bluuebunny/crossref_metadata_2025_split huggingface dataset:
Lower Pole Mastopexy-Augmentation: Indications and Applications
Authors: Pacifico Marc D 
Published: February 2020

Abstract

Background
Breast augmentation in primary or secondary patients with long lower pole lengths but appropriately sited nipples is at high risk of “bottoming out” following surgery. The lower pole mastopexy-augmentation (LPMA) was developed to correct long lower pole lengths or preempt bottoming out in breasts deemed at risk, avoiding the requirement for periareolar and vertical breast scar as well as minimizing the requirement for the utilization of synthetic mesh.

Objectives
The goal of this short report was to analyze outcomes in patients who underwent the LPMA to determine its application and limitations.

Methods
The author reviewed 12 consecutive cases of both primary and secondary situations over a 6-year period. Cases were objectively assessed according to the relationship of the nipple to the point of maximal breast projection on lateral view as well as the upper to lower pole breast proportions.

Results
All cases provided good outcomes, with improvements in both the position of the nipple in relation to the point of maximal breast projection and with respect to the upper to lower pole breast ratios.

Conclusion
LPMA is a useful addition to the armamentarium in dealing with complex situations in breast augmentation.

Level of Evidence: 4
scBatch: batch-effect correction of RNA-seq data through sample distance matrix adjustment
Authors: Fei Teng , Yu Tianwei 
Published: February 2020

AbstractMotivationBatch effect is a frequent challenge in deep sequencing data analysis that can lead to misleading conclusions. Existing methods do not correct batch effects satisfactorily, especially with single-cell RNA sequencing (RNA-seq) data.ResultsWe present scBatch, a numerical algorithm for batch-effect correction on bulk and single-cell RNA-seq data with emphasis on improving both clustering and gene differential expression analysis. scBatch is not restricted by assumptions on the mechanism of batch-effect generation. As shown in simulations and real data analyses, scBatch outperforms benchmark batch-effect correction methods.Availability and implementationThe R package is available at github.com/tengfei-emory/scBatch. The code to generate results and figures in this article is available at github.com/tengfei-emory/scBatch-paper-scripts.Supplementary informationSupplementary data are available at Bioinformatics online.
Indigeneity, Prisoner Visitation and Reincarceration in Australia: The Association Between Visits in Prison and Reincarceration for Indigenous and Non-Indigenous People
Authors: Ryan Nicole , Ackerman Jeff , Ready Justin , Kinner Stuart A 
Published: February 2020

Abstract
Prison visitation is believed to protect against reincarceration post-release. This research explored differences in prisoner visitation between Indigenous and non-Indigenous people, the predictors of visitation and the effects of visitation on the risk of reincarceration. Descriptive analyses, logistic regression and Cox proportional hazards models were conducted using survey and linked administrative data for 1,238 Australian prisoners. We found that Indigenous people compared to non-Indigenous people were less likely to be visited, and travel distance decreased the likelihood of visitation for both groups. Moreover, visitation protected against reincarceration for non-Indigenous people only. Potential explanations for why visitation was not found to protect against reincarceration for Indigenous people are discussed as are potential implications for criminal justice systems that house Indigenous offenders.
Neuroanatomical spread of amyloid β and tau in Alzheimer’s disease: implications for primary prevention
Authors: Insel Philip S , Mormino Elizabeth C , Aisen Paul S , Thompson Wesley K , Donohue Michael C 
Published: February 2020

