bluuebunny/crossref_metadata_2025_split huggingface dataset:
Diverse efficacy of CarbaNP test among OXA-48 carbapenemase producing Enterobacterales in an endemic region
Authors: Hortaç İştar Elvan , Alışkan Hikmet Eda , Göçmen Jülide Sedef 
Published: March 2021

AbstractAfter the first description of OXA-48 type carbapenemase, it has become endemic in Europe, Mediterranean and North African countries in a short time. OXA-48 carbapenemase is the most difficult type to determine and accurate diagnosis is crucial especially in endemic areas.The CarbaNP test was described as a rapid phenotypic evaluation method of carbapenemases activity. Sensitivity and specifity of this test were high within all carbapenemases genes. In our study, we evaluated the efficacy of CarbaNP test in routine laboratories located in an endemic area of OXA-48 producing Enterobacterales.A total of 53 Enterobacterales isolates were included in this study. Antimicrobial susceptibility of the isolates to imipenem, meropenem and ertapenem was determined. Polymerase Chain Reaction (PCR) was carried out for the detection of carbapenemases genes (blaKPC, blaNDM, blaBIC, blaIMP, blaVIM, blaSPM, blaAIM, blaDIM, blaGIM, blaSIM, and blaOXA-48). The Carba NP test was performed as in the protocol described previously.Altogether 31 isolates (58.4%) were blaOXA-48 positive (18 Klebsiella pneumoniae, 8 Escherichia coli, 2 Serratia marcescens, 1 Enterobacter aerogenes, 1 Pantoea agglomerans and 1 Morganella morganii). Among these isolates 3 (5.6%) and 2 (3.7%) isolates were also positive for blaVIM and blaSPM, respectively.The sensitivity and specifity of CarbaNP test were found 64.5, and 68.2% respectively. It was observed that determination of positive isolates is hard to distinguish and subjective.The CarbaNP test has suboptimal results and low of sensitivity and specifity for detection of OXA-48 producing Enterobacterales, and not suitable for detection of blaOXA-48 positive isolates in routine laboratories in endemic areas.
HER-2 neu expression in surface epithelial ovarian tumors and its relationship with clinic-pathological parameters: a pilot study
Authors: Grover Abhimanyu , Mohanty Madhusmita , Dash Kanakalata 
Published: March 2021

Background: Ovarian cancer is one of the major source of morbidity and mortality in women among all gynecological malignancies. Her2/neu expression in ovarian carcinoma has not been studied extensively in ovarian surface epithelial carcinoma. It's can be utilized towards future proposed studies as a targeted therapy in new era of treatment for ovarian malignancies.Methods: It was a prospective study carried for 2 years. Hematoxylin and eosin stain was studied, grading, staging was evaluated for all the cases. Immunohistochemical staining with HER2/neu was done, evaluation done by 3 independent pathologists, correlation of HER2/neu with histological type, grade and stage was done. Results: The present study included 33 cases of histologically proven epithelial ovarian neoplasm with mean age of 44.5±25.55 years. Serous type constitutes majority of cases (48.48%), maximum number of cases was in high grade (57.57%) and high stage (40.74%). Majority of tumors showed negative expression of HER2/neu i.e. 42.42%. The current study found no significant correlation between HER2/neu expression and histological type, histological grade, extent of tumor (T stage) and distant metastasis. But we found a significant correlation between nodal metastasis and HER2/neu expression.Conclusions: HER2/neu therapy can be given in borderline and low grade tumor compared to high grade tumor.
Gorham-Stout Disease Resulting in Spinal Deformity Treated by Fusion Surgery Combined With Everolimus Therapy
Authors: Toga Akira , Watanabe Kota , Suzuki Satoshi , Nori Satoshi , Tsuji Osahiko , Nagoshi Narihito , Okada Eijiro , Yagi Mitsuru , Fujita Nobuyuki , Nakamura Masaya , Matsumoto Morio 
Published: March 2021

Case:
Gorham-Stout disease (GSD) is a rare disorder characterized by progressive localized osteolysis and lymphatic malformation. A 26-year-old woman with GSD presented to our hospital with a Cobb angle of 100° and a kyphosis angle of 88°. Everolimus therapy was initiated to control the disease prior to surgery. After halo-gravity traction for 4 weeks, we performed anterior and posterior spinal fusion. Postoperative computed tomography revealed satisfactory bone union and no significant loss of correction 1 year post-surgery.

