A Statistical Decomposition Based Neural Network For Multivariate Time Series Forecasting

Machine learning based time series forecasting methods are popular and can match the performance of statistical models, in terms of accuracy, scalability, speed, etc. This disclosure presents techniques that incorporate statistical modeling into a neural network framework. The hybrid time series forecasting model described herein is named Seasonality Trend AutoRegressive Residual Yeo-Johnson power transformation Neural Network (STARRY-N). STARRY-N combines the advantages of residual neural network structure (such as N-BEATS) and explainable statistical forecasting models (such as TBATS). The model utilizes a neural network structure with separate stacks for trend, power transformed trend, seasonality, residual correction, and covariate adoption such as holiday effects. STARRY-N has good accuracy and is an explainable forecasting model

Time-Dependent c-Myc Transactomes Mapped by Array-Based Nuclear Run-On Reveal Transcriptional Modules in Human B Cells

The definition of transcriptional networks through measurements of changes in gene expression profiles and mapping of transcription factor binding sites is limited by the moderate overlap between binding and gene expression changes and the inability to directly measure global nuclear transcription (coined "transactome").We developed a method to measure nascent nuclear gene transcription with an Array-based Nuclear Run-On (ANRO) assay using commercial microarray platforms. This strategy provides the missing component, the transactome, to fully map transcriptional networks. ANRO measurements in an inducible c-Myc expressing human P493-6 B cell model reveals time-dependent waves of transcription, with a transactome early after c-Myc induction that does not persist at a late, steady-state phase, when genes that are regulated by c-Myc and E2F predominate. Gene set matrix analysis further uncovers functionally related groups of genes putatively regulated by waves of transcription factor motifs following Myc induction, starting with AP1 and CREB that are followed by EGR1, NFkB and STAT, and ending with E2F, Myc and ARNT/HIF motifs.By coupling ANRO with previous global mapping of c-Myc binding sites by chromatin immunoprecipitation (ChIP) in P493-6 cells, we define a set of transcriptionally regulated direct c-Myc target genes and pave the way for the use of ANRO to comprehensively map any transcriptional network

High-Quality Draft Genome Sequences of Four Lignocellulose-Degrading Bacteria Isolated from Puerto Rican Forest Soil: Gordonia sp., Paenibacillus sp., Variovorax sp., and Vogesella sp.

Here, we report the high-quality draft genome sequences of four phylogenetically diverse lignocellulose-degrading bacteria isolated from tropical soil (Gordonia sp., Paenibacillus sp., Variovorax sp., and Vogesella sp.) to elucidate the genetic basis of their ability to degrade lignocellulose. These isolates may provide novel enzymes for biofuel production

PAPER-64 CONSTRAINTS ON REIONIZATION: THE 21 cm POWER SPECTRUM AT z = 8.4

In this paper, we report new limits on 21 cm emission from cosmic reionization based on a 135 day observing campaign with a 64-element deployment of the Donald C. Backer Precision Array for Probing the Epoch of Reionization in South Africa. This work extends the work presented in Parsons et al. with more collecting area, a longer observing period, improved redundancy-based calibration, improved fringe-rate filtering, and updated power-spectral analysis using optimal quadratic estimators. The result is a new 2σ upper limit on Δ[superscript 2](k) of (22.4 mK)[superscript 2] in the range 0.15 < k < 0.5h Mpc[superscript -1] at z = 8.4. This represents a three-fold improvement over the previous best upper limit. As we discuss in more depth in a forthcoming paper, this upper limit supports and extends previous evidence against extremely cold reionization scenarios. We conclude with a discussion of implications for future 21 cm reionization experiments, including the newly funded Hydrogen Epoch of Reionization Array

Maternal autoimmunity and inflammation are associated with childhood tics and obsessive-compulsive disorder: Transcriptomic data show common enriched innate immune pathways.

Although genetic variation is a major risk factor of neurodevelopmental disorders, environmental factors during pregnancy and early life are also important in disease expression. Animal models demonstrate that maternal inflammation causes fetal neuroinflammation and neurodevelopmental deficits, and brain transcriptomics of neurodevelopmental disorders in humans show upregulated differentially expressed genes are enriched in immune pathways. We prospectively recruited 200 sequentially referred children with tic disorders/obsessive-compulsive disorder (OCD), 100 autoimmune neurological controls, and 100 age-matched healthy controls. A structured interview captured the maternal and family history of autoimmune disease and other pro-inflammatory states. Maternal blood and published Tourette brain transcriptomes were analysed for overlapping enriched pathways. Mothers of children with tics/OCD had a higher rate of autoimmune disease compared with mothers of children with autoimmune neurological conditions (p = 0.054), and mothers of healthy controls (p = 0.0004). Autoimmunity was similarly elevated in first- and second-degree maternal relatives of children with tics/OCD (p 0.0001 and p = 0.014 respectively). Other pro-inflammatory states were also more common in mothers of children with tics/OCD than controls (p 0.0001). Upregulated differentially expressed genes in maternal autoimmune disease and Tourette brain transcriptomes were commonly enriched in innate immune processes. Pro-inflammatory states, including autoimmune disease, are more common in the mothers and families of children with tics/OCD. Exploratory transcriptome analysis indicates innate immune signalling may link maternal inflammation and childhood tics/OCD. Targeting inflammation may represent preventative strategies in pregnancy and treatment opportunities for children with neurodevelopmental disorders

Extinction-free Census of AGNs in the AKARI/IRC North Ecliptic Pole Field from 23-band Infrared Photometry from Space Telescopes