Abstract
With recent advances in our understanding of the continuous pathophysiological changes that begin many years prior to symptom onset, it is now apparent that Alzheimer’s disease cannot be adequately described by discrete clinical stages, but should also incorporate the continuum of biological changes that precede and underlie the clinical representation of the disease. By jointly considering longitudinal changes of all available biomarkers and clinical assessments, variation within individuals can be integrated into a single continuous measure of disease progression and used to identify the earliest pathophysiological changes. Disease time, a measure of disease severity, was estimated using a Bayesian latent time joint mixed-effects model applied to an array of imaging, biomarker and neuropsychological data. Trajectories of regional amyloid β and tau PET uptake were estimated as a function of disease time. Regions with early signs of elevated amyloid β uptake were used to form an early, focal composite and compared to a commonly used global composite, in a separate validation sample. Disease time was estimated in 279 participants (183 cognitively unimpaired individuals, 61 mild cognitive impairment and 35 Alzheimer’s disease dementia patients) with available amyloid β and tau PET data. Amyloid β PET uptake levels in the posterior cingulate and precuneus start high and immediately increase with small increases of disease time. Early elevation in tau PET uptake was found in the inferior temporal lobe, amygdala, banks of the superior temporal sulcus, entorhinal cortex, middle temporal lobe, inferior parietal lobe and the fusiform gyrus. In a separate validation sample of 188 cognitively unimpaired individuals, the early, focal amyloid β PET composite showed a 120% increase in the accumulation rate of amyloid β compared to the global composite (P &lt; 0.001), resulting in a 60% increase in the power to detect a treatment effect in a primary prevention trial design. Ordering participants on a continuous disease time scale facilitates the inspection of the earliest signs of amyloid β and tau pathology. To detect early changes in amyloid β pathology, focusing on the earliest sites of amyloid β accumulation results in more powerful and efficient study designs in early Alzheimer’s disease. Targeted composites could be used to re-examine the thresholds for amyloid β-related study inclusion, especially as the field shifts to focus on primary and secondary prevention. Clinical trials of anti-amyloid β treatments may benefit from the use of focal composites when estimating drug effects on amyloid β and tau changes in populations with minimal amyloid β and tau pathology and limited expected short-term accumulation.
Selective Integration during Sequential Sampling in Posterior Neural Signals
Authors: Luyckx Fabrice , Spitzer Bernhard , Blangero Annabelle , Tsetsos Konstantinos , Summerfield Christopher 
Published: February 2020

AbstractDecisions are typically made after integrating information about multiple attributes of alternatives in a choice set. Where observers are obliged to consider attributes in turn, a computational framework known as “selective integration” can capture salient biases in human choices. The model proposes that successive attributes compete for processing resources and integration is biased towards the alternative with the locally preferred attribute. Quantitative analysis shows that this model, although it discards choice-relevant information, is optimal when the observers’ decisions are corrupted by noise that occurs beyond the sensory stage. Here, we used electroencephalography (EEG) to test a neural prediction of the model: that locally preferred attributes should be encoded with higher gain in neural signals over the posterior cortex. Over two sessions, human observers judged which of the two simultaneous streams of bars had the higher (or lower) average height. The selective integration model fits the data better than a rival model without bias. Single-trial analysis showed that neural signals contralateral to the preferred attribute covaried more steeply with the decision information conferred by locally preferred attributes. These findings provide neural evidence in support of selective integration, complementing existing behavioral work.
Synaptic Recruitment Enhances Gap Termination Responses in Auditory Cortex
Authors: Awwad Bshara , Jankowski Maciej M , Nelken Israel 
Published: February 2020

AbstractThe ability to detect short gaps in noise is an important tool for assessing the temporal resolution in the auditory cortex. However, the mere existence of responses to temporal gaps bounded by two short broadband markers is surprising, because of the expected short-term suppression that is prevalent in auditory cortex. Here, we used in-vivo intracellular recordings in anesthetized rats to dissect the synaptic mechanisms that underlie gap-related responses. When a gap is bounded by two short markers, a gap termination response was evoked by the onset of the second marker with minimal contribution from the offset of the first marker. Importantly, we show that the gap termination response was driven by a different (potentially partially overlapping) synaptic population than that underlying the onset response to the first marker. This recruitment of additional synaptic resources is a novel mechanism contributing to the important perceptual task of gap detection.
Gray Matter Volume in Different Cortical Structures Dissociably Relates to Individual Differences in Capacity and Precision of Visual Working Memory
Authors: Machizawa Maro G , Driver Jon , Watanabe Takeo 
Published: February 2020

