Lucene4IR: Developing information retrieval evaluation resources using Lucene

The workshop and hackathon on developing Information Retrieval Evaluation Resources using Lucene (L4IR) was held on the 8th and 9th of September, 2016 at the University of Strathclyde in Glasgow, UK and funded by the ESF Elias Network. The event featured three main elements: (i) a series of keynote and invited talks on industry, teaching and evaluation; (ii) planning, coding and hacking where a number of groups created modules and infrastructure to use Lucene to undertake TREC based evaluations; and (iii) a number of breakout groups discussing challenges, opportunities and problems in bridging the divide between academia and industry, and how we can use Lucene for teaching and learning Information Retrieval (IR). The event was composed of a mix and blend of academics, experts and students wanting to learn, share and create evaluation resources for the community. The hacking was intense and the discussions lively creating the basis of many useful tools but also raising numerous issues. It was clear that by adopting and contributing to most widely used and supported Open Source IR toolkit, there were many benefits for academics, students, researchers, developers and practitioners - providing a basis for stronger evaluation practices, increased reproducibility, more efficient knowledge transfer, greater collaboration between academia and industry, and shared teaching and training resources

The Sloan Digital Sky Survey: Technical Summary

The Sloan Digital Sky Survey (SDSS) will provide the data to support detailed investigations of the distribution of luminous and non- luminous matter in the Universe: a photometrically and astrometrically calibrated digital imaging survey of pi steradians above about Galactic latitude 30 degrees in five broad optical bands to a depth of g' about 23 magnitudes, and a spectroscopic survey of the approximately one million brightest galaxies and 10^5 brightest quasars found in the photometric object catalog produced by the imaging survey. This paper summarizes the observational parameters and data products of the SDSS, and serves as an introduction to extensive technical on-line documentation.Comment: 9 pages, 7 figures, AAS Latex. To appear in AJ, Sept 200

The Habitable Exoplanet Observatory (HabEx) Mission Concept Study Final Report

The Habitable Exoplanet Observatory, or HabEx, has been designed to be the Great Observatory of the 2030s. For the first time in human history, technologies have matured sufficiently to enable an affordable space-based telescope mission capable of discovering and characterizing Earthlike planets orbiting nearby bright sunlike stars in order to search for signs of habitability and biosignatures. Such a mission can also be equipped with instrumentation that will enable broad and exciting general astrophysics and planetary science not possible from current or planned facilities. HabEx is a space telescope with unique imaging and multi-object spectroscopic capabilities at wavelengths ranging from ultraviolet (UV) to near-IR. These capabilities allow for a broad suite of compelling science that cuts across the entire NASA astrophysics portfolio. HabEx has three primary science goals: (1) Seek out nearby worlds and explore their habitability; (2) Map out nearby planetary systems and understand the diversity of the worlds they contain; (3) Enable new explorations of astrophysical systems from our own solar system to external galaxies by extending our reach in the UV through near-IR. This Great Observatory science will be selected through a competed GO program, and will account for about 50% of the HabEx primary mission. The preferred HabEx architecture is a 4m, monolithic, off-axis telescope that is diffraction-limited at 0.4 microns and is in an L2 orbit. HabEx employs two starlight suppression systems: a coronagraph and a starshade, each with their own dedicated instrument

