bluuebunny/crossref_metadata_2025_split huggingface dataset:
Regulation of renal pendrin activity by aldosterone
Authors: Bourgeois Soline , Wagner Carsten A. 
Published: November 2020

Purpose of review
Pendrin resides on the luminal membrane of type B intercalated cells in the renal collecting tubule system mediating the absorption of chloride in exchange for bicarbonate. In mice or humans lacking pendrin, blood pressure is lower, and pendrin knockout mice are resistant to aldosterone-induced hypertension. Here we discuss recent findings on the regulation of pendrin.

Recent findings
Pendrin activity is stimulated during alkalosis partly mediated by secretin. Also, angiotensin II and aldosterone stimulate pendrin activity requiring the mineralocorticoid receptor in intercalated cells. Angiotensin II induces dephosphorylation of the mineralocorticoid receptor rendering the receptor susceptible for aldosterone binding. In the absence of the mineralocorticoid receptor in intercalated cells, angiotensin II does not stimulate pendrin. The effect of aldosterone on pendrin expression is in part mediated by the development of hypokalemic alkalosis and blunted by K+-supplements or amiloride. Part of the blood pressure-increasing effect of pendrin is also mediated by its stimulatory effect on the epithelial Na+-channel in neighbouring principal cells.

Summary
These findings identify pendrin as a critical regulator of renal salt handling and blood pressure along with acid--base balance. A regulatory network of hormones fine-tuning activity is emerging. Drugs blocking pendrin are being developed.
The quest for cardiovascular disease risk prediction models in patients with nondialysis chronic kidney disease
Authors: Streja Elani , Norris Keith C. , Budoff Matthew J. , Hashemi Leila , Akbilgic Oguz , Kalantar-Zadeh Kamyar 
Published: November 2020

Purpose of review
Cardiovascular disease (CVD) is the leading cause of death in patients with chronic kidney disease (CKD). However, traditional CVD risk prediction equations do not work well in patients with CKD, and inclusion of kidney disease metrics such as albuminuria and estimated glomerular filtration rate have a modest to no benefit in improving prediction.

Recent findings
As CKD progresses, the strength of traditional CVD risk factors in predicting clinical outcomes weakens. A pooled cohort equation used for CVD risk prediction is a useful tool for guiding clinicians on management of patients with CVD risk, but these equations do not calibrate well in patients with CKD, although a number of studies have developed modifications of the traditional equations to improve risk prediction. The reason for the poor calibration may be related to the fact that as CKD progresses, associations of traditional risk factors such as BMI, lipids and blood pressure with CVD outcomes are attenuated or reverse, and other risk factors may become more important.

Summary
Large national cohorts such as the US Veteran cohort with many patients with evolving CKD may be useful resources for the developing CVD prediction models; however, additional considerations are needed for the unique composition of patients receiving care in these healthcare systems, including those with multiple comorbidities, as well as mental health issues, homelessness, posttraumatic stress disorders, frailty, malnutrition and polypharmacy. Machine learning over conventional risk prediction models may be better suited to handle the complexity needed for these CVD prediction models.
Convergence Insufficiency Neuro-mechanism in Adult Population Study Randomized Clinical Trial: Clinical Outcome Results
Authors: Alvarez Tara L. , Scheiman Mitchell , Santos Elio M. , Yaramothu Chang , d'Antonio-Bertagnolli John Vito 
Published: November 2020

SIGNIFICANCE
These data confirm the effectiveness of office-based vergence/accommodative therapy for improving the near point of convergence and positive fusional vergence in young adults with symptomatic convergence insufficiency within a double-masked longitudinal randomized clinical trial.

PURPOSE
This study aimed to report changes in clinical signs and symptoms of convergence insufficiency from a randomized clinical trial evaluating the effectiveness of office-based vergence/accommodative therapy for young adults with symptomatic convergence insufficiency.

METHODS
In this double-masked, randomized clinical trial, convergence insufficiency patients (n = 50; average age, 21 ± 3 years; range, 18 to 32 years) were randomized to either office-based vergence/accommodative therapy or office-based placebo therapy. Improvements in (1) near point of convergence, (2) positive fusional vergence, and (3) self-reported symptoms (Convergence Insufficiency Symptom Survey [CISS] score) were evaluated after twelve 1-hour sessions of treatment within the office comparing the results from the vergence/accommodative therapy and the placebo therapy groups.

