bluuebunny/crossref_metadata_2025_split huggingface dataset:
Use of a scoring strategy to determine clinical risk of progression and risk group-specific treatment adherence in subjects with latent tuberculosis infection
Authors: Scolarici Michael , Dekitani Ken , Chen Ling , Sokol-Anderson Marcia , Hoft Daniel F , Chatterjee Soumya 
Published: October 2017

ABSTRACTBackgroundAnnual incidence of active tuberculosis (TB) cases has plateaued in the US from 2013-2015. Most cases are from reactivation of latent tuberculosis infection (LTBI). A likely contributor is suboptimal LTBI treatment completion rates in subjects at high risk of developing active TB. It is unknown whether these patients are adequately identified and treated under current standard of care.MethodsIn this study, we sought to retrospectively assess the utility of an online risk calculator (tstin3d.com) in determining probability of LTBI and defining the characteristics and treatment outcomes of Low: 0-<10%, Intermediate: 10-<50% and High: 50-100% risk groups of asymptomatic subjects with LTBI seen between 2010-2015.Results51(41%), 46 (37%) and 28 (22%) subjects were in Low, Intermediate and High risk groups respectively. Tstin3d.com was useful in determining the probability of LTBI in tuberculin skin test positive US born subjects. Of 114 subjects with available treatment information, overall completion rate was 61% and rates of completion in Low (60%), Intermediate (63%) and High (57%) risk groups were equivalent. 75% subjects in the 3HP group completed treatment compared to 58% in the INH group. Provider documentation of important clinical risk factors was often incomplete. Logistic regression analysis showed no clear trends of treatment completion being associated with assessment of a risk factor.ConclusionThese findings suggest tstin3d.com could be utilized in the US setting for risk stratification of patients with LTBI and select treatment based on risk. Current standard of care practice leads to subjects in all groups finishing treatment at equivalent rates.
A fine-tuned vector-parasite dialogue in tsetse’s cardia determines peritrophic matrix integrity and trypanosome transmission success
Authors: Vigneron Aurélien , Aksoy Emre , Weiss Brian L , Bing Xiaoli , Zhao Xin , Awuoche Erick O , O’Neill Michelle , Wu Yineng , Attardo Geoffrey M , Aksoy Serap 
Published: October 2017

AbstractArthropod vectors have multiple physical and immunological barriers that impede the development and transmission of parasites to new vertebrate hosts. These barriers include the peritrophic matrix (PM), a chitinous barrier that separates the blood bolus from the midgut epithelia and inturn, modulates vector-microbiota interactions. In tsetse flies, a sleeve-like PM is continuously produced by the cardia organ located at the fore- and midgut junction. African trypanosomes, Trypanosoma brucei, must bypass the PM twice; first to colonize the midgut and secondly to reach the salivary glands (SG), to complete their transmission cycle in tsetse. However, not all flies with midgut infections develop mammalian transmissible SG infections - the reasons for which are unclear. Here, we used transcriptomics, microscopy and functional genomics analyses to understand the factors that regulate parasite migration from midgut to SG. In flies with midgut infections only, parasites fail to cross the PM as they are eliminated from the cardia by reactive oxygen intermediates (ROIs) - albeit at the expense of collateral cytotoxic damage to the cardia. In flies with midgut and SG infections, expression of genes encoding components of the PM is reduced in the cardia, and structural integrity of the PM barrier is compromised. Under these circumstances trypanosomes traverse through the newly secreted and compromised PM. The process of PM attrition that enables the parasites to re-enter into the midgut lumen is apparently mediated by components of the parasites residing in the cardia. Thus, a fine-tuned dialogue between tsetse and trypanosomes at the cardia determines the outcome of PM integrity and trypanosome transmission success.Author summaryInsects are responsible for transmission of parasites that cause deadly diseases in humans and animals. Understanding the key factors that enhance or interfere with parasite transmission processes can result in new control strategies. Here, we report that a proportion of tsetse flies with African trypanosome infections in their midgut can prevent parasites from migrating to the salivary glands, albeit at the expense of collateral damage. In a subset of flies with gut infections, the parasites manipulate the integrity of a midgut barrier, called the peritrophic matrix, and reach the salivary glands for transmission to the next mammal. Either targeting parasite manipulative processes or enhancing peritrophic matrix integrity could reduce parasite transmission.
How emotional memory affects face remembering: an ERP investigation
Authors: Proverbio Alice Mado , Vanutelli Maria Elide , Viganò Simone 
Published: October 2017