Abstract
Visual working memory (VWM) refers to our ability to selectively maintain visual information in a mental representation. While cognitive limits of VWM greatly influence a variety of mental operations, it remains controversial whether the quantity or quality of representations in mind constrains VWM. Here, we examined behavior-to-brain anatomical relations as well as brain activity to brain anatomy associations with a “neural” marker specific to the retention interval of VWM. Our results consistently indicated that individuals who maintained a larger number of items in VWM tended to have a larger gray matter (GM) volume in their left lateral occipital region. In contrast, individuals with a superior ability to retain with high precision tended to have a larger GM volume in their right parietal lobe. These results indicate that individual differences in quantity and quality of VWM may be associated with regional GM volumes in a dissociable manner, indicating willful integration of information in VWM may recruit separable cortical subsystems.
HPLC Method Validation for Jatropha dioica Extracts Analysis
Authors: Castro-Ríos Rocío , Melchor-Martínez Elda Madai , Solís-Cruz Guadalupe Yazmín , Rivas-Galindo Verónica Mayela , Silva-Mares David Arturo , Cavazos-Rocha Norma Cecilia 
Published: February 2020

Abstract
Jatropha dioica is a popular plant used in Mexican herbal medicine to treat several diseases. Cytotoxicity, antimicrobial and antiviral activities have been reported for root extracts, while riolozatrione, 6-epi-riolozatrione, citlalitrione and jatrophatrione, among others, have been identified as the principal components. In this work, an HPLC/DAD method for the analysis of riolozatrione and other major compounds in extracts of different polarities was validated. The analysis was carried out on an AccQ-Tag column with a water–acetonitrile mixture as mobile phase. Flow rate was 0.2 mL/min, and the separation was carried out in gradient mode with UV detection set at 254 nm. The resulting method showed good reproducibility in both retention times and peak areas of riolozatrione, 6-epi-riolozatrione, citlalitrione and jatrophatrione, with relative standard variations lower than 4.5 and 10.5% respectively. In addition, this method provides a good performance for riolozatrione quantitation, with recoveries between 102 and 108% and RSDs lower than 2.5%. The polarity of the extracting solvent did not affect the performance of the chromatographic method. The developed method was applied for the analysis and quantification of riolozatrione in extracts of Jatropha dioica collected in several seasonal stages and years (2014–2017).
Differences and Temporal Changes in Risk of Invasive Pneumococcal Disease in Adults with Hematological Malignancies: Results from a Nationwide 16-Year Cohort Study
Authors: Andersen Michael Asger , Niemann Carsten Utoft , Rostgaard Klaus , Dalby Tine , Sørrig Rasmus , Weinberger Daniel M , Hjalgrim Henrik , Harboe Zitta Barrella 
Published: February 2020

Abstract

Background
Patients with hematological malignancies (HM) are known to carry an increased risk of invasive pneumococcal disease (IPD). However, temporal variations in IPD risks following a cancer diagnosis remain poorly characterized. To inform vaccine guidelines and patient management, we assessed the IPD incidence among patients with HM and other malignancies.

Methods
The study population included all individuals aged ≥15 years during 2000–2016 in Denmark. Variations in incidences of IPD over time and between different types of hematological malignancies and diagnoses were assessed by Poisson regression.

Results
During 85 002 224 person-years of observation, 13 332 episodes of a first IPD were observed, of which 765 (5.7%) occurred among individuals with HM. Among HM patients, the IPD incidence rate decreased continuously during the study period (rate ratio per year, 0.91; 95% confidence interval, .90–.92). The risk of IPD in patients with HM was up to 39 times higher when compared to the background population and was highest for multiple myeloma, acute lymphoblastic leukemia, and chronic lymphocytic leukemia. Unlike other malignancies, the increased IPD risk did not wane with the time since HM diagnosis. We found a vaccination uptake of only ≤2% in patients with HM and ≤1% for those with other types of malignancies.

Conclusions
Adults with HM in general and patients with lymphoid malignancies in particular have an increased risk for IPD, compared with patients with other types of cancer and with individuals free of cancer. The pneumococcal vaccination uptake is extremely low in this at risk-population. Efforts to prevent IPD in HM patients are continuously warranted.
A 2-Biomarker Model Augments Clinical Prediction of Mortality in Melioidosis
Authors: Wright Shelton W , Kaewarpai Taniya , Lovelace-Macon Lara , Ducken Deirdre , Hantrakun Viriya , Rudd Kristina E , Teparrukkul Prapit , Phunpang Rungnapa , Ekchariyawat Peeraya , Dulsuk Adul , Moonmueangsan Boonhthanom , Morakot Chumpol , Thiansukhon Ekkachai , Limmathurotsakul Direk , Chantratita Narisara , West T Eoin 
Published: February 2020