RESULTS
The mean near point of convergence improved by 6.0 and 3.1 cm in the vergence/accommodative and placebo therapy groups, respectively (mean difference of −2.9 cm; 95% confidence interval [CI], −4.6 to −1.0 cm; P < .01). The mean positive fusional vergence increased by 17.3 and 7.4Δ in the vergence/accommodative and placebo therapy groups, respectively (mean difference of 9.9Δ; 95% CI, 4.9 to 16.0Δ; P < .001). The mean CISS score improved by 12.4 and 10.1 points in the vergence/accommodative and placebo therapy groups, respectively (mean difference of 2.3 points; 95% CI, −8.3 to +4.6 points; P = .56).

CONCLUSIONS
Our results demonstrate that office-based vergence/accommodative therapy is effective for improving the near point of convergence and positive fusional vergence in young adults with symptomatic convergence insufficiency. However, given that both treatment groups had a similar reduction in self-reported symptoms, we recommend that the CISS be revised if it is to be used as an outcome measure in future studies of convergence insufficiency.
Quantification of Hepatic Fat Fraction in Patients With Nonalcoholic Fatty Liver Disease: Comparison of Multimaterial Decomposition Algorithm and Fat (Water)-Based Material Decomposition Algorithm Using Single-Source Dual-Energy Computed Tomography
Authors: Zhang Qinhe , Zhao Ying , Wu Jingjun , Xie Luhan , Chen Anliang , Liu Yijun , Song Qingwei , Li Jianying , Wu Tingfan , Xie Lizhi , Liu Ailian 
Published: November 2020

Objective
The purpose of this study was to evaluate the accuracy of quantifying hepatic fat fraction (HFF) in nonalcoholic fatty liver disease patients with multimaterial decomposition (MMD) and fat (water)-based material decomposition by single-source dual-energy computed tomography.

Methods
Hepatic fat fractions were quantified by noncontrast (HFFnon-CE) and contrast-enhanced single-source dual-energy computed tomography in arterial phase (HFFAP), portal venous phase (HFFPVP) and equilibrium phase (HFFEP) using MMD in 19 nonalcoholic fatty liver disease patients. The fat concentration was measured on fat (water)-based images. As the standard of reference, magnetic resonance iterative decomposition of water and fat with echo asymmetry and least-squares estimation-iron quantification images were reconstructed to obtain HFF (HFFIDEAL-IQ).

Results
There was a strong correlation between HFFnon-CE, HFFAP, HFFPVP, HFFEP, fat concentration and HFFIDEAL-IQ (r = 0.943, 0.923, 0.942, 0.952, and 0.726) with HFFs having better correlation with HFFIDEAL-IQ. Hepatic fat fractions did not significantly differ across scanning phases. The HFFs of 3-phase contrast-enhanced computed tomography had a good consistency with HFFnon-CE.

Conclusions
Hepatic fat fraction using MMD has excellent correlation with that of magnetic resonance imaging, is independent of the computed tomography scanning phases, and may be used as a routine technique for quantitative assessment of HFF.
Cross-sectional Imaging Manifestations of Extrapulmonary Involvement in COVID-19 Disease
Authors: Laya Bernard F. , Cledera Thurl Hugh C. , Lim Timothy Reynold U. , Baluyut Joseph Marce P. , Medina Josefina Marie P. , Pasia Nelson V. 
Published: November 2020

Abstract
Coronavirus disease 2019 (COVID-19) disease has spread worldwide since it was first discovered in China's Hubei province in December 2019. Respiratory illness is the primary manifestation of COVID-19 disease, and its pathophysiology as well as the clinical and cross-sectional imaging manifestations has been adequately reported. However, there is emerging evidence of its multisystemic nature, with associated extrapulmonary manifestations including gastrointestinal, cardiovascular, renal, and neurological findings. There is still limited understanding with regard to the extrapulmonary involvement in this disease. This review aims to put together the prevalence, proposed pathophysiology, and the spectrum of clinical and cross-sectional imaging manifestations of associated extrapulmonary findings in COVID-19 disease.
A Comparison of the Diagnostic Value of Positron Emission Tomography/Computed Tomography and Ultrasound for the Detection of Metastatic Axillary Nodal Disease in Treatment-Naive Breast Cancer
Authors: Le Viet T. , Wong Franklin C. , Bassett Roland L. , Whitman Gary J. 
Published: November 2020

