Nonmonotonic settling of a sphere in a cornstarch suspension\ud

Cornstarch suspensions exhibit remarkable behavior. Here, we present two unexpected observations for a sphere settling in such a suspension: In the bulk of the liquid the velocity of the sphere oscillates around a terminal value, without damping. Near the bottom the sphere comes to a full stop, but then accelerates again toward a second stop. This stop-go cycle is repeated several times before the object reaches the bottom. We show that common shear thickening or linear viscoelastic models cannot account for the observed phenomena, and propose a minimal jamming model to describe the behavior at the botto

Luminosity Functions of Gamma-Ray Burst Afterglows

Aims: Use the standard fireball model to create virtual populations of gamma-ray burst afterglows and study their luminosity functions. Methods: We randomly vary the parameters of the standard fireball model to create virtual populations of afterglows. We use the luminosity of each burst at an observer's time of 1 day to create a luminosity function and compare our results with available observational data to assess the internal consistency of the standard fireball model. Results: We show that the luminosity functions can be described by a function similar to a log normal distribution with an exponential cutoff. The function parameters are frequency dependent but not very dependent on the model parameter distributions used to create the virtual populations. Comparison with observations shows that while there is good general agreement with the data, it is difficult to explain simultaneously the X-ray and optical data. Possible reasons for this are discussed and the most likely one is that the standard fireball model is incomplete and that decoupling of the X-ray and optical emission mechanism may be needed.Comment: 5 pages, 4 figures; accepted for publication in A&

Elevation of basal intracellular calcium as a central element in the activation of brain macrophages (microglia): suppression of receptor-evoked calcium signaling and control of release function

Microglia-brain macrophages are immune-competent cells of the CNS and respond to pathologic events. Using bacterial lipopolysaccharide (LPS) as a tool to activate cultured mouse microglia, we studied alterations in the intracellular calcium concentration ([Ca 2+]i) and in the receptor-evoked generation of transient calcium signals. LPS treatment led to a chronic elevation of basal [Ca 2+]i along with a suppression of evoked calcium signaling, as indicated by reduced [Ca 2+]i transients during stimulation with UTP and complement factor 5a. Presence of the calcium chelator BAPTA prevented the activation-associated changes in [Ca 2+]i and restored much of the signaling efficacy. We also evaluated downstream consequences of a basal [Ca 2+]i lifting during microglial activation and found BAPTA to strongly attenuate the LPS-induced release of nitric oxide (NO) and certain cytokines and chemokines. Furthermore, microglial treatment with ionomycin, an ionophore elevating basal [Ca 2+]i, mimicked the activation-induced calcium signal suppression but failed to induce release activity on its own. Our findings suggest that chronic elevation of basal [Ca 2+]i attenuates receptor-triggered calcium signaling. Moreover, increased [Ca 2+]i is required, but by itself is not sufficient, for release of NO and certain cytokines and chemokines. Elevation of basal [Ca 2+]i could thus prove a central element in the regulation of executive functions in activated microglia

Evidence for Supernova light in all Gamma-Ray Burst afterglows

We present an update of our systematic analysis of all Gamma-Ray Burst (GRB) afterglow data, now published through the end of 2004, in an attempt to detect the predicted supernova light component. We fit the observed photometric light curves as the sum of an afterglow, an underlying host galaxy, and a supernova component. The latter is modeled using published UBVRI light curves of SN 1998bw as a template. The total sample of afterglows with established redshifts contains now 29 bursts (GRB 970228 - GRB 041006). For 13 of them a weak supernova excess (scaled to SN 1998bw) was found. In agreement with our earlier result (Zeh et al. 2004) we find that also in the updated sample all bursts with redshift < 0.7 show a supernova excess in their afterglow light curves. The general lack of a detection of a supernova component at larger redshifts can be explained with selection effects. These results strongly support our previous conclusion based on all afterglow data of the years 1997 to 2002 that in fact all afterglows of long-duration GRBs contain light from an associated supernova.Comment: 5 pages, 6 figures, To appear in Proc. "22nd Texas Symposium on Relativistic Astrophysics", Dec. 2004 (TSRA04

Reading Between the Genes: Computational Models to Discover Function from Noncoding DNA

Noncoding DNA - once called "junk" has revealed itself to be full of function. Technology development has allowed researchers to gather genome-scale data pointing towards complex regulatory regions, expression and function of noncoding RNA genes, and conserved elements. Variation in these regions has been tied to variation in biological function and human disease. This PSB session tackles the problem of handling, analyzing and interpreting the data relating to variation in and interactions between noncoding regions through computational biology. We feature an invited speaker to how variation in transcription factor coding sequences impacts on sequence preference, along with submitted papers that span graph based methods, integrative analyses, machine learning, and dimension reduction to explore questions of basic biology, cancer, diabetes, and clinical relevance.University of Arizona Health Sciences CB2, the BIO5 Institute; NIH [U01AI122275, HL132532, CA023074, 1UG3OD023171, 1R01AG053589-01A1, 1S10RR029030]Open access journalThis item from the UA Faculty Publications collection is made available by the University of Arizona with support from the University of Arizona Libraries. If you have questions, please contact us at [email protected]

Workshop during the Pacific Symposium of Biocomputing, Jan 3-7, 2019: Reading between the genes: interpreting non-coding DNA in high-throughput

Identifying functional elements and predicting mechanistic insight from non-coding DNA and non-coding variation remains a challenge. Advances in genome-scale, high-throughput technology, however, have brought these answers closer within reach than ever, though there is still a need for new computational approaches to analysis and integration. This workshop aims to explore these resources and new computational methods applied to regulatory elements, chromatin interactions, non-protein-coding genes, and other non-coding DNA.Open access journalThis item from the UA Faculty Publications collection is made available by the University of Arizona with support from the University of Arizona Libraries. If you have questions, please contact us at [email protected]

English Intermediate-Task Training Improves Zero-Shot Cross-Lingual Transfer Too

Intermediate-task training---fine-tuning a pretrained model on an intermediate task before fine-tuning again on the target task---often improves model performance substantially on language understanding tasks in monolingual English settings. We investigate whether English intermediate-task training is still helpful on non-English target tasks. Using nine intermediate language-understanding tasks, we evaluate intermediate-task transfer in a zero-shot cross-lingual setting on the XTREME benchmark. We see large improvements from intermediate training on the BUCC and Tatoeba sentence retrieval tasks and moderate improvements on question-answering target tasks. MNLI, SQuAD and HellaSwag achieve the best overall results as intermediate tasks, while multi-task intermediate offers small additional improvements. Using our best intermediate-task models for each target task, we obtain a 5.4 point improvement over XLM-R Large on the XTREME benchmark, setting the state of the art as of June 2020. We also investigate continuing multilingual MLM during intermediate-task training and using machine-translated intermediate-task data, but neither consistently outperforms simply performing English intermediate-task training