observation and mesoscale model data from the area within, up, and downstream of the study area for use in event logging procedures and case study investigations.
This dataset contains vertical profiling lidar data from the AWAKEN A1 site. This is a ZephIR-300.
These data are scanning Doppler lidar measurements from the deployment of a HALO XR at AWAKEN site A1. The measurements include calibrated beam azimuth angles, radial velocity, backscatter, signal to noise ratio per each line of sight, and range-gate.
This dataset contains vertical profiling lidar data from the AWAKEN H site. This is a ZephIR-300.
These data are scanning Doppler lidar measurements from the deployment of a HALO XR at AWAKEN site H. The measurements include calibrated beam azimuth angles, radial velocity, backscatter, signal to noise ratio per each line of sight, and range-gate.
The 10-min wind statistics from ground-based Doppler lidar at site H were calculated using the Sathe et al., 2015, paper in the references.
We present a general denoising algorithm for performing simultaneous tomography of quantum states and measurement noise. This algorithm allows us to fully characterize state preparation and measurement (SPAM) errors present in any quantum system. Our method is based on the analysis of the properties of the linear operator space induced by unitary operations. Given any quantum system with a noisy measurement apparatus, our method can output the quantum state and the noise matrix of the detector up to a single gauge degree of freedom. We show that this gauge freedom is unavoidable in the general case, but this degeneracy can be generally broken using prior knowledge on the state or noise properties, thus fixing the gauge for several types of state-noise combinations with no assumptions about noise strength. Such combinations include pure quantum states with arbitrarily correlated errors, and arbitrary states with block independent errors. This framework can further use available prior information about the setting to systematically reduce the number of observations and measurements required for state and noise detection. Our method effectively generalizes existing approaches to the problem, and includes as special cases common settings considered in the literature requiring an uncorrelated or invertible noise matrix, or specific probe states.
High-throughput genetic screening is frequently employed to rapidly associate gene with phenotype and establish sequence-function relationships. With the advent of CRISPR technology, and the ability to functionally interrogate previously genetically recalcitrant organisms, non-model organisms can be investigated using pooled guide RNA (gRNA) libraries and sequencing-based assays to quantitatively assess fitness of every targeted locus in parallel. To aid the construction of pooled gRNA assemblies, we have developed an in silico design workflow for gRNA selection using the gRNA Sequence Region Extraction Tool (gRNA-SeqRET). Built upon the previously developed CCTop, gRNA-SeqRET enables automated, scalable design of gRNA libraries that target user-specified regions or whole genomes of any prokaryote or eukaryote. Additionally, gRNA-SeqRET automates the bulk extraction of any regions of sequence relative to genes or other features, aiding in the design of homology arms for insertion or deletion constructs. We also assess in silico the application of a designed gRNA library to other closely related genomes and demonstrate that for very closely related organisms Average Nucleotide Identity (ANI) > 95% a large fraction of the library may be of relevance. The gRNA-SeqRET web application pipeline can be accessed at https://grna.jgi.doe.gov. The source code is comprised of freely available software tools and customized Python scripts, and is available at https://bitbucket.org/berkeleylab/grnadesigner/src/master/ under a modified BSD open-source license (https://bitbucket.org/berkeleylab/grnadesigner).
We present a study of the size–mass relation for local post-starburst (PSB) galaxies at z ≲ 0.33 selected from the Sloan Digital Sky Survey Data Release 8. We find that PSB galaxies with stellar mass (M * ) at 10 9 M ⊙ < M * < 10 12 M ⊙ have a galaxy size smaller than or comparable to those of quiescent galaxies (QGs). After controlling redshift and stellar mass, the sizes of PSBs are ~13% smaller on average than those of QGs; such differences become larger and significant toward the low-M * end, especially at 10 9.5 M ⊙ ≲ M * ≲ 10 10.5 M ⊙ where PSBs can be on average ~19% smaller than QGs. By comparing predictions of possible PSB evolutionary pathways from cosmological simulations, we suggest that a fast quenching of star formation following a short-lived starburst event (which might be induced by a major merger) should be the dominant pathway of our PSB sample. Furthermore, by cross-matching with group catalogs, we confirm that local PSBs at M * ≲ 10 10 M ⊙ are more clustered than more massive ones. PSBs residing in groups are found to be slightly larger in galaxy size and more disk-like compared to field PSBs, which is qualitatively consistent with and thus hints at the environment-driven fast quenching pathway for group PSBs. Taken together, our results support multiple evolutionary pathways for local PSB galaxies: while massive PSBs are thought of as products of fast quenching following a major merger-induced starburst, environment-induced fast quenching should play a role in the evolution of less massive PSBs, especially at M * ≲ 10 10 M ⊙ .