Abstract
The objective of this study was to describe the diagnostic value of positron emission tomography/computed tomography (PET/CT) and ultrasound (US) for identifying metastatic axillary disease in primary breast cancer. This is a retrospective review of 240 patients with treatment-naive unilateral primary breast cancer of at least stage T2. Eighty-five patients met our inclusion criteria. Initial whole-body PET/CT and axillary US examinations were reviewed and compared with the criterion standard of fine-needle aspiration cytology. Sensitivity, accuracy, and positive predictive value (PPV) for each modality were computed. Because of all positive US cases, specificity and negative predictive value of US were not determined. Sensitivity and accuracy between modalities were compared using McNemar test. The majority of the patients were White women with clinical inflammatory breast cancer and with histologically invasive ductal carcinoma. The most common tumor and nodal stage was T4N3. The tumors were predominantly estrogen receptor positive, progesterone receptor negative, and human epidermal growth factor receptor 2 negative. The sensitivities of PET/CT and US were 96.2% and 100%, respectively. The accuracies for PET/CT and US were 91.8% and 94.1%, respectively. The PPV for PET/CT was 95.1%, and for US, the PPV was 94.1%. No significant difference in sensitivity or accuracy was shown between PET/CT and US for the diagnosis of metastatic axillary nodal disease. Three of 85 cases showed discordance between negative PET/CT and positive US and fine-needle aspiration cytology.
Intense Soft Tissue Calcification of the Head and Neck Following Tracheostomy
Authors: Gozgec Elif , Ogul Hayri 
Published: November 2020

Abstract
Dystrophic calcification is the accumulation of calcium salts, especially calcium phosphate, which can occur anywhere in the body. Unlike other heterotopic calcifications, it occurs in damaged tissue when there is no calcium imbalance. The most common sites are the heart muscle and valve and it is rarely seen in the head and neck region. It can appear by any cause of soft tissue degeneration such as trauma, infection, inflammation, and neoplasia. It is not symptomatic unless a dystrophic calcification mass is present and is usually detected incidentally. Determination of the etiology plays an important role in the planning of the treatment so that the patient's history, laboratory findings, and imaging methods are very important.
The Oculocardiac Reflex: Its Evolution and Management
Authors: Yoo Jason J. , Gishen Kriya E. , Thaller Seth R. 
Published: November 2020

Introduction:
The oculocardiac reflex is initiated by a pressure stimulus to the orbit or periorbital structures causing in bradycardia transmitted via the trigeminal-vagus nerve reflex arc. While this most frequently occurs with ophthalmologic surgeries, trauma to the orbit and periorbital structures can result in bradycardia and even in some cases, asystole. The aim of this case report and review of the literature is to identify and examine recent studies of the oculocardiac reflex related to facial trauma and to identify associated patient age, symptoms, and fracture patterns.

Methods:
A literature search was performed using the database within PubMed.gov using the term “oculocardiac.” Results were reviewed for case reports or series related to facial trauma from the year 2000 to 2019. Studies were then evaluated for fracture pattern, presence of entrapment, patient symptoms, and age.

Results:
The initial search resulted in 109 articles. A total of 22 articles were case reports or series of trauma patients. Twenty articles met inclusion criteria. Median age was 22 years. Eleven patients sustained orbital floor fractures. Four patients sustained medial wall fractures. Three patients had concomitant orbital floor and zygomatic fractures, and 4 with concomitant orbital floor and medial wall fractures. The most common extracardiac symptom experienced was nausea and vomiting (15/23) followed by diplopia (10/23). Status of entrapment was available in 20 patients of which entrapment was reported in fourteen (14/20).

Clinical Report:
A 26-year old male presents after blunt trauma to the face resulting in a left orbital floor, rim, and maxillary fractures. Extraocular movements were initially intact and the patient had no diplopia. He developed bradycardia to 30 to 40 bpm just prior to induction of anesthesia. He was found to have developed entrapment of the inferior rectus muscle. The orbital floor and rim were repaired with complete resolution of bradycardia.