AbstractIt is known that the longer an information has been memorized, the stronger is its memory trace. At the same time it is known that the emotionally-valenced information has a stronger memory trace than neutral one. Interactive effects between these factors are largely unknown. In this study electrical neuroimaging signals were recorded in healthy controls to explore the neural mechanism of memory for faces of different emotional valence, sex, learning context and temporal recency. In a study phase participants familiarized with the fictional police dossier of 10 victims of dramatic deaths including homicide or earthquake (depicted as attractive and nice persons of about 45 years), twice a day for seven days before EEG recordings. Hundreds of famous movie stars (overlearned), victims (recent) and new faces were presented in an old/new recognition task. ERP responses showed a modulation of anterior N2 and FN400 as a function of face familiarity (with no differences between overlearned and recent faces), while parietal late positivity was sensitive to engram temporal recency (it was much larger to overlearned than recent faces, paralleling behavioral data). However, LP amplitude did not differ to overlearned vs. recent same-sex faces, showing how emotional memory can enhance faces remembering. A late frontal negativity revealed sensitive to source memory.
Heritability of regional brain volumes in large-scale neuroimaging and genetic studies
Authors: Zhao Bingxin , Ibrahim Joseph G. , Li Yun , Li Tengfei , Wang Yue , Shan Yue , Zhu Ziliang , Zhou Fan , Zhang Jingwen , Huang Chao , Liao Huiling , Yang Liuqing , Thompson Paul M. , Zhu Hongtu ,   Pediatric Imaging, Neurocognition and Genetics (PING), McCabe Connor , Chang Linda , Akshoomoff Natacha , Newman Erik , Ernst Thomas , Van Zijl Peter , Kuperman Joshua , Murray Sarah , Bloss Cinnamon , Appelbaum Mark , Gamst Anthony , Thompson Wesley , Bartsch Hauke ,   Alzheimer’s Disease Neuroimaging Initiative (ADNI), Weiner Michael , Aisen Paul , Petersen Ronald , Jack Clifford R. , Jagust William , Trojanowki John Q. , Toga Arthur W. , Beckett Laurel , Green Robert C. , Saykin Andrew J. , Morris John , Shaw Leslie M. , Khachaturian Zaven , Sorensen Greg , Carrillo Maria , Kuller Lew , Raichle Marc , Paul Steven , Davies Peter , Fillit Howard , Hefti Franz , Holtzman Davie , Mesulman M. Marcel , Potter William , Snyder Peter J. , Schwartz Adam , Montine Tom , Thomas Ronald G. , Donohue Michael , Walter Sarah , Gessert Devon , Sather Tamie , Jiminez Gus , Harvey Danielle , Bernstein Matthew , Fox Nick , Thompson Paul , Schuff Norbert , DeCarli Charles , Borowski Bret , Gunter Jeff , Senjem Matt , Vemuri Prashanthi , Jones David , Kantarci Kejal , Ward Chad , Koeppe Robert A. , Foster Norm , Reiman Eric M. , Chen Kewei , Mathis Chet , Landau Susan , Cairns Nigel J. , Householder Erin , Taylor-Reinwald Lisa , Lee Virginia M.Y. , Korecka Magdalena , Figurski Michal , Crawford Karen , Neu Scott , Foroud Tatiana M. , Potkin Steven , Shen Li , Faber Kelley , Kim Sungeun , Nho Kwangsik , Thal Leon , Frank Richard , Buckholtz Neil , Albert Marilyn , Hsiao John 
Published: October 2017