The Habitable Exoplanet Observatory (HabEx) Mission Concept Study Final Report

The Habitable Exoplanet Observatory, or HabEx, has been designed to be the Great Observatory of the 2030s. For the first time in human history, technologies have matured sufficiently to enable an affordable space-based telescope mission capable of discovering and characterizing Earthlike planets orbiting nearby bright sunlike stars in order to search for signs of habitability and biosignatures. Such a mission can also be equipped with instrumentation that will enable broad and exciting general astrophysics and planetary science not possible from current or planned facilities. HabEx is a space telescope with unique imaging and multi-object spectroscopic capabilities at wavelengths ranging from ultraviolet (UV) to near-IR. These capabilities allow for a broad suite of compelling science that cuts across the entire NASA astrophysics portfolio. HabEx has three primary science goals: (1) Seek out nearby worlds and explore their habitability; (2) Map out nearby planetary systems and understand the diversity of the worlds they contain; (3) Enable new explorations of astrophysical systems from our own solar system to external galaxies by extending our reach in the UV through near-IR. This Great Observatory science will be selected through a competed GO program, and will account for about 50% of the HabEx primary mission. The preferred HabEx architecture is a 4m, monolithic, off-axis telescope that is diffraction-limited at 0.4 microns and is in an L2 orbit. HabEx employs two starlight suppression systems: a coronagraph and a starshade, each with their own dedicated instrument.Comment: Full report: 498 pages. Executive Summary: 14 pages. More information about HabEx can be found here: https://www.jpl.nasa.gov/habex

Finishing the euchromatic sequence of the human genome

The sequence of the human genome encodes the genetic instructions for human physiology, as well as rich information about human evolution. In 2001, the International Human Genome Sequencing Consortium reported a draft sequence of the euchromatic portion of the human genome. Since then, the international collaboration has worked to convert this draft into a genome sequence with high accuracy and nearly complete coverage. Here, we report the result of this finishing process. The current genome sequence (Build 35) contains 2.85 billion nucleotides interrupted by only 341 gaps. It covers ∼99% of the euchromatic genome and is accurate to an error rate of ∼1 event per 100,000 bases. Many of the remaining euchromatic gaps are associated with segmental duplications and will require focused work with new methods. The near-complete sequence, the first for a vertebrate, greatly improves the precision of biological analyses of the human genome including studies of gene number, birth and death. Notably, the human enome seems to encode only 20,000-25,000 protein-coding genes. The genome sequence reported here should serve as a firm foundation for biomedical research in the decades ahead

Knee arthroscopy and driving. Results of a prospective questionnaire survey and review of the literature.

Orthopaedic surgeons routinely advise patients when to drive after surgical procedures. There are however very few guidelines concerning the return to driving after an orthopaedic operation. We performed a literature search and found very limited studies or research regarding this topic and in particular following arthroscopic surgery. We subsequently conducted a prospective questionnaire survey from one hundred knee arthroscopy patients attending outpatient follow-up clinics. Results showed the advice given to patients was delivered by doctors of differing levels of experience, but interestingly the majority of patients did not know the grade of doctor they were being consented by. Our study has highlighted that the advice given to patients was inconsistent. Patients returned to driving over a variety of time frames from one day to greater than three weeks. No adverse events were reported but 14% chose not to answer this question. We have illustrated the need for thorough consenting, further research in this area, and the development of universal guidelines surrounding the return to driving after surgery

Abnormal expression of pan-ras, c-myc and tp53 in squamous cell carcinoma of cervix: Correlation with HPV and prognosis

The aim of this study is to assess, in squamous cell carcinoma of the cervix, the expression of pan-ras, c-myc and tp53 at protein level using an immunohistochemical (IHC) staining method. One hundred and seven patients with squamous cell carcinoma of the cervix were recruited. Fifty-four patients were of stage 1B/2A and 53 were of stage 2B and above. Positive IHC stainings of pan-ras, c-myc and tp53 proteins were detected in 80.4%, 32.7% and 25.2% of cases, respectively. No significant correlation between over-expression of pan-ras and c-myc was detected. However, significantly higher percentages of overexpression of c-myc was found in association with overly expressed tp53 samples (p=0.014). Human papillomavirus (HPV) was detected in 77.6% of cancers. HPV 16/18 was detected in 72% of cancers. Overexpression of pan-ras and c-myc had no correlation with HPV detection and stage. However, higher percentages of overexpression of tp53 were found in early stage disease (p=0.017) and in HPV 16/18 positive tumors (p=0.006). Overexpression of pan-ras, c-myc and tp53 alone or in more than one oncogenes had no prognostic significance on survival.link_to_subscribed_fulltex

