A sensitive APEX and ALMA CO(1-0), CO(2-1), CO(3-2), and [CI](1-0) spectral survey of 40 local (U)LIRGs

We present a high sensitivity spectral line survey of CO(1-0), CO(2-1), CO(3-2) and [CI](1-0) in 40 local (ultra) luminous infrared galaxies ((U)LIRGs), all with previous Herschel OH119 $\mu$m observations. We use single-dish observations (PI and archival) conducted with APEX, complemented with ALMA and ACA data. We study the total emission and pay special attention to the extended low-surface brightness components. We find a tight correlation between low-J CO and [CI] line luminosities suggesting their emission arise from similar regions, at least when averaged over galactic scales. We estimate a median CO-to-H$_2$ conversion factor of $1.7\pm 0.5$ M$_{\odot}$ (K km s$^{-1}$ pc$^2)^{-1}$ for ULIRGs, using [CI] as an independent tracer. We derive median galaxy-integrated CO line ratios ($r_{21}$, $r_{31}$ and $r_{32}$), as well as $r_{CICO}$, significantly higher than normal star forming galaxies, confirming the exceptional molecular gas properties of ULIRGs. We find that $r_{21}$ and $r_{32}$ are poor tracers of CO excitation in ULIRGs, while $r_{31}$ shows a positive trend with $L_{IR}$ and SFR, and a negative trend with the H$_2$ gas depletion timescales ($\tau_{dep}$). When studying CO line ratios as a function of gas kinematics, we find a positive relation between $r_{21}$ and $\sigma_v$, which can be explained by CO opacity effects. We find that the linewidths of [CI] lines are ~10% narrower than CO lines, which may suggest that the low optical depth of [CI] can challenge its detection in diffuse, low-surface brightness outflows, and so its use as a tracer of CO-dark H$_2$ gas in these components. Finally, we find that higher $L_{AGN}$ are associated to longer $\tau_{dep}$, consistent with the hypothesis that AGN feedback may reduce the efficiency of star formation.Comment: Accepted for publication by A&A. 42 pages, 22 figures. Abstract summarised for arXiv submissio

Algebraic Comparison of Partial Lists in Bioinformatics

The outcome of a functional genomics pipeline is usually a partial list of genomic features, ranked by their relevance in modelling biological phenotype in terms of a classification or regression model. Due to resampling protocols or just within a meta-analysis comparison, instead of one list it is often the case that sets of alternative feature lists (possibly of different lengths) are obtained. Here we introduce a method, based on the algebraic theory of symmetric groups, for studying the variability between lists ("list stability") in the case of lists of unequal length. We provide algorithms evaluating stability for lists embedded in the full feature set or just limited to the features occurring in the partial lists. The method is demonstrated first on synthetic data in a gene filtering task and then for finding gene profiles on a recent prostate cancer dataset

Characterization of a high throughput approach for large scale retention measurement in liquid chromatography

Many contemporary challenges in liquid chromatography—such as the need for “smarter” method development tools, and deeper understanding of chromatographic phenomena—could be addressed more efficiently and effectively with larger volumes of experimental retention data than are available. The paucity of publicly accessible, high-quality measurements needed for the development of retention models and simulation tools has largely been due to the high cost in time and resources associated with traditional retention measurement approaches. Recently we described an approach to improve the throughput of such measurements by using very short columns (typically 5 mm), while maintaining measurement accuracy. In this paper we present a perspective on the characteristics of a dataset containing about 13,000 retention measurements obtained using this approach, and describe a different sample introduction method that is better suited to this application than the approach we used in prior work. The dataset comprises results for 35 different small molecules, nine different stationary phases, and several mobile phase compositions for each analyte/phase combination. During the acquisition of these data, we have interspersed repeated measurements of a small number of compounds for quality control purposes. The data from these measurements not only enable detection of outliers but also assessment of the repeatability and reproducibility of retention measurements over time. For retention factors greater than 1, the mean relative standard deviation (RSD) of replicate (typically n=5) measurements is 0.4%, and the standard deviation of RSDs is 0.4%. Most differences between selectivity values measured six months apart for 15 non-ionogenic compounds were in the range of +/- 1%, indicating good reproducibility. A critically important observation from these analyses is that selectivity defined as retention of a given analyte relative to the retention of a reference compound (kx/kref) is a much more consistent measure of retention over a time span of months compared to the retention factor alone. While this work and dataset also highlight the importance of stationary phase stability over time for achieving reliable retention measurements, we are nevertheless optimistic that this approach will enable the compilation of large databases (>> 10,000 measurements) of retention values over long time periods (years), which can in turn be leveraged to address some of the most important contemporary challenges in liquid chromatography. All the data discussed in the manuscript are provided as Supplemental Information

ZeChipC: Time Series Interpolation Method Based on Lebesgue Sampling

In this paper, we present an interpolation method based on Lebesgue sampling that could help to develop systems based time series more efficiently. Our methods can transmit times series, frequently used in health monitoring, with the same level of accuracy but using much fewer data. Our method is based in Lebesgue sampling, which collects information depending on the values of the signal (e.g. the signal output is sampled when it crosses specific limits). Lebesgue sampling contains additional information about the shape of the signal in-between two sampled points. Using this information would allow generating an interpolated signal closer to the original one. In our contribution, we propose a novel time-series interpolation method designed explicitly for Lebesgue sampling called ZeChipC. ZeChipC is a combination of Zero-order hold and Piecewise Cubic Hermite Interpolating Polynomial (PCHIP) interpolation. ZeChipC includes new functionality to adapt the reconstructed signal to concave/convex regions. The proposed methods have been compared with state-of-the-art interpolation methods using Lebesgue sampling and have offered higher average performance.Enterprise Irelan