Conclusion:
Patients who sustain maxillofacial trauma involving the orbit are at risk of developing the oculocardiac reflex. Patients tend to be younger. The orbital floor is more commonly the site of traumatic injury. Nausea and vomiting are common encountered symptoms. The oculocardiac reflex, clinicians must recognize, is not static but may evolve over a patient's clinical course as seen in our patient.
Early Hypoglobus in Orbital Floor Reconstruction With Resorbable Implants
Authors: Kim Eung Hyun , Lee Soo Hyang 
Published: November 2020

Background:
Among the variety of materials developed for facial bone surgery, resorbable implants are widely used in orbital wall reconstruction. There are many advantages in selecting resorbable implants, such as minimal foreign body reaction and adjustability within the damaged orbital floor. Resorbable implants are supposed to remain in place over 1 to 2 years to hold the structure of immature healing tissue surrounding the bony defects. However, some patients who have undergone orbital wall reconstruction surgery with resorbable implants suffer from early hypoglobus.

Methods:
This retrospective study was performed from January 2014 to August 2019 and follows 39 patients with unilateral pure orbital floor fractures. All orbital floor reconstruction was performed using resorbable implants via the transconjunctival approach. Exophthalmometer measurements and CT scans showing the degree of implant sagging were used to provide an index of hypoglobus.

Results:
Most patients showed hypoglobus over 3 to 4 months follow-up. The size of bony defect in the orbital floor showed positive correlation with follow-up exophthalmometer measurement and degree of implant sagging.

Conclusion:
Orbital floor reconstructed with resorbable implant tends to lose load-bearing strength gradually, especially in large bony defects. Therefore, surgeons should be cautious about using resorbable implants for the maintenance of reconstructed orbital floor, especially in large bony defects.
Lymphatic System of the Head and Neck
Authors: Iwanaga Joe , Lofton Caitlin , He Puhan , Dumont Aaron S. , Tubbs R. Shane 
Published: November 2020

Abstract
An intimate knowledge of the lymphatic drainage of the head and neck is needed by the clinician examining and diagnosing patients with lesion of this region.
It is considered that approximately 150 to 300 lymph nodes are located in the neck region. The classification of cervical lymph nodes by Rouvière has long been most widely referenced in textbooks and articles because it covers most of the lymph nodes of the head and neck region. Anatomical review of the lymphatic system of the head and neck helps surgeons understand and treat the patients who have any cancers and cancer metastasis in and around the head and neck regions. Regardless, comprehensive review of the lymphatic system of the head and neck has been rarely discussed. This paper details the anatomy of the lymphatics of these regions by reviewing related publications, books, official reports from the academic society and also describes the clinical manifestations and levels used in staging of the various lymph nodes with illustrations and computed tomographic images.
The Accumulating Deficits Model for Postoperative Mortality and Readmissions: Comparison of Four Methods Over Multiple Calendar Year Cohorts
Authors: Koohestani Darush , Chobrutskiy Boris I. , Janjua Haroon , Velanovich Vic 
Published: November 2020

Objective:
To assess 4 measures of the accumulating deficits model of frailty for postoperative mortality and readmissions including their stability over time.

Background:
Frailty has been assessed by multiple methods. It is unclear whether variation in how frailty is measured is important and would be stable over time.

Methods:
Rockwood’s 57-item frailty index was mapped onto 14,568 ICD9 diagnosis codes from Healthcare Cost and Utilization Project State Inpatient Database for the state of Florida (HCUP-SID-FL) for calendar years 2011 to 2015, inclusive, with 962 ICD9 codes matching onto 42 items. This became the modified frailty index (mFI) used. Three measures of the mFI were differentiated: the number of admission diagnoses, number of chronic conditions upon admission, and number of increased deficits accumulated during the admission. The Charlson Co-Morbidity Index was a fourth measure of frailty. The mFI of patients who survived or died and were readmitted or not were compared.

Results:
Across all years, 4,796,006 patient observations were compared to the number of diagnoses matched on the 42 items of the mFI. The median mFI scores for each method was statistically significantly higher for patients who died compared those that survived and for patients readmitted compared to patients not readmitted for all years. There was little-to-no variation in the year to year median mFI scores.