In order to understand the interaction between the central black hole and the whole galaxy or their co-evolution history along with cosmic time, a complete census of active galactic nuclei (AGN) is crucial. However, AGNs are often missed in optical, UV and soft X-ray observations since they could be obscured by gas and dust. A mid-infrared (mid-IR) survey supported by multiwavelength data is one of the best ways to find obscured AGN activities because it suffers less from extinction. Previous large IR photometric surveys, e.g., WISE and Spitzer, have gaps between the mid-IR filters. Therefore, star forming galaxy (SFG)-AGN diagnostics in the mid-IR were limited. The AKARI satellite has a unique continuous 9-band filter coverage in the near to mid-IR wavelengths. In this work, we take advantage of the state-of-the-art spectral energy distribution (SED) modelling software, CIGALE, to find AGNs in mid-IR. We found 126 AGNs in the NEP-Wide field with this method. We also investigate the energy released from the AGN as a fraction of the total IR luminosity of a galaxy. We found that the AGN contribution is larger at higher redshifts for a given IR luminosity. With the upcoming deep IR surveys, e.g., JWST, we expect to find more AGNs with our method

Search for Optically Dark Infrared Galaxies without Counterparts of Subaru Hyper Suprime-Cam in the AKARI North Ecliptic Pole Wide Survey Field

We present the physical properties of AKARI sources without optical counterparts in optical images from the Hyper Suprime-Cam (HSC) on the Subaru telescope. Using the AKARI infrared (IR) source catalog and HSC optical catalog, we select 583 objects that do not have HSC counterparts in the AKARI North Ecliptic Pole wide survey field (~5 deg2). Because the HSC limiting magnitude is deep (gAB ~ 28.6), these are good candidates for extremely red star-forming galaxies (SFGs) and/or active galactic nuclei (AGNs), possibly at high redshifts. We compile multiwavelength data out to 500 μm and use them for fitting the spectral energy distribution with CIGALE to investigate the physical properties of AKARI galaxies without optical counterparts. We also compare their physical quantities with AKARI mid-IR selected galaxies with HSC counterparts. The estimated redshifts of AKARI objects without HSC counterparts range up to z ~ 4, significantly higher than for AKARI objects with HSC counterparts. We find that (i) 3.6 – 4.5 μm color, (ii) AGN luminosity, (iii) stellar mass, (iv) star formation rate, and (v) V-band dust attenuation in the interstellar medium of AKARI objects without HSC counterparts are systematically larger than those of AKARI objects with counterparts. These results suggest that our sample includes luminous, heavily dust-obscured SFGs/AGNs at z ~ 1–4 that are missed by previous optical surveys, providing very interesting targets for the coming era of the James Webb Space Telescope

The \u3cem\u3eChlamydomonas\u3c/em\u3e Genome Reveals the Evolution of Key Animal and Plant Functions

Chlamydomonas reinhardtii is a unicellular green alga whose lineage diverged from land plants over 1 billion years ago. It is a model system for studying chloroplast-based photosynthesis, as well as the structure, assembly, and function of eukaryotic flagella (cilia), which were inherited from the common ancestor of plants and animals, but lost in land plants. We sequenced the ∼120-megabase nuclear genome of Chlamydomonas and performed comparative phylogenomic analyses, identifying genes encoding uncharacterized proteins that are likely associated with the function and biogenesis of chloroplasts or eukaryotic flagella. Analyses of the Chlamydomonas genome advance our understanding of the ancestral eukaryotic cell, reveal previously unknown genes associated with photosynthetic and flagellar functions, and establish links between ciliopathy and the composition and function of flagella

The Long-Baseline Neutrino Experiment: Exploring Fundamental Symmetries of the Universe

The preponderance of matter over antimatter in the early Universe, the dynamics of the supernova bursts that produced the heavy elements necessary for life and whether protons eventually decay --- these mysteries at the forefront of particle physics and astrophysics are key to understanding the early evolution of our Universe, its current state and its eventual fate. The Long-Baseline Neutrino Experiment (LBNE) represents an extensively developed plan for a world-class experiment dedicated to addressing these questions. LBNE is conceived around three central components: (1) a new, high-intensity neutrino source generated from a megawatt-class proton accelerator at Fermi National Accelerator Laboratory, (2) a near neutrino detector just downstream of the source, and (3) a massive liquid argon time-projection chamber deployed as a far detector deep underground at the Sanford Underground Research Facility. This facility, located at the site of the former Homestake Mine in Lead, South Dakota, is approximately 1,300 km from the neutrino source at Fermilab -- a distance (baseline) that delivers optimal sensitivity to neutrino charge-parity symmetry violation and mass ordering effects. This ambitious yet cost-effective design incorporates scalability and flexibility and can accommodate a variety of upgrades and contributions. With its exceptional combination of experimental configuration, technical capabilities, and potential for transformative discoveries, LBNE promises to be a vital facility for the field of particle physics worldwide, providing physicists from around the globe with opportunities to collaborate in a twenty to thirty year program of exciting science. In this document we provide a comprehensive overview of LBNE's scientific objectives, its place in the landscape of neutrino physics worldwide, the technologies it will incorporate and the capabilities it will possess.Comment: Major update of previous version. This is the reference document for LBNE science program and current status. Chapters 1, 3, and 9 provide a comprehensive overview of LBNE's scientific objectives, its place in the landscape of neutrino physics worldwide, the technologies it will incorporate and the capabilities it will possess. 288 pages, 116 figure