bluuebunny/crossref_metadata_2025_split huggingface dataset:
Impact of shift work on irritable bowel syndrome and functional dyspepsia
Authors: Wang Nian , Liu Xinghuang , Ye Weixiang , Shi Zhaohong , Bai Tao 
Published: June 2022

Abstract

Background:
The possible association between shift work with irritable bowel syndrome (IBS) and functional dyspepsia (FD) remains controversial. The purpose of the study is to conduct a meta-analysis to explore the potential association between shift work with IBS/FD.

Methods:
We searched relevant observational studies on Medline (PubMed) and Embase until June 30, 2021. Two different investigators extracted data and assessed the quality of each study independently. The meta-analysis was used to evaluate the pooled odds risk (OR) between shift work and IBS/FD.

Results:
Eight studies were included ultimately. Shift workers were more likely to suffer from IBS. The OR of shift work was 1.81 (95% confidence interval 1.42; 2.32) with low heterogeneity (P < .05, I
2 = 0%) for IBS. However, no evidence of the association was observed between shift work and the risk of FD. The OR of shift work was 0.87 (95% confidence interval 0.62; 1.23) (P > .05) for FD.

Conclusions:
There was a positive association between shift work and IBS. The prevalence of IBS was 81% higher among shift workers than among non-shift workers. Shift work was probably a risk factor for IBS. The low heterogeneity supports the reliability of the results. However, there was no significant association between shift work and FD. The strength of the evidence was limited and further prospective cohort studies were needed.
Risk of developing cognitive impairment on patients with chronic obstructive pulmonary disease
Authors: Simargi Yopi , Mansyur Muchtaruddin , Turana Yuda , Harahap Alida R. , Ramli Yetty , Siste Kristiana , Prasetyo Marcel , Rumende Cleopas Martin 
Published: June 2022

Abstract

Background:
The increasing number of chronic obstructive pulmonary disease (COPD) incidence has led to a great negative impact on older people's lives. This chronic disease was a critical and independent risk factor for cognitive function impairment in the elderly with mild cognitive impairment as a frequent feature. This systematic review aimed to examine the risk of developing cognitive impairment in COPD.

Methods:
A structured search of the literature was conducted using the Preferred Reporting Items for Systematic Reviews and Meta-analyses statement guideline, with a pre-determined search strategy starting from study identification, title and abstract screening, eligibility assessment, and inclusion of relevant study. The search was conducted in PubMed and MEDLINE via EBSCOhost, with restriction to human studies. The studies from inception until January 12, 2021.

Results:
Five original articles were included. Most studies found that patients with COPD had a higher chance of developing cognitive impairment, especially when patients were followed up for more than 5 years. We discovered that the risk of cognitive impairment seemed to be correlated with the length of time spent following the participants, with the highest risk of cognitive impairment being identified in those who had the longest observation period. It is critical to conduct cognitive screening from the time a diagnosis of COPD is obtained and on a continuing basis in order to recognize and treat these individuals appropriately.

Conclusion:
There is a potential association between COPD and mild cognitive impairment. We encourage more studies to be done with higher sensitivity and specificity cognitive screening tools in the future to build better evidence and qualify to be analyzed quantitatively with meta-analysis.
One-year efficacy of tenofovir alafenamide in patients with chronic hepatitis B
Authors: Chen Yi-Cheng , Hsu Chao-Wei , Chien Rong-Nan , Tai Dar-In 
Published: June 2022

Abstract
Non-inferior antiviral efficacy and better renal safety have been reported in chronic hepatitis B patients with tenofovir alafenamide (TAF) treatment. The experience in real-world clinical practice is limited.
We aimed to explore the efficacy after 1-year TAF treatment.
A total of 148 patients (42 HBeAg-positive and 106 HBeAg-negative) with TAF treatment ≥1 year were included. Virological suppression (<20 IU/mL or undetectable), HBsAg level, alanine aminotransferase (ALT) normalization (≤36 U/L), and estimated glomerular filtration rate (eGFR) were analyzed at 1 year. Multivariate logistic regression analysis was performed to determine the associated factors for virological suppression and ALT normalization.
Virological suppression was achieved in 83% and the 1-year median decline of hepatitis B virus DNA was 5.18 log IU/mL. ALT normalization occurred in 75.7%. HBsAg level decreased at a median of 0.27 log IU/mL with significant difference from baseline (P < .001). Baseline ALT (odds ratio [OR] 1.005, 95% confidence interval [CI] 1.000–1.010, P = .036) and hepatitis B virus DNA (OR 0.222, 95% CI 0.079–0.621, P = .004) were significant factors for 1-year virological suppression. Age (OR 1.064, 95% CI 1.003–1.130, P = .041) was associated with ALT normalization. Significant changes were observed in creatinine (mean increase 0.03 mg/dL, P = .011) and eGFR (mean decrease 2.6 mL/min/1.73 m2, P = .004) after 1-year TAF treatment.
One-year TAF treatment came to good virological response, modest ALT normalization rate and significant HBsAg decline. The observation of significant changes in eGFR warranted further studies.
Recurrent spinal cord compression due to extramedullary hematopoiesis in thalassemia patient
Authors: Abbarh Shahem , Al-Mashdali Abdulrahman F. , Abdelrazek Mohamed , Gurusamy Venkada Manickam , Yassin Mohamed A. 
Published: June 2022