Conclusions:
The 4 methods of calculating frailty performed similarly and were stable. The actual method of determining the accumulated deficits may not be as important as enumerating their number.
Pancancer survival analysis of cancer hallmark genes
Authors: Nagy Ádám , Munkácsy Gyöngyi , Győrffy Balázs 
Published: November 2020

ABSTRACTCancer hallmark genes are responsible for the most essential phenotypic characteristics of malignant transformation and progression. In this study, our aim was to estimate the prognostic effect of the established cancer hallmark genes in multiple distinct cancer types.RNA-seq HTSeq counts and survival data from 26 different tumor types were acquired from the TCGA repository. DESeq was used for normalization. Correlations between gene expression and survival were computed using the Cox proportional hazards regression and by plotting Kaplan-Meier survival plots. The false discovery rate was calculated to correct for multiple hypothesis testing.Signatures based on genes involved in genome instability and invasion reached significance in most individual cancer types. Thyroid and glioblastoma were independent of hallmark genes (61 and 54 genes significant, respectively), while renal clear cell cancer and low grade gliomas harbored the most prognostic changes (403 and 419 genes significant, respectively). The eight genes with the highest significance included BRCA1 (genome instability, HR=4.26, p<1E-16), RUNX1 (sustaining proliferative signaling, HR=2.96, p=3.1E-10) and SERPINE1 (inducing angiogenesis, HR=3.36, p=1.5E-12) in low grade glioma, CDK1 (cell death resistance, HR=5.67, p=2.1E-10) in kidney papillary carcinoma, E2F1 (tumor suppressor, HR=0.38, p=2.4E-05) and EREG (enabling replicative immortality, HR=3.23, p=2.1E-07) in cervical cancer, FBP1 (deregulation of cellular energetics, HR=0.45, p=2.8E-07) in kidney renal clear cell carcinoma and MYC (invasion and metastasis, HR=1.81, p=5.8E-05) in bladder cancer.We observed unexpected heterogeneity and tissue specificity when correlating cancer hallmark genes and survival. These results will help to prioritize future targeted therapy development in different types of solid tumors.
ABACUS: A flexible UMI counter that leverages intronic reads for single-nucleus RNAseq analysis
Authors: Xi Simon , Gibilisco Lauren , Kummer Markus , Biber Knut , Wachter Astrid , Woodbury Maya 
Published: November 2020

AbstractSingle-nucleus RNA sequencing (sNuc-RNAseq) is an emerging powerful genomics technology that combines droplet microfluidics with next-generation sequencing to interrogate transcriptome changes at single nucleus resolution. Here we developed Abacus, a flexible UMI counter software for sNuc-RNAseq analysis. Abacus draws extra information from sequencing reads mapped to introns of pre-mRNAs (~60% of total data) that are ignored by many single-cell RNAseq analysis pipelines. When applied to our pilot human brain sNuc-RNAseq data, ABACUS nearly doubled the number of nuclei identified by the CellRanger workflow, recovering a large number of nuclei from non-neuronal cells. By incorporating intronic reads into gene expression quantification, we showed that they encoded additional and valid transcription features of individual cells and could be used to improve cluster resolution of different cell types. By separately counting UMIs derived from forward and reverse intronic reads and from exonic reads, Abacus gives users flexibility in representing genes expressed at different abundance levels. In summary, Abacus represents a flexible, improved workflow for sNuc-RNAseq data processing and analysis.
A computational neural model for mapping degenerate neural architectures
Authors: Khan Zulqarnain , Wang Yiyu , Sennesh Eli Z. , Dy Jennifer , Ostadabbas Sarah , van de Meent Jan-Willem , Hutchinson J. Benjamin , Satpute Ajay B. 
Published: November 2020

AbstractDegeneracy in biological systems refers to a many-to-one mapping between physical structures and their functional (including psychological) outcomes. Despite the ubiquity of the phenomenon, traditional analytical tools for modeling degeneracy in neuroscience are extremely limited. In this study, we generated synthetic datasets to describe three situations of degeneracy in fMRI data to demonstrate the limitations of the current univariate approach. We describe a novel computational approach for the analysis referred to as neural topographic factor analysis (NTFA). NTFA is designed to capture variations in neural activity across task conditions and participants. The advantage of this discovery-oriented approach is to reveal whether and how experimental trials and participants cluster into task conditions and participant groups. We applied NTFA on simulated data, revealing the appropriate degeneracy assumption in all three situations and demonstrating NTFA’s utility in uncovering degeneracy. Lastly, we discussed the importance of testing degeneracy in fMRI and the implications of applying NTFA to do so.