Conclusion:
This case suggests that anterior and posterior spinal fusion combined with everolimus therapy can be a therapeutic option for GSD.
Petrogenesis and Geodynamic Implications of a Newly Discovered Basanite Dike in Zaolin, Jingdezhen City, South China
Authors: Pan Xiaofei , Ren Yufeng , Hou Zengqian , Ouyang Yongpeng , Gong Xuejing , Li Qiuyun , Yang Yanshen 
Published: March 2021

Abstract
A recently discovered basanite dike in the Zaolin area of Jingdezhen, South China, contains mantle xenocrysts such as kink-banded olivines, olivines + orthopyroxenes assemblage, and chromites. In addition, polymorphic carbonates of the MgCO3–FeCO3 series occur as augens, either independently or interspersed with diopside and spinel in the matrix. The rock is characterized by high Cr and Ni contents, high whole-rock Mg# values (0.66–0.72), and high Ca/Al (0.72–1.03) and TFeO/MgO (1.1–1.3) ratios and is alkali-rich with Na2O &gt; K2O. The trace-element partition patterns are similar to those of other basanites in eastern China as well as ocean island basalts. Whole-rock geochemical analyses show depleted Sr and Nd isotopic compositions (86Sr/87Sr=0.70358–0.703853, εNd=2.52–6.73). These data indicate that the rock has experienced negligible crustal contamination, should be derived from asthenospheric mantle, or mixed by the MORB with EMI/EMII mantle and have been carbonated. The calculated T–P conditions of the melt in equilibrium with xeno-olivine are 1160–1320°C at the mantle depth. The high Cr# values of the spinel xenocrysts indicate that the lithospheric mantle under the Jingdezhen area was probably relict Proterozoic mantle. The Ar–Ar plateau age and the isochron and inverse isochron ages for the matrix of the basanite are all 44 Ma. The basanite, as well as other alkaline basalt or lamprophyre dikes in southeastern China, formed in a rifting regime during the Eocene.
Experimental Investigation on the Impact Dynamics of Saturated Granular Flows on Rigid Barriers
Authors: Sanvitale Nicoletta , Bowman Elisabeth , Cabrera Miguel Angel 
Published: March 2021

ABSTRACT
Debris flows involve the high-speed downslope motion of rocks, soil, and water. Their high flow velocity and high potential for impact loading make them one of the most hazardous types of gravitational mass flows. This study focused on the roles of particle size grading and degree of fluid saturation on impact behavior of fluid-saturated granular flows on a model rigid barrier in a small-scale flume. The use of a transparent debris-flow model and plane laser-induced fluorescence allowed the motion of particles and fluid within the medium to be examined and tracked using image processing. In this study, experiments were conducted on flows consisting of two uniform and one well-graded particle size gradings at three different fluid contents. The evolution of the velocity profiles, impact load, bed normal pressure, and fluid pore pressure for the different flows were measured and analyzed in order to gain a quantitative comparison of their behavior before, during, and after impact.
Single Trip Curve-Lateral Drilling with High Dogleg RSS
Authors: Tilley Jim , Demirer Nazli , Bond Paul , Penman Andrew , Hamoudi Lotfi , Della Chiesa David 
Published: March 2021

Abstract
This paper discusses the design of an attitude controller embedded in a high dogleg, fully-rotating rotary steerable system (RSS). While drilling with a high dogleg capable RSS at high rate of penetration (ROP), directional control may become challenging along tangent sections, thus, making it difficult to drill vertical, curve, and lateral sections within a single trip with low tortuosity. To ensure tight inclination and azimuth control along tangent sections with high dogleg RSS, we introduce an on-board robust attitude control system and discuss its performance over several curve-lateral case studies drilled at high ROPs.
The downhole navigation and control system consists of a multiplicity of accelerometers, a magnetometer, and gyroscopes that are used to precisely measure borehole attitude via sophisticated sensor fusion algorithms. The attitude measurements representing borehole direction in a three-dimensional frame are fed back to the controller, which communicates a corrective control command to a high-bandwidth actuation system to minimize deviation from the target attitude. This corrective control command is generated by an advanced control method that is optimized to provide good attitude tracking performance and necessary robustness against potential formation pushes during high ROP drilling.
Several case histories from wells drilled using the automatic attitude control feature of the high dogleg RSS will be shared in the paper and discussed in detail. The cases include single-trip curve-lateral runs from onshore North America (Marcellus Shale) drilled at high ROPs. The entirety of the lateral sections of these wells, each longer than 10,000 ft, are drilled with the automatic attitude control mode. While generating consistently over 12°/100ft dogleg severity in curve sections, the RSS was able to drill smooth lateral sections with an average of over 200 ft/hr ROP and by keeping the average dogleg severity at approximately 1.2°/100ft.
The attitude-hold controller enables the high dogleg capable RSS to drill smooth vertical sections, tangents, and extended laterals, along with the curve sections, in just a single run. This technology has the potential to offer cost savings on several fronts: (1) reducing non-drilling time due to tripping in and out between different sections of the well; (2) allowing for drilling at an increased ROP by maintaining tight directional control and, therefore, reducing the drilling time; and (3) increasing operational efficiency by shifting the steering decision-making process to the downhole given target attitude.
PeptiCHIP: a novel microfluidic-based chip platform for tumour antigen landscape identification
Authors: Feola Sara , Haapala Markus , Peltonen Karita , Capasso Cristian , Martins Beatriz , Antignani Gabriella , Federico Antonio , Pietiäinen Vilja , Chiaro Jacopo , Feodoroff Michaela , Rannikko Antti , Fusciello Manlio , Koskela Satu , Partanen Jukka , Hamdan Firas , Tähkä Sari , Ylösmäki Erkko , Greco Dario , Grönholm Mikaela , Kekarainen Tuija , Eshaghi Masoumeh , Gurvich Olga L. , Ylä-Herttuala Seppo , Branca Rui Mamede , Lehtiö Janne , Sikanen Tiina , Cerullo Vincenzo 
Published: March 2021