AbstractBrain genetics is an active research area. The degree to which genetic variants impact variations in brain structure and function remains largely unknown. We examined the heritability of regional brain volumes (p ~ 100) captured by single-nucleotide polymorphisms (SNPs) in UK Biobank (n ~ 9000). We found that regional brain volumes are highly heritable in this study population. We observed omni-genic impact across the genome as well as enrichment of SNPs in active chromatin regions. Principal components derived from regional volume data are also highly heritable, but the amount of variance in brain volume explained by the component did not seem to be related to its heritability. Heritability estimates vary substantially across large-scale functional networks and brain regions. The variation in heritability across regions was not related to measurement reliability. Heritability estimates exhibit a symmetric pattern across left and right hemispheres and are consistent in females and males. Our main findings in UK Biobank are consistent with those in Alzheimers Disease Neuroimaging Initiative (n ~ 1100), Philadelphia Neurodevelopmental Cohort (n ~ 600), and Pediatric Imaging, Neurocognition, and Genetics (n ~ 500) datasets, with more stable estimates in UK Biobank.
Invariances in a combinatorial olfactory receptor code
Authors: Si Guangwei , Kanwal Jessleen K. , Hu Yu , Tabone Christopher J. , Baron Jacob , Berck Matthew , Vignoud Gaetan , Samuel Aravinthan D.T. 
Published: October 2017

AbstractAnimals can identify an odorant type across a wide range of concentrations, as well as detect changes in concentration for individual odorant type. How olfactory representations are structured to support these functions remains poorly understood. Here, we studied how a full complement of ORNs in the Drosophila larva encodes a broad input space of odorant types and concentrations. We find that dose-response relationships across odorants and ORN types follow the Hill function with shared cooperativity but different activation thresholds. These activation thresholds are drawn from a power law statistical distribution. A fixed activation function and power law distribution of activation thresholds underlie invariances in the encoding of odorant identity and intensity. Moreover, we find similar temporal response filters of ORNs across odorant types and concentrations. Such uniformity in the temporal filter may allow identity invariant coding in fluctuating or turbulent odor environments. Common patterns in ligand-receptor binding and sensory transduction across olfactory receptors may give rise to these observed invariances in the olfactory combinatorial code. Invariant patterns in the activity responses of individual ORNs and the ORN ensemble may simplify decoding by downstream circuits.
Decomposing parietal memory reactivation to predict consequences of remembering
Authors: Lee Hongmi , Samide Rosalie , Richter Franziska R. , Kuhl Brice A. 
Published: October 2017

ABSTRACTMemory retrieval can strengthen, but also distort memories. Parietal cortex is a candidate region involved in retrieval-induced memory changes as it reflects retrieval success and represents retrieved content. Here, we conducted an fMRI experiment to test whether different forms of parietal reactivation predict distinct consequences of retrieval. Subjects studied associations between words and pictures of faces, scenes, or objects, and then repeatedly retrieved half of the pictures, reporting the vividness of the retrieved pictures (‘retrieval practice’). On the following day, subjects completed a recognition memory test for individual pictures. Critically, the test included lures highly similar to studied pictures. Behaviorally, retrieval practice increased both hit and false alarm rates to similar lures, confirming a causal influence of retrieval on subsequent memory. Using pattern similarity analyses, we measured two different levels of reactivation during retrieval practice: generic ‘category-level’ reactivation and idiosyncratic ‘item-level’ reactivation. Vivid remembering during retrieval practice was associated with stronger category- and item-level reactivation in parietal cortex. However, these measures differentially predicted subsequent recognition memory performance: whereas higher category-level reactivation tended to predict false alarms to lures, item-level reactivation predicted correct rejections. These findings indicate that parietal reactivation can be decomposed to tease apart distinct consequences of memory retrieval.
Dynamic and Selective Low-Complexity Domain Interactions Revealed by Live-Cell Single-Molecule Imaging
Authors: Chong Shasha , Dugast-Darzacq Claire , Liu Zhe , Dong Peng , Dailey Gina M. , Cattoglio Claudia , Banala Sambashiva , Lavis Luke , Darzacq Xavier , Tjian Robert 
Published: October 2017