Abstract

Introduction:
Spinal cord compression secondary to extramedullary hematopoiesis (EMH) is a rare condition. Variable treatment options have been reported with different efficacy and recurrence rate. Due to its rarity, no clear optimal management guidelines have been established yet.

Patient concerns and diagnosis:
We report a recurrence of spinal cord compression secondary to EMH in a 19-year-old male, with a background of transfusion-dependent beta-thalassemia on luspatercept, who presented with weakness in both lower limbs.

Interventions and outcomes:
He was treated successfully both times with radiotherapy.

Conclusion:
Early diagnosis and management of EMH compressing the spinal cord are essential to prevent permanent neurological damage. Diagnosis should be suspected based on the clinical presentation and magnetic resonance imaging findings in a patient with a history of ineffective hemopoiesis. Treatment option remains controversial. Radiotherapy option seems effective, even in recurrent cases, and valid, particularly for those at high risk of surgery or who do not prefer it.
Exploring the relationship between osteoporosis and polycystic ovary syndrome based on bioinformatics
Authors: Dang Chun-xiao , Wang Ding , Yu Xiao , Liu Peng-fei , Liu Jin-xing 
Published: June 2022

Abstract

Background:
In recent years, clinical studies have found that there is a close relationship between osteoporosis and polycystic ovary syndrome. However, there are few literature on the pathogenesis of osteoporosis and polycystic ovary syndrome. In order to clarify their common pathogenic mechanism and provide potential targets for drugs to regulate them at the same time, bioinformatics methods are used to explore, so as to provide a new direction for the study of the relationship between diseases in the future.

Methods:
To screen the targets of osteoporosis and polycystic ovary syndrome by Genecards, Online Mendelian Inheritance in Man databases and Therapeutic Target Database to take the intersection of the two mappings and upload the intersection targets to the STRING database to construct protein-protein interaction network; to screen the core targets by degree value and import them to Metascape database for Gene Ontology and Kyoto Encyclopedia of Genes and Genomes pathway analysis; and finally, to construct the visualization network of core targets and pathways by Cytoscape software. Ethical approval and informed consent of patients are not required because the data used in this study is publicly available and does not involve individual patient data or privacy.

Results:
The core targets of polycystic ovary syndrome and osteoporosis were insulin gene, insulin-like growth factor 1, CTNNB1, serine/threonine kinase 1, signal transducer and activator of transcription 3, LEP, etc. The biological processes involved include the regulation of protein phosphorylation, cell proliferation and differentiation, hormone endocrine, reproductive system and skeletal system. The related pathways were concentrated in Foxo signaling pathway, HTLV-I infection, PI3K-AKT signaling pathway, MAPK signaling pathway and AGE-RAGE signaling pathway in diabetic complications.

Conclusions:
There is a close relationship between osteoporosis and polycystic ovary syndrome in terms of target and molecular mechanism. This study used bioinformatics to clarify their targets and mechanisms, providing potential targets for drugs to regulate both diseases simultaneously and providing new directions to explore the relationship between the diseases.
Accuracy of the Hammersmith infant neurological examination for the early detection of neurological changes in infants exposed to Zika virus
Authors: de Souza Tathiana Ghisi , Bagne Eduardo , Mizani Renata , Rotob Ali Abdalla , Gazeta Rosa Estela , de Sene Amâncio Zara Ana Laura , Jundiaí Cohorte Zika virus , Passos Saulo Duarte 
Published: June 2022

