587 research outputs found
Characterization of RNA content in individual phase-separated coacervate microdroplets
Condensates formed by complex coacervation are hypothesized to have played a crucial part during the origin-of-life. In living cells, condensation organizes biomolecules into a wide range of membraneless compartments. Although RNA is a key component of biological condensates and the central component of the RNA world hypothesis, little is known about what determines RNA accumulation in condensates and to which extend single condensates differ in their RNA composition. To address this, we developed an approach to read the RNA content from single synthetic and protein-based condensates using high-throughput sequencing. We find that certain RNAs efficiently accumulate in condensates. These RNAs are strongly enriched in sequence motifs which show high sequence similarity to short interspersed elements (SINEs). We observe similar results for protein-derived condensates, demonstrating applicability across different in vitro reconstituted membraneless organelles. Thus, our results provide a new inroad to explore the RNA content of phase-separated droplets at single condensate resolution
Inferring and perturbing cell fate regulomes in human brain organoids
Self-organizing neural organoids grown from pluripotent stem cells(1-3) combined with single-cell genomic technologies provide opportunities to examine gene regulatory networks underlying human brain development. Here we acquire single-cell transcriptome and accessible chromatin data over a dense time course in human organoids covering neuroepithelial formation, patterning, brain regionalization and neurogenesis, and identify temporally dynamic and brain-region-specific regulatory regions. We developed Pando-a flexible framework that incorporates multi-omic data and predictions of transcription-factor-binding sites to infer a global gene regulatory network describing organoid development. We use pooled genetic perturbation with single-cell transcriptome readout to assess transcription factor requirement for cell fate and state regulation in organoids. We find that certain factors regulate the abundance of cell fates, whereas other factors affect neuronal cell states after differentiation. We show that the transcription factor GLI3 is required for cortical fate establishment in humans, recapitulating previous research performed in mammalian model systems. We measure transcriptome and chromatin accessibility in normal or GLI3-perturbed cells and identify two distinct GLI3 regulomes that are central to telencephalic fate decisions: one regulating dorsoventral patterning with HES4/5 as direct GLI3 targets, and one controlling ganglionic eminence diversification later in development. Together, we provide a framework for how human model systems and single-cell technologies can be leveraged to reconstruct human developmental biology
Performance of bushy forage legumes in dynamic smallholder pasture systems of Northeastern Amazon, Brazil.
Fast Photon Detection for Particle Identification with COMPASS RICH-1
Particle identification at high rates is an important challenge for many
current and future high-energy physics experiments. The upgrade of the COMPASS
RICH-1 detector requires a new technique for Cherenkov photon detection at
count rates of several per channel in the central detector region, and a
read-out system allowing for trigger rates of up to 100 kHz. To cope with these
requirements, the photon detectors in the central region have been replaced
with the detection system described in this paper. In the peripheral regions,
the existing multi-wire proportional chambers with CsI photocathode are now
read out via a new system employing APV pre-amplifiers and flash ADC chips. The
new detection system consists of multi-anode photomultiplier tubes (MAPMT) and
fast read-out electronics based on the MAD4 discriminator and the F1-TDC chip.
The RICH-1 is in operation in its upgraded version for the 2006 CERN SPS run.
We present the photon detection design, constructive aspects and the first
Cherenkov light in the detector.Comment: Proceedings of the Imaging 2006 conference, Stockholm, Sweden, 27-30
June 2006, 5 pages, 6 figures, to appear in NIM A; corrected typo in caption
of Fig.