AbstractMany eukaryotic transcription factors (TFs) contain intrinsically disordered low-complexity domains (LCDs) but how they perform transactivation functions remains unclear. Recent studies report that TF-LCDs can undergo hydrogel formation or liquid-liquid phase separation in vitro. Here, live-cell single-molecule imaging reveals that TF-LCDs form local high concentration interaction hubs at synthetic and endogenous genomic loci. TF-LCD hubs stabilize DNA binding, recruit RNA polymerase II (Pol II) and activate transcription. LCD-LCD interactions within hubs are highly dynamic, display selectivity with binding partners, and are differentially sensitive to disruption by hexanediols. These findings suggest that under physiological conditions, rapid reversible and multivalent LCD-LCD interactions occur between TFs and the Pol II machinery, which underpins a central mechanism for transactivation and plays a key role in gene expression and disease.
White matter haemodynamics: basic physiology and disruption in neuroinflammatory disease
Authors: Kolbe Scott. C. , Gajamange Sanuji. I. , Cleary Jon. O.S.H. , Kilpatrick Trevor. J. 
Published: October 2017

AbstractThe white matter is highly vascularised by the cerebral venous system. The neuroinflammatory disease multiple sclerosis is associated with infiltration of peripheral immune cells into the brain via these vessels. Understanding venous pathophysiology in multiple sclerosis is thus critical for understanding early disease aetiology. In this paper, we describe a unique blood oxygen-level dependent (BOLD) signal within the white matter using functional MRI and spatial independent components analysis, a blind signal source separation method. The signal was characterised by a narrow peak frequency band between 0.05 and 0.1 Hz. Hypercapnia (transient breath holds), known to alter venous calibre in cortex, induced transient increases in white matter BOLD that disrupted the oscillation indicative of a vasodilatory/contractile mechanism. Comparison of the white matter BOLD oscillations between age and sex matched groups of 18 multiple sclerosis and 14 healthy participants revealed a loss of power in the white matter BOLD signal in the peak frequency band (patients = 6.70±0.94 dB/Hz vs controls = 7.64±0.71 dB/Hz; p=0.006). In multiple sclerosis patients, lower power was associated with greater levels of neuroinflammatory activity (R=−0.64, p=0.006) but not neurodegenerative disease markers. Using a signal modelling technique, we assessed the anatomical distribution of white matter BOLD signal abnormalities and detected reduced power in the periventricular white matter, a region of known venous damage in multiple sclerosis patients. These results demonstrate a novel link between neuroinflammation and vascular physiological dysfunction in the cerebral white matter, and could indicate enduring loss of vascular compliance associated with imperfect repair of blood-brain barrier damage after resolution of acute neuroinflammation.
Discovering lncRNA Mediated Sponge Interactions in Breast Cancer Molecular Subtypes
Authors: Olgun Gulden , Sahin Ozgur , Tastan Oznur 
Published: October 2017

AbstractMotivationLong non-coding RNAs(lncRNAs) can indirectly regulate mRNAs expression levels by sequestering microRNAs (miRNAs), and act as competing endogenous RNAs (ceRNAs) or as sponges. Previous studies identified lncRNA-mediated sponge interactions in various cancers including the breast cancer. However, breast cancer subtypes are quite distinct in terms of their molecular profiles; therefore, ceRNAs are expected to be subtype-specific as well.ResultsTo find lncRNA-mediated ceRNA interactions in breast cancer subtypes, we develop an integrative approach. We conduct partial correlation analysis and kernel independence tests on patient gene expression profiles and further refine the candidate interactions with miRNA target information. We find that although there are sponges common to multiple subtypes, there are also distinct subtype-specific interactions. Functional enrichment of mRNAs that participate in these interactions highlights distinct biological processes for different subtypes. Interestingly, some of the ceRNAs also reside in close proximity in the genome; for example, those involving HOX genes, HOTAIR, miR-196a-1 and miR-196a-2. We also discover subtype-specific sponge interactions with high prognostic potential. For instance, when grouping is based on the expression patterns of specific sponge interactions, patients differ significantly in their survival distributions. If on the other hand, patients are grouped based on the individual RNA expression profiles of the sponge participants, they do not exhibit a significant difference in survival. These results can help shed light on subtype-specific mechanisms of breast cancer, and the methodology developed herein can help uncover sponges in other diseases.
Massive Phenotypic Measurements Reveal Complex Physiological Consequences of Differential Translation Efficacies
Authors: Arkin Adam Paul , Cambray Guillaume 
Published: October 2017