Abstract
Identification of HLA class I ligands from the tumour surface (ligandome or immunopeptidome) is essential for designing T-cell mediated cancer therapeutic approaches. However, the sensitivity of the process for isolating MHC-I restricted tumor-specific peptides has been the major limiting factor for reliable tumor antigen characterization, making clear the need for technical improvement.
Here, we describe our work from the fabrication and development of a novel microfluidic-based chip (PeptiCHIP) and to its use to identify and characterize tumor-speficic ligands on clinically relevant human organoids. Specifically, we assessed the potential of immobilizing a pan-HLA antibody on solid surfaces via well-characterized streptavidin-biotin chemistry, overcoming the limitations of the cross-linking chemistry used to prepare the affinity matrix with the desired antibodies in the immunopeptidomics workflow. Furthermore, to address the restrictions related to the handling and the limited availability of tumour samples, we further developed the concept towards the implementation of a microfluidic through-flow system.
Thus, the biotinylated pan-HLA antibody was immobilized on streptavidin-functionalized surfaces, and immune-affinity purification (IP) was carried out on customized microfluidic pillar arrays made of thiol-ene polymer. Compared to the standard methods reported in the field, our methodology drastically reduces the handling, the amount of antibody and the time required for peptide isolation.
In this work, we carefully examined the specificity and robustness of our customized technology for immunopeptidomics workflows. We tested this novel platform by immunopurifying HLA-I complexes from as few as 106 cells both in a widely studied B-cell line and in patients-derived ex vivo cell cultures. After the final elution in mild acid, HLA-I-presented peptides were identified by tandem mass spectrometry and further investigated by in vitro methods. These results highlight the potential to exploit microfluidics-based strategies in immunopeptidomics platforms and in personalized immunopeptidome analysis from cells isolated from individual tumour biopsies to design tailored cancer therapeutic vaccines.
Barriers and Facilitators of Art Adherence Among Hiv Positive Patients in Community Client-led Art Delivery Groups at Lira Regional Referral Hospital
Authors: Isabirye Rogers , Puleh Steven Sean , Opii Didan Jacob , Opio-Ekit Sharon , kawomera Alice , Lokiru Luke , Isoke Robert , Ssenkaali Joachim , Kumakech Edward , Obua Celestino 
Published: March 2021

Abstract
Background: The community client-led ART delivery groups (CCLADs) was introduced as one of the strategies to better serve individual needs and reduce unnecessary burdens on the health system. However, no study has comprehensively explained what are the drivers and barriers of CCLADs in improving treatment outcomes. This study sought to assess the barriers and facilitators of ART adherence among HIV positive patients attending CCLADs at Lira Regional Referral Hospital (LRRH), Lira District.Method: We employed a mixed methodology involving 150 study participants between July to August 2020. Quantitative data was obtained from all the participants that were picked through systematic random sampling using a semi-structured questionnaire. Data was entered into SPSS version 23.0 and analyzed at 95% level of significance. We conducted 25 in-depth interviews guided by a checklist. Qualitative data was analyzed through thematic content analysis of major themes that emerged from participants’ responses.Results: Our study found that majority 94.7% (142/150) of the respondents had an optimal adherence (100%) calculated retrospectively based on a 4-day pill uptake recall. In addition, 39.3% (59/150) of participants in CCLADs at LRRH had missed taking a pill in a period of at least 4 weeks. Among all the 104 respondents that had ever missed a medication, the most frequent reason (35% (35/104)) for missing a medication was travelling far away.From qualitative data, social support, patient self-motivation, health education and counselling and guidance were the major facilitators to adherence. On the other hand, lack of food, stigma, forgetfulness, stress, unfair hospital staffs and cultural beliefs were the major perceived barriers to ART adherence.Conclusion/recommendation: Good adherence was attributed to availability of ART at the clinic and an efficient delivery strategy. More health care follow up interventions should be designed to ensure total pill uptake by PLWHIV in communities.
Usefulness of 3D-printed Coplanar Puncture Template Assisted CT- guided Percutaneous Core Needle Biopsy of Small (≤20mm) Pulmonary Nodules: 3 years of experience
Authors: Wang Hansheng , Chen Xiao , Ren Tao , Chen Peipei , Luo Guoshi , Wang Xiao , Wei Na , Tang Yijun , Wang Meifang 
Published: March 2021