Fast photon detection for the COMPASS RICH detector
The COMPASS experiment at the SPS accelerator at CERN uses a large scale Ring
Imaging CHerenkov detector (RICH) to identify pions, kaons and protons in a
wide momentum range. For the data taking in 2006, the COMPASS RICH has been
upgraded in the central photon detection area (25% of the surface) with a new
technology to detect Cherenkov photons at very high count rates of several 10^6
per second and channel and a new dead-time free read-out system, which allows
trigger rates up to 100 kHz. The Cherenkov photons are detected by an array of
576 visible and ultra-violet sensitive multi-anode photomultipliers with 16
channels each. The upgraded detector showed an excellent performance during the
2006 data taking.Comment: Proceeding of the IPRD06 conference (Siena, Okt. 06
Improving the livelihoods of poor livestock keepers through community based management of indigenous farm animal genetic resources in Africa
The Fast Read-out System for the MAPMTs of COMPASS RICH-1
A fast readout system for the upgrade of the COMPASS RICH detector has been
developed and successfully used for data taking in 2006 and 2007. The new
readout system for the multi-anode PMTs in the central part of the photon
detector of the RICH is based on the high-sensitivity MAD4
preamplifier-discriminator and the dead-time free F1-TDC chip characterized by
high-resolution. The readout electronics has been designed taking into account
the high photon flux in the central part of the detector and the requirement to
run at high trigger rates of up to 100 kHz with negligible dead-time. The
system is designed as a very compact setup and is mounted directly behind the
multi-anode photomultipliers. The data are digitized on the frontend boards and
transferred via optical links to the readout system. The read-out electronics
system is described in detail together with its measured performances.Comment: Proceeding of RICH2007 Conference, Trieste, Oct. 2007. v2: minor
change
Measurement of the Longitudinal Spin Transfer to Lambda and Anti-Lambda Hyperons in Polarised Muon DIS
The longitudinal polarisation transfer from muons to lambda and anti-lambda
hyperons, D_LL, has been studied in deep inelastic scattering off an
unpolarised isoscalar target at the COMPASS experiment at CERN. The spin
transfers to lambda and anti-lambda produced in the current fragmentation
region exhibit different behaviours as a function of x and xF . The measured x
and xF dependences of D^lambda_LL are compatible with zero, while
D^anti-lambda_LL tends to increase with xF, reaching values of 0.4 - 0.5. The
resulting average values are D^lambda_LL = -0.012 +- 0.047 +- 0.024 and
D^anti-lambda_LL = 0.249 +- 0.056 +- 0.049. These results are discussed in the
frame of recent model calculations.Comment: 13 pages, 7 figure
Observation of a J^PC = 1-+ exotic resonance in diffractive dissociation of 190 GeV/c pi- into pi- pi- pi+
The COMPASS experiment at the CERN SPS has studied the diffractive
dissociation of negative pions into the pi- pi- pi+ final state using a 190
GeV/c pion beam hitting a lead target. A partial wave analysis has been
performed on a sample of 420000 events taken at values of the squared
4-momentum transfer t' between 0.1 and 1 GeV^2/c^2. The well-known resonances
a1(1260), a2(1320), and pi2(1670) are clearly observed. In addition, the data
show a significant natural parity exchange production of a resonance with
spin-exotic quantum numbers J^PC = 1-+ at 1.66 GeV/c^2 decaying to rho pi. The
resonant nature of this wave is evident from the mass-dependent phase
differences to the J^PC = 2-+ and 1++ waves. From a mass-dependent fit a
resonance mass of 1660 +- 10+0-64 MeV/c^2 and a width of 269+-21+42-64 MeV/c^2
is deduced.Comment: 7 page, 3 figures; version 2 gives some more details, data unchanged;
version 3 updated authors, text shortened, data unchange
The Spin-dependent Structure Function of the Proton g_1^p and a Test of the Bjorken Sum Rule
The inclusive double-spin asymmetry, A_1^p, has been measured at COMPASS in
deepinelastic polarised muon scattering off a large polarised NH3 target. The
data, collected in the year 2007, cover the range Q2 > 1 (GeV/c)^2, 0.004 < x <
0.7 and improve the statistical precision of g_1^p(x) by a factor of two in the
region x < 0.02. The new proton asymmetries are combined with those previously
published for the deuteron to extract the non-singlet spin-dependent structure
function g_1^NS(x,Q2). The isovector quark density, Delta_q_3(x,Q2), is
evaluated from a NLO QCD fit of g_1^NS. The first moment of Delta_q3 is in good
agreement with the value predicted by the Bjorken sum rule and corresponds to a
ratio of the axial and vector coupling constants g_A/g_V =
1.28+-0.07(stat)+-0.10(syst).Comment: 12 pages, 5 figure
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