We present a new H I mass estimator that relates log 10 (M HI /M * ) to a linear combination of four galaxy properties: stellar surface mass density, color index u - r, stellar mass, and concentration index, with the scatter of individual galaxies around the mean H I mass modeled with a Gaussian distribution function. We calibrate the estimator using the xGASS sample, including both H I detection and nondetection, and constrain the model parameters through Bayesian inferences. Tests with mock catalogs demonstrate that our estimator provides unbiased H I masses for optical samples like SDSS. We apply our estimator to the SDSS spectroscopic sample to estimate the H I mass function (HIMF) of local galaxies, as well as the conditional H I mass function in galaxy groups and the H I –halo mass relation. Our HIMF agrees with the ALFALFA measurements at M HI ≳ 5 × 10 9 M ⊙ , but with higher amplitude and a steeper slope at lower masses. We show that this discrepancy is caused primarily by the cosmic variance, which is corrected for the SDSS sample but not for ALFALFA. The total CHIMFs for all halo masses can be described by a single Schechter function, while those of central galaxies show a double-Gaussian profile. The total H I mass in a group increases monotonically with halo mass, but for central galaxies, the H I mass shows weak dependence on halo mass when M h ≳ 10 12 M ⊙ . The observed H I –halo mass relation is not reproduced by current hydrodynamic simulations and semianalytic models of galaxy formation.
We present visual classifications of merger-induced tidal disturbances in 143 M* ~ 10 11 M ⊙ post-starburst galaxies at z ~ 0.7 identified in the $SQuIGG\vec{L}E$ Sample. This sample spectroscopically selects galaxies from the Sloan Digital Sky Survey that have stopped their primary epoch of star formation within the past ~500 Myr. Visual classifications are performed on Hyper Suprime-Cam imaging. We compare to a control sample of mass- and redshift-matched star-forming and quiescent galaxies from the Large Early Galaxy Census and find that post-starburst galaxies are more likely to be classified as disturbed than either category. This corresponds to a factor of $3.6$$^{+2.9}_{-1.3}$ times the disturbance rate of older quiescent galaxies and $2.1$$^{+1.9}_{-.73}$ times the disturbance rate of star-forming galaxies. Assuming tidal features persist for ≲500 Myr, this suggests merging is coincident with quenching in a significant fraction of these post-starbursts. Galaxies with tidal disturbances are younger on average than undisturbed post-starburst galaxies in our sample, suggesting tidal features from a major merger may have faded over time. This may be exacerbated by the fact that, on average, the undisturbed subset is fainter, rendering low-surface-brightness tidal features harder to identify. However, the presence of 10 young (≲150 Myr since quenching) undisturbed galaxies suggests that major mergers are not the only fast physical mechanism that shut down the primary epoch of star formation in massive galaxies at intermediate redshift.
Abstract We construct accurate emulators for the projected and redshift space galaxy correlation functions and excess surface density as measured by galaxy–galaxy lensing, based on halo occupation distribution modeling. Using the complete Mira-Titan suite of 111 N -body simulations, our emulators vary over eight cosmological parameters and include the effects of neutrino mass and dynamical dark energy. We demonstrate that our emulators are sufficiently accurate for the analysis of the Baryon Oscillation Spectroscopic Survey DR12 CMASS galaxy sample over the range 0.5 ≤ r ≤ 50 h −1 Mpc. Furthermore, we show that our emulators are capable of recovering unbiased cosmological constraints from realistic mock catalogs over the same range. Our mock catalog tests show the efficacy of combining small-scale galaxy–galaxy lensing with redshift space clustering and that we can constrain the growth rate and σ 8 to 7% and 4.5%, respectively, for a CMASS-like sample using only the measurements covered by our emulator. With the inclusion of a cosmic microwave background prior on H 0 , this reduces to a 2% measurement of the growth rate.
Fragmentation in a gravitationally unstable accretion disk can be an important pathway for forming stellar/planetary companions. To characterize quantitatively the condition for and outcome of fragmentation under realistic thermodynamics, we perform global 3D simulations of gravitationally unstable disks at various cooling rates and cooling types, including the first global simulations of gravitational instability that employ full radiation transport. We find that fragmentation is a stochastic process, with the fragment generation rate per disk area p frag showing an exponential dependence on the parameter β ≡ Ω K t cool , where Ω K is the Keplerian rotation frequency, and t cool is the average cooling timescale. Compared to a prescribed constant β, radiative cooling in the optically thin/thick regime makes p frag decrease slower/faster in β; the critical β corresponding to ∼1 fragment per orbit is ≈3, 5, and 2 for constant β, optically thin, and optically thick cooling, respectively. The distribution function of the initial fragment mass is remarkably insensitive to disk thermodynamics. Regardless of cooling rate and optical depth, the typical initial fragment mass is m frag ≈ 40M tot h 3 , with M tot being the total (star+disk) mass and h = H/R being the disk aspect ratio. Applying this result to typical Class 0/I protostellar disks, we find m frag ∼ 20M J , suggesting that fragmentation more likely forms brown dwarfs. Given the finite width of the m frag distribution, forming massive planets is also possible.