Abstract
Background and Objective: Computed tomography guided percutaneous lung biopsy is a commonly used method for clarifying the nature of pulmonary nodules. However, due to the existence of breathing movement, the lungs have greater mobility, and biopsy of small pulmonary nodules is difficult. In recent years, 3D-printed coplanar templates are gradually used in percutaneous biopsy of small pulmonary nodules. Therefore, this study aimed to evaluate the application value of 3D-printed coplanar puncture template assisted computed tomography guided percutaneous core needle biopsy of small (≤20mm) pulmonary nodules.Method: From January 2018 to January 2021 in Taihe Hospital, 210 hospitalized patients with pulmonary nodules underwent percutaneous core needle biopsy for histopathology/cytopathology diagnosis and were included in the study. All patients were allocated into two groups, patients in Free-hand group underwent percutaneous core needle biopsy without 3D-printed coplanar templates, and patients in 3D-PCT group underwent percutaneous core needle biopsy with 3D-printed coplanar templates. The number of needle adjustments, number of CT scans, surgical time-consuming, diagnostic accuracy, and incidence of complications were recorded and compared between the two groups. Rapid on site evaluation was routinely used for guiding specimens’ triage. Approval for this trial was obtained from the Ethics Committee of the Taihe hospital.Result：The number of needle adjustments (1.41±0.63 vs. 2.23±0.85), the number of CT scans (3.63±0.73 vs. 4.25±0.81) and the incidence of pneumothorax (9.6% vs. 21.1%) during the procedure were significantly lower in the observation group than the control group (P< 0.05), whereas there were no significant differences in the diagnostic accuracy (95.2% vs. 94.3%) and incidence of pulmonary hemorrhage (65.4% vs. 62.3%) between the two groups (P> 0.05), however, the surgical time-consuming in 3D-PCT group is significantly more than Free-hand group.Conclusions: These findings indicated that the 3D-printed coplanar puncture template combined with CT guided percutaneous biopsy can relatively fix the target lesion, reduce the number of needle adjustments and number of CT scans, reduce iatrogenic radiation, and reduce the incidence of complications, especially pneumothorax
The different risk factors for isolated diastolic hypertension and isolated systolic hypertension: a national survey
Authors: Xie Kun , Gao Xiufang , Bao Liwen , Shan Ying , Shi Haiming , Li Yong 
Published: March 2021

Abstract
Background

Hypertension is highly prevalent and is one of the modifiable risk factors for cardiovascular outcomes. Isolated diastolic hypertension (IDH), however, tend to be ignored due to insufficient recognition. We sought to depict the clinical manifestation of IDH and isolated systolic hypertension (ISH) in order to find a more efficient way to improve the management.
Methods

Patients with primary hypertension aged over 18 years were investigated from all over the country using convenience sampling during 2017–2019. IDH was defined as systolic blood pressure (SBP) < 140 mmHg and diastolic blood pressure (DBP) ≥ 90 mmHg. ISH was defined as SBP ≥ 140 mmHg and DBP < 90 mmHg.
Results

Totally 8548 patients were screened and
8475 participants were included.