ABSTRACTControl of protein biosynthesis is at the heart of resource allocation and cell adaptation to fluctuating environments. One gene’s translation often occurs at the expense of another’s, resulting in global energetic and fitness trade-offs during differential expression of various functions. Patterns of ribosome utilization—as controlled by initiation, elongation and release rates—are central to this balance. To disentangle their respective determinants and physiological impacts, we complemented measurements of protein production with highly parallelized quantifications of transcripts’ abundance and decay, ribosome loading and cellular growth rate for 244,000 precisely designed sequence variants of an otherwise standard reporter. We find highly constrained, non-monotonic relationships between measured phenotypes. We show that fitness defects derive either from protein overproduction, with efficient translation initiation and heavy ribosome flows; or from unproductive ribosome sequestration by highly structured, slowly initiated and overly stabilized transcripts. These observations demonstrate physiological impacts of key sequence features in natural and designed transcripts.
Qualitative exploration of psychotropic medication to manage challenging behaviour in adults with intellectual disability: views of family members
Authors: Edwards Nicole , King Julie , Watling Hanna , Hair Sara Amy 
Published: October 2017

PurposeThe purpose of this paper is to produce the views of parents and siblings of adults with intellectual or developmental disability (ID/DD) around the use of psychotropic medication to manage challenging behaviour (CB) where there is no co-existing mental illness.Design/methodology/approachSeven family members of six adults with ID/DD were interviewed using semi-structured interviews, over the telephone or face-to-face. The interviews were transcribed, coded and thematically analysed.FindingsThis paper identified that if used appropriately, psychotropic medication to manage CB may be of benefit to some people with ID/DD; but there is a need to ensure the medication is prescribed for the benefits of people with ID/DD rather than those around them. Drawing on the knowledge of family may allow for the use of alternative strategies and the reduction of medication to manage CB. There is the need for improved communication with family members, inclusive decision making, and access to information regarding the philosophy and legislation regarding medication used to manage CB in adults with ID/DD.Originality/valueThis paper presents views of a small cohort of family members of people with ID/DD in Queensland, Australia. Findings can be used to improve approaches taken by service providers in their interactions with people with ID/DD prescribed psychotropic medication to manage CB, and their family members.
Using Photovoice as a method to engage bereaved adults with intellectual disabilities in research: listening, learning and developing good practice principles
Authors: Tajuria Gulshan , Read Sue , Priest Helena M. 
Published: October 2017

Purpose
People with intellectual disabilities experiencing loss or bereavement are at risk of developing additional mental health problems, and may struggle to access suitable support. The purpose of this paper is to present the adaptations done while using Photovoice as a creative method for bereaved people with intellectual disabilities participating in a research exploring loss and support. This paper will further briefly add information on how the use of Photovoice supported the development of whole research project.

Design/methodology/approach
This paper explores the use of Photovoice as a method of research engagement for bereaved adults with intellectual disabilities. Photovoice enables participants to take and discuss photographs illustrating their loss and support experiences. The paper focusses on a preparatory Photovoice workshop with the research participants, outlining the processes and activities used to maximise involvement, promote learning and achieve shared understanding.

Findings
Preparation was the key to the effectiveness of this workshop and it recommends that appropriate adaptions are useful in Photovoice with adults with intellectual disabilities effectively. The paper outlines principles of good practice for using Photovoice in this research context, which may transfer to other similar research settings. Using Photovoice facilitated later one-to-one interviews with the participants, where their photographs were discussed together.

Originality/value
This paper illustrates the innovative use of Photovoice methodology in research involving bereaved people with intellectual disabilities. Photovoice has not previously been used with this specific population within the bereavement and loss context, so this paper adds to the developing evidence base.