Abstract
The Hammersmith infant neurological examination (HINE) is a highly predictive tool for the easy and low-cost detection of cerebral palsy. Between 2015 and 2016, the rapid spread of the Zika virus (ZIKV) in Brazil was responsible for an increase in microcephaly cases. This study aimed to verify the accuracy of the HINE for the early detection of neurological problems in Brazilian babies exposed to ZIKV.
This was a cross sectional case-control study of children exposed to ZIKV. This study was part of the Jundiaí ZIKV Cohort. Of a total sample of 782 children, 98 were evaluated (26 in the exposed group and 63 in the control group). We included late preterm infants and term infants who were exposed to the ZIKV and were participants in the ZIKV Cohort study. Student's t-test and stepwise multivariate logistic regression were used to compare groups.
Of the 26 items evaluated in the five scored categories of the HINE (cranial nerve function, posture, movements, tone, reflexes, and reactions), only the difference in ankle dorsiflexion between the exposed and the control groups was statistically significant. However, some items showed a significant trend in relation to the control group.
Our results demonstrated the importance of early neurological assessment of infants exposed to ZIKV, even in those without a microcephaly diagnosis.
Microneedling Outcomes in Early Post-Surgical Scars
Authors: Claytor R. Brannon , Sheck Casey G. , Chopra Vinod 
Published: June 2022

Background:
Scars are a vexing sequela of surgery. Microneedling, also known as Minimally Invasive Percutaneous Collagen Induction (MIPCI), has demonstrated impressive improvements in chronic acne scars; however, no evidence exists for treating post-surgical scars during active wound healing. The purpose of this study was to demonstrate the utility and safe use of MIPCI in acute post-surgical scars.

Methods:
Twenty-five subjects who underwent surgery had scars treated with 3 treatments of MIPCI in the postoperative period. Scar assessment was measured by Vancouver Scar Scale (VSS), Patient & Observer Scar Assessment Scale (POSAS) and Global Aesthetic Improvement Scale (GAIS) after each of the 3 treatments and at final 2 month follow up.

Results:
Patients had positive improvement in VSS, POSAS and GAIS at 16-week post treatment initiation evaluation compared to initial measurement (p value<0.001). No statistically significant differences were noted when comparing the age of the patient, location of scars or Fitzpatrick Phototype Scales between patients. However, when comparing patients who began treatment early (week 6 to 7 post-op) to those who began treatment late (week 13 to 16 postop), there was a statistically significant difference in the POSAS group (p value <0.04).

Conclusions:
Post-surgical scars treated with MIPCI in the maturation and remodeling phase had no adverse outcomes. Interestingly, our data shows treatment initiated early in the maturation phase (6-7 weeks post-op) while natural collagen formation was tapering off demonstrated improved aesthetic outcomes compared to treatments initiated late in the maturation phase (13-16wk post-op).
Accurate Reconstruction of Mandibular Defects With Vascularized Bone Flaps Through Utilization of Mandible Space-Retention Guides
Authors: Wang Chengyi , Meng Zhaoqiang , Jie Bimeng , Li Ruiliu , He Yang , Xu Mingming 
Published: June 2022

Purpose:
Comprehensive evaluation of the effects of using computer-aided design and space retention guide technology to reconstruct mandibular defects using vascularized autogenous bone flaps.

Method:
This study included 8 patients who received autogenous bone flaps (2 cases of vascularized fibula flaps and 6 cases of vascularized iliac flaps) for mandibular defect reconstruction at Peking University School and Hospital of Stomatology, from July 2018 to May 2021. All patients received digital surgery planning, computer aided design/computer aided manufacture, surgical guide technique for the removal of diseased bone segments, as well as vascularized fibular flap/iliac flap reconstruction. Three-dimensional deviations were analyzed after the operation.

Result:
The mandibular defects of all 8 patients were successfully reconstructed using the vascularized fibular flap/iliac bone flap. There were no serious complications at either the donor site or recipient site during our follow-up. The average three-dimensional deviation of all 8 patients was 1.92 mm, based on comparisons of preoperative design and actual postoperative computed tomography.