MASCOT: molecular gas depletion times and metallicity gradients – evidence for feedback in quenching active galaxies

We present results from the first public data release of the MaNGA-ARO Survey of CO Targets (MASCOT), focusing our study on galaxies whose star formation rates and stellar masses place them below the ridge of the star-forming main sequence. In optically selected type 2 AGN/low-ionization nuclear emission regions (LINERs)/Composites, we find an empirical relation between gas-phase metallicity gradients ∇Z and global molecular gas depletion times tdep=MH2/SFR with ‘more quenched’ systems showing flatter/positive gradients. Our results are based on the O3N2 metallicity diagnostic (applied to star-forming regions within a given galaxy), which was recently suggested to also be robust against emission by diffuse ionized gas (DIG) and LINERs. We conduct a systematic investigation into possible drivers of the observed ∇Z − tdep relation (ouflows, gas accretion, in situ star formation, mergers, and morphology). We find a strong relation between ∇Z or tdep and centralized outflow strength traced by the [O III] velocity broadening. We also find signatures of suppressed star formation in the outskirts in AGN-like galaxies with long depletion times and an enhancement of metals in the outer regions. We find no evidence of inflows impacting the metallicity gradients, and none of our results are found to be significantly affected by merger activity or morphology. We thus conclude that the observed ∇Z–tdep relation may stem from a combination of metal redistribution via weak feedback, and a connection to in situ star formation via a resolved mass-metallicity–SFR relation. © 2022 The Author(s) Published by Oxford University Press on behalf of Royal Astronomical Society.DW and CB are supported through the Emmy Noether Programme of the German Research Foundation. MA acknowledges support from FONDECYT grant 1211951, CONICYT + PCI + INSTITUTO MAX PLANCK DE ASTRONOMIA MPG190030, CONICYT+PCI + REDES 190194, and ANID BASAL project FB210003. WB acknowledges support from the ERC Advanced Grant 695671, ‘QUENCH’ and from the Science and Technology Facilities Council (STFC). Funding for the Sloan Digital Sky Survey IV has been provided by the Alfred P. Sloan Foundation, the U.S. Department of Energy Office of Science, and the Participating Institutions. SDSS-IV acknowledges support and resources from the Center for High Performance Computing at the University of Utah.With funding from the Spanish government through the "Severo Ochoa Centre of Excellence" accreditation (CEX2021-001131-S).Peer reviewe

Amino-acid PET versus MRI guided re-irradiation in patients with recurrent glioblastoma multiforme (GLIAA) – protocol of a randomized phase II trial (NOA 10/ARO 2013-1)

Background: The higher specificity of amino-acid positron emission tomography (AA-PET) in the diagnosis of gliomas, as well as in the differentiation between recurrence and treatment-related alterations, in comparison to contrast enhancement in T1-weighted MRI was demonstrated in many studies and is the rationale for their implementation into radiation oncology treatment planning. Several clinical trials have demonstrated the significant differences between AA-PET and standard MRI concerning the definition of the gross tumor volume (GTV). A small single-center non-randomized prospective study in patients with recurrent high grade gliomas treated with stereotactic fractionated radiotherapy (SFRT) showed a significant improvement in survival when AA-PET was integrated in target volume delineation, in comparison to patients treated based on CT/MRI alone. Methods: This protocol describes a prospective, open label, randomized, multi-center phase II trial designed to test if radiotherapy target volume delineation based on FET-PET leads to improvement in progression free survival (PFS) in patients with recurrent glioblastoma (GBM) treated with re-irradiation, compared to target volume delineation based on T1Gd-MRI. The target sample size is 200 randomized patients with a 1:1 allocation ratio to both arms. The primary endpoint (PFS) is determined by serial MRI scans, supplemented by AA-PET-scans and/or biopsy/surgery if suspicious of progression. Secondary endpoints include overall survival (OS), locally controlled survival (time to local progression or death), volumetric assessment of GTV delineated by either method, topography of progression in relation to MRIor PET-derived target volumes, rate of long term survivors (> 1 year), localization of necrosis after re-irradiation, quality of life (QoL) assessed by the EORTC QLQ-C15 PAL questionnaire, evaluation of safety of FET-application in AA-PET imaging and toxicity of re-irradiation. Discussion: This is a protocol of a randomized phase II trial designed to test a new strategy of radiotherapy target volume delineation for improving the outcome of patients with recurrent GBM. Moreover, the trial will help to develop a standardized methodology for the integration of AA-PET and other imaging biomarkers in radiation treatment planning. Trial registration: The GLIAA trial is registered with ClinicalTrials.gov (NCT01252459, registration date 02.12.2010), German Clinical Trials Registry (DRKS00000634, registration date 10.10.2014), and European Clinical Trials Database (EudraCT-No. 2012-001121-27, registration date 27.02.2012)