The average age was 63.67 ± 12.78 years and male accounted for 54.4%. Among them, 361 (4.3%) had IDH and 2096 had ISH (24.7%). Patients with IDH (54.84 ± 13.21 years) was much younger. Aging turned out to be negatively associated with IDH but positively associated with ISH. Logistic analysis showed BMI was a significant risk factor for IDH (OR 1.30, 95%CI 1.05–1.61, p = 0.018), but not for ISH (OR 1.05, 95%CI 0.95–1.16, p = 0.358). Moreover, smoking was significantly associated with IDH (OR 1.36, 95%CI 1.04–1.78, p = 0.026) but not with ISH (OR 1.04, 95%CI 0.90–1.21, p = 0.653).
Conclusions

Patients with IDH were much younger and the prevalence decreased with aging. BMI and smoking were remarkably associated with IDH rather than ISH. Keeping fit and giving up smoking might be particularly efficient in the management of young patients with IDH.
Trial registration:

NCT03862183, retrospectively registered on March 5, 2019
Effectiveness of local exercise therapy versus spinal manual therapy in patients with patellofemoral pain syndrome: medium term follow-up results of a randomized controlled trial.
Authors: Scafoglieri Aldo Georges Celine , Broeck Jona Van den , Willems Stijn , Tamminga Rob , Hoeven Henk van der , Engelsma Yde , Haverkamp Stijn 
Published: March 2021

Abstract
Background

Increasing evidence has shown benefits of spinal manipulations in patients with patellofemoral pain syndrome (PFPS). There is scarcity regarding medium term effects of spinal manual therapy on outcome measures in PFPS patients. Therefore, the aim of the present study was to compare the effectiveness of local exercise therapy and spinal manual therapy for knee pain, function and maximum voluntary peak force (MVPF) velocity of the quadriceps.
Methods

Forty-three patients with PFPS were randomly assigned to an intervention group. The local exercise group received six sessions of supervised training of the knee-and hip muscles with mobilization of the patellofemoral joint. The spinal manual therapy group received six interventions of high velocity low thrust manipulations at the thoracolumbar region, sacroiliac joint, and/or hip. Maximum, minimum and current pain were measured using the visual analogue scale. Function was assessed with the anterior knee pain scale (AKPS) and MPFV was recorded using a Biodex System 3 dynamometer. Patients were assessed before intervention, after 6 weeks of intervention and at 6 weeks follow-up.
Results

Pain and functionality improved more following spinal manipulative therapy than local exercise therapy. After 6 weeks of intervention the between-group difference (local versus spinal) for maximal pain was 23.4 mm [95% CI: 9.3, 37.6; effect size (ES): 1.04] and − 12.4 [95% CI: -20.2, -4.7; ES: 1.00] for the AKPS. At 6 weeks of follow-up the between-group difference for maximal pain was 18.7 mm [95% CI: 1.4, 36.0; ES: 0.68] and − 11.5 [95% CI: -19.9, -3.3; ES: -0.87] for the AKPS.
Conclusions

This study suggests that spinal manual therapy is more effective than local exercise therapy in improving pain and function in patients with PFPS in the medium term. Combining spinal manual therapy with local exercise therapy may be an important element in the successful rehabilitation of patients with PFPS.
Long non-coding RNA OIP5-AS1 aggravates acute lung injury through promoting inflammation and cell apoptosis via regulating miR-26a-5p/TLR4 axis
Authors: Sun Qingsong , Luo Man , Gao Zhiwei , Han Xiang , Wu Weiqin , Zhao Hongmei 
Published: March 2021

Abstract
Background: Acute lung injury (ALI) is a pulmonary disorder that leads to acute failure of respiration and thereby results in a high mortality worldwide. Increasing studies have verified that TLR4 is a promoter in ALI, however, the underlying upstream mechanisms of TLR4 was still rarely investigated. Methods: Lipopolysaccharide (LPS) was used to induce cell model and animal model. A wide range of experiments including RT-qPCR, Western blot, ELISA, flow cytometry, H&E staining, RIP, luciferase activity and caspase-3 activity were carried out to figure out the expression status, specific role and potential upstream mechanism of TLR4.Result: RT-qPCR identified that TLR4 expression was upregulated in ALI mice and LPS-induced WI-38 cells. Moreover, miR-26a-5p was confirmed to target TLR4 according to luciferase reporter assay. Besides, miR-26a-5p overexpression decreased the contents of proinflammatory factors (TNF-α and IL-1β) and restrained cell apoptosis, while upregulation of TLR4 reversed these effects of miR-26a-5p mimics, implying that miR-26a-5p alleviated ALI through regulating TLR4. Afterwards, OIP5-AS1 was identified to bind with miR-26a-5p by RNA immunoprecipitation (RIP) and luciferase reporter assay. Functionally, OIP5-AS1 upregulation accelerated the inflammation injuries and miR-26a-5p overexpression counteracted the influence of OIP5-AS1 upregulation on proinflammatory factors and cell apoptosis.Conclusion: OIP5-AS1 accelerated ALI through regulating miR-26a-5p/TLR4 axis in ALI mice and LPS-induced cells, which indicates a promising insight into diagnostics and therapeutics in ALI.