Conclusion:
Utilizing computer aided design/computer aided manufacture, we designed a new mandibular space-retention guide, which can accurately translate the preoperative digital design plan to real-time surgery with satisfactory accuracy and efficacy.
Pancreatic Cancer Patient-derived Organoids Can Predict Response to Neoadjuvant Chemotherapy
Authors: Demyan Lyudmyla , Habowski Amber N. , Plenker Dennis , King Daniel A. , Standring Oliver J. , Tsang Caitlin , St. Surin Luce , Rishi Arvind , Crawford James M. , Boyd Jeff , Pasha Shamsher A. , Patel Hardik , Galluzzo Zachary , Metz Christine , Gregersen Peter K. , Fox Sharon , Valente Cristina , Abadali Sonya , Matadial-Ragoo Steffi , DePeralta Danielle K. , Deutsch Gary B. , Herman Joseph M. , Talamini Mark A. , Tuveson David A. , Weiss Matthew J. 
Published: June 2022

Objective:
To evaluate if patient-derived organoids (PDOs) may predict response to neoadjuvant (NAT) chemotherapy in patients with pancreatic adenocarcinoma.

Background:
PDOs have been explored as a biomarker of therapy response and for personalized therapeutics in patients with pancreatic cancer.

Methods:
During 2017–2021, patients were enrolled into an IRB-approved protocol and PDO cultures were established. PDOs of interest were analyzed through a translational pipeline incorporating molecular profiling and drug sensitivity testing.

Results:
One hundred thirty-six samples, including both surgical resections and fine needle aspiration/biopsy from 117 patients with pancreatic cancer were collected. This biobank included diversity in stage, sex, age, and race, with minority populations representing 1/3 of collected cases (16% Black, 9% Asian, 7% Hispanic/Latino). Among surgical specimens, PDO generation was successful in 71% (15 of 21) of patients who had received NAT prior to sample collection and in 76% (39 of 51) of patients who were untreated with chemotherapy or radiation at the time of collection. Pathological response to NAT correlated with PDO chemotherapy response, particularly oxaliplatin. We demonstrated the feasibility of a rapid PDO drug screen and generated data within 7 days of tissue resection.

Conclusion:
Herein we report a large single-institution organoid biobank, including ethnic minority samples. The ability to establish PDOs from chemotherapy-naive and post-NAT tissue enables longitudinal PDO generation to assess dynamic chemotherapy sensitivity profiling. PDOs can be rapidly screened and further development of rapid screening may aid in the initial stratification of patients to the most active NAT regimen.
Single molecule methylation profiles of cell-free DNA in cancer with nanopore sequencing
Authors: Lau Billy T. , Almeda Alison , Schauer Marie , McNamara Madeline , Bai Xiangqi , Meng Qingxi , Partha Mira , Grimes Susan M. , Lee HoJoon , Heestand Gregory M. , Ji Hanlee P. 
Published: June 2022

ABSTRACTEpigenetic characterization of cell-free DNA (cfDNA) is an emerging approach for characterizing diseases. We developed a strategy using nanopore-based single-molecule sequencing to measure cfDNA methylomes. This approach generated up to hundreds of millions of reads per cfDNA sample from cancer patients, an order of magnitude improvement over existing nanopore methods. Leveraging methylomes of matched tumors and immune cells, we characterized cfDNA methylomes of cancer patients for longitudinal monitoring during treatment.
Systems Analysis of de novo Mutations in Congenital Heart Diseases Identified a Molecular Network in Hypoplastic Left Heart Syndrome
Authors: Wang Yuejun Jessie , Zhang Xicheng , Lam Chi Keung , Guo Hongchao , Wang Cheng , Zhang Sai , Wu Joseph C. , Snyder Michael , Li Jingjing 
Published: June 2022

AbstractCongenital heart diseases (CHD) are a class of birth defects affecting ∼1% of live births. These conditions are hallmarked by extreme genetic heterogeneity, and therefore, despite a strong genetic component, only a very handful of at-risk loci in CHD have been identified. We herein introduced systems analyses to uncover the hidden organization on biological networks of genomic mutations in CHD, and leveraged network analysis techniques to integrate the human interactome, large-scale patient exomes, the fetal heart spatial transcriptomes, and single-cell transcriptomes of clinical samples. We identified a highly connected network in CHD where most of the member proteins had previously uncharacterized functions in regulating fetal heart development. While genes on the network displayed strong enrichment for heart-specific functions, a sub-group, active specifically at early developmental stages, also regulates fetal brain development, thereby providing mechanistic insights into the clinical comorbidities between CHD and neurodevelopmental conditions. At a small scale, we experimentally verified previously uncharacterized cardiac functions of several novel proteins employing cellular assays and gene editing techniques. At a global scale, our study revealed developmental dynamics of the identified CHD network and observed the strongest enrichment for pathogenic mutations in the network specific to hypoplastic left heart syndrome (HLHS). Our single-cell transcriptome analysis further identified pervasive dysregulation of the network in cardiac endothelial cells and the conduction system in the HLHS left ventricle. Taken together, our systems analyses identified novel factors in CHD, revealed key molecular mechanisms in HLHS, and provides a generalizable framework readily applicable to studying many other complex diseases.
CIGB-300 peptide targets the CK2 phospho-acceptor domain on Human Papillomavirus E7 and disrupts the Retinoblastoma (RB) complex in cervical cancer cells
Authors: Ramón Ailyn C. , Basukala Om , Massimi Paola , Thomas Miranda , Perera Yasser , Banks Lawrence , Perea Silvio E. 
Published: June 2022