We present a wholly self-consistent, complete cyclic bouncing cosmology based on components drawn from string theory and constructed in a way that is under perturbative control throughout (e.g., with temperature much less than the string scale and string coupling $g_s \ll 1$ at all times). The cyclic evolution is governed by standard dilaton-gravity in $(3+1)$-dimensions with a perturbatively generated potential and a coupling between the dilaton and a second field that becomes massless at $ϕ= ϕ_{ESP}$, resulting in an enhanced symmetry point (ESP) that prevents the dilaton from running all the way to zero coupling. A central role is played by instant folded strings (IFSs) - fundamental strings with the unusual property of being much lighter than the string mass while extending far beyond the string length, and violating the Null Energy Condition (NEC). IFSs are produced classically when the string coupling grows with time, which occurs at two critical points in each cycle. In turn, they fulfill a dual function: enabling cosmological bounces and initiating transient epochs of dark-energy domination that naturally transition into slow contraction. The resulting cosmology eliminates the cosmic singularity and multiverse problems of big bang inflationary models and robustly predicts time-varying IFS-induced dark energy and the absence of primordial B-mode polarization in the cosmic microwave background.
This record contains a list of Snakemake rules (Snakefile) to process a raw *.fastq.gz (from GEO record: GSE281607) using Cutadapt, map a processed *.fastq file using Bowtie, convert mapped reads to *.bed files using Samtools and Bedtools, and count the occurance of each Bacteriodes fragilis str NCTC 9343 genome position anywhere in a mapped read and as the 3' end of a mapped read using Bedtools. It further contains *ebwt files to assist with Bowtie mapping, *genome file to be used with Bedtools, a *.fasta file (useful to regenerate *ebwt files), and the completely processed *bed and *txt read files (generated by Snakemake and R) as references. In addition, a *.pdb file is included and represents the predicted interaction between UpeY and UpaZ.
The instrument is a polarimetric W-Band simultaneous transmission simultaneous reception (STSR) Doppler Cloud Radar manufactured by Radiometer Physics GmbH (RPG, instrument type RPG-FMCW-94-DP). It was deployed about 500m away from the ARM M1 facility in Gothic (CO) near the Ore House between Nov 15, 2022 and Jun 5, 2023 at an altitude of 2913 m. The Doppler cloud radar was mounted on a prototype of a cold temperature scanner manufactured by RPG. The dataset contains common radar variables like equivalent radar reflectivity factor, mean Doppler velocity, Doppler spectrum width as well as common polarimetric radar variables like differential phase shift (PhiDP), specific differential phase shift (KDP), correlation coefficient (RHV) and differential reflectivity (ZDR). Between Nov 15, 2022, and Feb 7, 2023 the radar was operated at 40° constant elevation and 151° azimuth (towards the KAZR at the AMF1). Between Feb 7 and Mar 15, 2023 the following scan cycle was repeated in 15min intervals: zenith pointing measurements, RHI scans from 0° to 90° and 90° to 0° elevation at 151° azimuth, constant elevation measurements at 40° elevation and 151° azimuth and PPI scans at 85° elevation for wind retrievals (one PPI per hour). Between Mar 15 18:18 UTC and Apr 8, 2023 11:04 UTC, the scanner was stuck at 72° elevation, which resulted in corrupted files for this period. For that period, the files containing data are uploaded but should be treated with care. Between Apr 8 and Apr 14, 2023 the scanning pattern described above was performed again. Afterwards, except for May 17 and May 18, 2023 where scanning patterns as described above were performed, measurements continued at 40° elevation and 151° azimuth until May 22, 2023 09:00 UTC. The scanning pattern was then started again, but without hourly PPI measurements until May 31, 2023. Between May 31 and Jun 5, 2023 solely zenith-pointing observations were performed. The data provided here are the RPG Level 1 (L1) files, Doppler spectra Level 0 (L0) files are available upon request.
From October 13, 2023 until November 16, 2023, the GVR was deployed to the DOE ARM SGP site, to take advantage of their regular near-by radiosonde launches under clear-sky conditions. The latter were determined using the SGP total sky imagery data. The GVR brightness temperatures in these clear-sky conditions were compared to those calculated by a radiative transfer code (PAMTRA) based on the SGP radiosondes. During the campaign, 4 suitable clear-sky episodes occurred that could be used for the GVR calibration. While few in number, these proved to be enough to satisfy our goal.
Errors can occur at any level during the replication and transcription of genetic information. Genetic mutations derived mainly from replication errors have been extensively studied. However, fundamental details of transcript errors, such as their rate, molecular spectrum, and functional effects, remain largely unknown. To globally identify transcript errors, we applied an adapted rolling-circle sequencing approach to Escherichia coli, Bacillus subtilis, Agrobacterium tumefaciens, and Mesoplasma florum, revealing transcript-error rates 3 to 4 orders of magnitude higher than the corresponding genetic mutation rates. The majority of detected errors would result in amino-acid changes, if translated. With errors identified from 9929 loci, the molecular spectrum and distribution of errors were uncovered in great detail. A G→A substitution bias was observed in M. florum, which apparently has an error-prone RNA polymerase. Surprisingly, an increased frequency of nonsense errors towards the 3' end of mRNAs was observed, suggesting a Nonsense-Mediated Decay-like quality-control mechanism in prokaryotes.