AbstractBackgroundMelioidosis, infection caused by Burkholderia pseudomallei, is a common cause of sepsis with high associated mortality in Southeast Asia. Identification of patients at high likelihood of clinical deterioration is important for guiding decisions about resource allocation and management. We sought to develop a biomarker-based model for 28-day mortality prediction in melioidosis.MethodsIn a derivation set (N = 113) of prospectively enrolled, hospitalized Thai patients with melioidosis, we measured concentrations of interferon-γ, interleukin-1β, interleukin-6, interleukin-8, interleukin-10, tumor necrosis factor-ɑ, granulocyte-colony stimulating factor, and interleukin-17A. We used least absolute shrinkage and selection operator (LASSO) regression to identify a subset of predictive biomarkers and performed logistic regression and receiver operating characteristic curve analysis to evaluate biomarker-based prediction of 28-day mortality compared with clinical variables. We repeated select analyses in an internal validation set (N = 78) and in a prospectively enrolled external validation set (N = 161) of hospitalized adults with melioidosis.ResultsAll 8 cytokines were positively associated with 28-day mortality. Of these, interleukin-6 and interleukin-8 were selected by LASSO regression. A model consisting of interleukin-6, interleukin-8, and clinical variables significantly improved 28-day mortality prediction over a model of only clinical variables [AUC (95% confidence interval [CI]): 0.86 (.79–.92) vs 0.78 (.69–.87); P = .01]. In both the internal validation set (0.91 [0.84–0.97]) and the external validation set (0.81 [0.74–0.88]), the combined model including biomarkers significantly improved 28-day mortality prediction over a model limited to clinical variables.ConclusionsA 2-biomarker model augments clinical prediction of 28-day mortality in melioidosis.
Analytical Bias in a Quality Control Scheme
Authors: Allen John R , Earp Rachel , Farrell E Christis , Grümer H D 
Published: February 2020

Abstract
A quality control program utilizing both "known" and "blind" control specimens was analyzed in the routine clinical chemistry laboratory. The results obtained with the control samples of 18 automated and nonautomated procedures demonstrated the presence of analytical bias. Only through the evaluation of blind control samples tested at random times can a reliable measure of the proficiency of the laboratory be achieved.
A Bubble-gating Flow Cell for Continuous-flow Analysis
Authors: Habig R L , Schlein B W , Walters L , Thiers R E 
Published: February 2020

Abstract
A system is described which permits measurements, such as photometry, to be made on air-segmented streams, as in continuous-flow analysis. Elimination of the "debubbler" step before measurement provides two basic assets: (1) more rapid attainment of steady-state conditions (lower interaction between samples), and (2) maintenance of the integrity of the bubbled analysis stream, permitting subsequent handling and remeasurement. A device has been developed for detecting air bubbles. When placed across the light path of a photometer flow cell it inactivates the readout system when bubbles pass by. The resulting system measures the transmittance of each individual liquid segment of the analysis stream, while maintaining the integrity of the stream. Two examples of possible applications of this system are described. One is a simple total-protein determination with biuret, at three times the conventional sampling rate. The other is a continuous-flow, two-point, reaction-rate method for assay of alkaline phosphatase activity.
Tick-Borne Diseases in the United States
Authors: Rodino Kyle G , Theel Elitza S , Pritt Bobbi S 
Published: February 2020

Abstract

Background
Tick-borne diseases are an important cause of human morbidity and mortality in the United States. The past several decades have witnessed an increase in both the number of recognized tick-borne pathogens and the number of tick-borne disease cases, whereas tick surveys have revealed substantial geographic expansions of tick populations throughout the country. Multiple laboratory testing options exist for diagnosis of tick-borne diseases, including serology, microscopy, and molecular-based methods. The preferred approach varies by the specific disease, locally available test options, and the stage of illness at patient presentation. Accurate and timely detection of tick-borne illness is of utmost importance, as prompt treatment is strongly linked to better outcomes.