AbstractCIGB-300 is a clinical-grade anti- Protein Kinase CK2 peptide, binding both its substrate’s phospho-acceptor site and the CK2α catalytic subunit. The cyclic p15 inhibitory domain of CIGB-300 was initially selected in a phage display library screen for its ability to bind the CK2 phospho-acceptor domain of HPV-16 E7. However, the actual role of this targeting in CIGB-300’s antitumoral mechanism remains unexplored. Here, we investigated the physical interaction of CIGB-300 with HPV-E7 and its impact on CK2-mediated phosphorylation. Hence, we studied the relevance of targeting E7 phosphorylation for the cytotoxic effect induced by CIGB-300. Finally, co-immunoprecipitation experiments followed by western blot were performed to study the impact of the peptide on the E7-pRB interaction. Interestingly, we found a clear binding of CIGB-300 to the N terminal region of E7 proteins from HPV-16 type. Accordingly, the in vivo physical interaction of the peptide with HPV-16 E7 reduces the CK2-mediated phosphorylation of E7, as well as its binding to the tumour suppressor pRB. However, the targeting of E7 phosphorylation by CIGB-300 seemed to be dispensable for the induction of cell death in HPV-18 cervical cancer-derived C4-1 cells. These findings unveil novel molecular clues to the means by which the CIGB-300 triggers cell death in cervical cancer cells.
Toxicity of House Cricket (Acheta domesticus) in Mice
Authors: Yasuki Matano , Kiyo Sakagami , Yuuto Nojiri , Kenta Nomura , Akira Masuda , Yuuki Moriike , Akane Yamamoto , Nobuo Nagai , Atsushi Ogura 
Published: June 2022

AbstractThere is an urgent need to address the shortage of animal protein due to food shortages caused by the global population growth. Crickets contain an abundance of proteins in their exoskeleton and muscles and have attracted attention as a new protein source; however, their safety as a food source has not been confirmed. We evaluated the toxicity of the House cricket (Acheta domesticus), on cells and mammals. In genotoxicity in vitro, cricket powder was added to Chinese hamster lung CHL-IU cells at concentrations of 5,000 µg/mL, and the rate of chromosomal aberrations was assessed. In genotoxicity in vivo, mice were orally administered up to 2,000 mg/kg of cricket powder for 2 days. In both tests, cricket powder did not show any toxic effect. A repeated oral toxicity study was performed administering up to 3,000 mg/kg of cricket powder or control (saline) for 14 or 90 consecutive days and measuring body weight changes, blood biochemistry, blood properties, and organ weights. In each time course, there were no differences in there parameters between the control and cricket powder treated groups. These results suggest that House crickets (≤3,000 mg/kg) are not toxic to cells and organisms.
Verkko: telomere-to-telomere assembly of diploid chromosomes
Authors: Rautiainen Mikko , Nurk Sergey , Walenz Brian P. , Logsdon Glennis A. , Porubsky David , Rhie Arang , Eichler Evan E. , Phillippy Adam M. , Koren Sergey 
Published: June 2022

AbstractThe Telomere-to-Telomere consortium recently assembled the first truly complete sequence of a human genome. To resolve the most complex repeats, this project relied on manual integration of ultra-long Oxford Nanopore sequencing reads with a high-resolution assembly graph built from long, accurate PacBio HiFi reads. We have improved and automated this strategy in Verkko, an iterative, graph-based pipeline for assembling complete, diploid genomes. Verkko begins with a multiplex de Bruijn graph built from long, accurate reads and progressively simplifies this graph via the integration of ultra-long reads and haplotype-specific markers. The result is a phased, diploid assembly of both haplotypes, with many chromosomes automatically assembled from telomere to telomere. Running Verkko on the HG002 human genome resulted in 20 of 46 diploid chromosomes assembled without gaps at 99.9997% accuracy. The complete assembly of diploid genomes is a critical step towards the construction of comprehensive pangenome databases and chromosome-scale comparative genomics.