A High-Throughput, Precipitating Colorimetric Sandwich ELISA Microarray for Shiga Toxins

Shiga toxins 1 and 2 (Stx1 and Stx2) from Shiga toxin-producing E. coli (STEC) bacteria were simultaneously detected with a newly developed, high-throughput antibody microarray platform. The proteinaceous toxins were immobilized and sandwiched between biorecognition elements (monoclonal antibodies) and pooled horseradish peroxidase (HRP)-conjugated monoclonal antibodies. Following the reaction of HRP with the precipitating chromogenic substrate (metal enhanced 3,3-diaminobenzidine tetrahydrochloride or DAB), the formation of a colored product was quantitatively measured with an inexpensive flatbed page scanner. The colorimetric ELISA microarray was demonstrated to detect Stx1 and Stx2 at levels as low as ~4.5 ng/mL within ~2 h of total assay time with a narrow linear dynamic range of ~1–2 orders of magnitude and saturation levels well above background. Stx1 and/or Stx2 produced by various strains of STEC were also detected following the treatment of cultured cells with mitomycin C (a toxin-inducing antibiotic) and/or B-PER (a cell-disrupting, protein extraction reagent). Semi-quantitative detection of Shiga toxins was demonstrated to be sporadic among various STEC strains following incubation with mitomycin C; however, further reaction with B-PER generally resulted in the detection of or increased detection of Stx1, relative to Stx2, produced by STECs inoculated into either axenic broth culture or culture broth containing ground beef

Metallicities of Classical Cepheids in the Inner Galactic Disk

Metallicity gradients refer to the sloped radial profiles of the metallicities of gas and stars and are commonly seen in disk galaxies. A well-defined metallicity gradient of the Galactic disk is observed particularly well with classical Cepheids, which are good stellar tracers thanks to their period–luminosity relation, allowing precise distance estimation and other advantages. However, the measurement of the inner-disk gradient has been impeded by the incompleteness of previous samples of Cepheids and the limitations of optical spectroscopy in observing highly reddened objects. Here we report the metallicities of 16 Cepheids measured with high-resolution spectra in the near-infrared YJ bands. These Cepheids are located at 3–5.6 kpc in Galactocentric distance, R _GC , and reveal the metallicity gradient in this range for the first time. Their metallicities are mostly between 0.1 and 0.3 dex in [Fe/H] and more or less follow the extrapolation of the metallicity gradient found in the outer part, R _GC > 6.5 kpc. The gradient in the inner disk may be shallower or even flat, but the small sample does not allow the determination of the slope precisely. More extensive spectroscopic observations would also be necessary for studying minor populations, if any, with higher or lower metallicities that were reported in previous literature. In addition, the 3D velocities of our inner-disk Cepheids show a kinematic pattern that indicates noncircular orbits caused by the Galactic bar, which is consistent with the patterns reported in recent studies on high-mass star-forming regions and red giant branch stars

This Is Fine: #Resistjam And The 2016 Election In Gaming

The 2016 US election1 brought with it a torrent of related media and responses, thanks to the combination of the intense political divide and the turmoil and upheaval of the nation following the surprising results. We will examine selected games from the months preceding and immediately following the historic outcome of November 8, 2016, focusing on the games created during the March event #ResistJam which called for contributors to create games that resist oppressive authoritarianism in all its forms. Joshua and Karen Tanenbaum proposed a theory of transformative play, which supports a process of empathic identification with a new point-of-view or lived experience [59]. Pre- and Post-Trump games, situated in the months leading up to and immediately following the election results, demonstrate not only transformative play but cathartic play, or the use of games as part of a process of emotional release and expression as part of sharing current struggles and challenges. We propose that combining these two types of play (transformative and cathartic) suggests new possibilities for how we understand personal games as providing new mechanisms for shared emotional experiences