Content
This review covers the clinical manifestations and preferred diagnostic approaches for important bacterial, viral, and parasitic tick-borne diseases in the United States, including Lyme disease, tick-borne relapsing fever, anaplasmosis, ehrlichiosis, spotted fever rickettsioses, and babesiosis. Infection with emerging pathogens such as Borrelia miyamotoi, Powassan virus, Heartland virus, Colorado tick fever virus, and Bourbon virus are also covered.

Summary
Our understanding of tick-borne diseases in the United States continues to improve with the detection of novel pathogens and development of new diagnostic modalities. While conventional diagnostic methods, including serology and microscopy, will play an ongoing role in the diagnosis of tick-borne diseases, implementation of advanced molecular diagnostics will further broaden our understanding of these diseases by facilitating detection of emerging pathogens and providing more accurate and timely diagnosis.
Long-term prognostic value of stress myocardial perfusion echocardiography in patients with coronary artery disease: a meta-analysis
Authors: Qian Lijun , Xie Feng , Xu Di , Porter T R 
Published: February 2020

Abstract

Aims
To evaluate the prognostic value of myocardial perfusion (MP) imaging during contrast stress echocardiography (cSE) in patients with known or suspected coronary artery disease (CAD).

Methods and results
A search in PubMed, Embase databases, and the Cochrane library was conducted through May 2019. The Cochran Q statistic and the I2 statistic were used to assess heterogeneity, and the results were analysed by RevMan V5.3 and Stata V15.1 software. Twelve studies (seven dipyridamole and five exercise/dobutamine) without evidence of patient overlap (same institution publishing results over a similar time period) enrolling 5953 subjects (47% female, 8–80 months of follow-up) were included in the analysis. In all studies, total adverse cardiovascular events were defined as either cardiac death, non-fatal myocardial infarction (NFMI), or need for urgent revascularization. Hazard ratios (HRs) revealed that a MP abnormality [pooled HR 4.75; 95% confidence interval (CI) 2.47–9.14] was a higher independent predictor of total events than abnormal wall motion (WM, pooled HR 2.39; 95% CI 1.58–3.61) and resting left ventricular ejection fraction (LVEF, pooled HR 1.92; 95% CI 1.44–2.55) with significant subgroup differences (P = 0.002 compared with abnormal WM and 0.01 compared with abnormal LVEF). Abnormal MP was associated with higher risks for death [Risk ratio (RR) 5.24; 95% CI 2.91–9.43], NFMI (RR 3.09; 95% CI 1.84–5.21), and need for coronary revascularization (RR 16.44; 95% CI 6.14–43.99).

Conclusion
MP analysis during stress echocardiography is an effective prognostic tool in patients with known or suspected CAD and provides incremental value over LVEF and WM in predicting clinical outcomes.
Methanogenic response to long-term permafrost thaw is determined by paleoenvironment
Authors: Holm Stine , Walz Josefine , Horn Fabian , Yang Sizhong , Grigoriev Mikhail N , Wagner Dirk , Knoblauch Christian , Liebner Susanne 
Published: February 2020

ABSTRACTMethane production in thawing permafrost can be substantial, yet often evolves after long lag phases or is even lacking. A central question is to which extent the production of methane after permafrost thaw is determined by the initial methanogenic community. We quantified the production of methane relative to carbon dioxide (CO2) and enumerated methanogenic (mcrA) gene copies in long-term (2–7 years) anoxic incubations at 4 °C using interglacial and glacial permafrost samples of Holocene and Pleistocene, including Eemian, origin. Changes in archaeal community composition were determined by sequencing of the archaeal 16S rRNA gene. Long-term thaw stimulated methanogenesis where methanogens initially dominated the archaeal community. Deposits of interstadial and interglacial (Eemian) origin, formed under higher temperatures and precipitation, displayed the greatest response to thaw. At the end of the incubations, a substantial shift in methanogenic community composition and a relative increase in hydrogenotrophic methanogens had occurred except for Eemian deposits in which a high abundance of potential acetoclastic methanogens were present. This study shows that only anaerobic CO2 production but not methane production correlates significantly with carbon and nitrogen content and that the methanogenic response to permafrost thaw is mainly constrained by the paleoenvironmental conditions during soil formation.