bluuebunny/crossref_metadata_2025 huggingface dataset:
The provenance and tectonic history of Dashwoods and the associated Baie Verte Margin during the Ordovician to Silurian
Authors: Zagorevski Alex , van Staal Cees Roelof , Joyce Nancy L.
Published: July 2023

Dashwoods is a composite peri-Laurentian terrane in Newfoundland and forms the basement to the Early Ordovician to Silurian Notre Dame arc. The southern part of Dashwoods is characterized by paragneiss that is intruded by Early Ordovician to Late Silurian plutons and affected by polyphase Taconic to Salinic deformation and high-grade metamorphism. The crystalline basement of Dashwoods is not exposed and pre-Middle Ordovician paragneiss is investigated herein to constrain the provenance of Dashwoods. SHRIMP U–Pb zircon analysis of the paragneiss yielded metamorphic rims ranging from
c.
500 to 395 Ma and abundant detrital grain cores ranging from
c.
1853 to 546 Ma. The presence of abundant Tonian dates differentiates Dashwoods from the adjacent Humber Margin in Newfoundland, and Hebridean and Grampian terranes in the British Isles. The detrital provenance of Dashwoods is most similar to the Baie Verte Margin in Newfoundland, and Tyrone Complex and Dalradian Supergroup in Ireland. These data suggest that Dashwoods and the Baie Verte Margin originated near the Rockall promontory and were subsequently emplaced outboard of the Humber Margin by Ordovician to Carboniferous motion along the Baie Verte–Brompton Line.
The Sea Point contact, Cape Town, South Africa: a geological site made famous by Charles Darwin's visit
Authors: Bailie Russell H. , Mhlanga Musa , Reinhardt Jürgen
Published: July 2023

The Sea Point intrusive contact on the Atlantic coast, South Africa, is a site of historical significance that continues to be useful for studying the details of granite–wall rock relationships, some of which have not been properly evaluated yet.

At a time when the origin of granites was still controversial, and the concept of contact metamorphism not yet properly developed, Charles Darwin visited the Sea Point contact to make some geologically important observations. He concluded that the granite originated as a magma deep in the Earth, intruded a country rock of sedimentary origin and changed this country rock's appearance owing to the thermal action of the hot granite magma. He also contemplated the long periods of time required to expose the rocks by erosion. Besides its historic value, the Sea Point heritage site exposes unique features giving rare insights into the physical and chemical interaction between intruding granitic magma and a regionally low-grade metamorphosed sedimentary sequence.

Questions regarding mechanisms of magmatic emplacement may be answered from this outcrop, including emplacement dynamics and interrelationships of various granitic phases, pre- versus syn-intrusive deformation and metamorphism, assimilation of country rock by a granitic magma and the origin of feldspar phenocrysts seemingly ‘stranded’ in the country rock.
A Universal Optimization Framework for Learning-based Image Codec
Authors: Zhao Jing , Li Bin , Li Jiahao , Xiong Ruiqin , Lu Yan
Published: July 2023

Recently, machine learning-based image compression has attracted increasing interests and is approaching the state-of-the-art compression ratio. But unlike traditional codec, it lacks a universal optimization method to seek efficient representation for different images. In this paper, we develop a plug-and-play optimization framework for seeking higher compression ratio, which can be flexibly applied to existing and potential future compression networks. To make the latent representation more efficient, we propose a novel latent optimization algorithm to adaptively remove the redundancy for each image. Additionally, inspired by the potential of side information for traditional codecs, we introduce side information into our framework, and integrate side information optimization with latent optimization to further enhance the compression ratio. In particular, with the joint side information and latent optimization, we can achieve fine rate control using only single model instead of training different models for different rate-distortion trade-offs, which significantly reduces the training and storage cost to support multiple bit rates. Experimental results demonstrate that our proposed framework can remarkably boost the machine learning-based compression ratio, achieving more than 10% additional bit rate saving on three different representative network structures. With the proposed optimization framework, we can achieve 7.6% bit rate saving against the latest traditional coding standard VVC on Kodak dataset, yielding the state-of-the-art compression ratio.
A Fast Object Detection-Based Framework for Via Modeling on PCB X-Ray CT Images
Authors: Koblah David Selasi , Botero Ulbert J. , Costello Sean P. , Dizon-Paradis Olivia P. , Ganji Fatemeh , Woodard Damon L. , Forte Domenic
Published: July 2023

For successful printed circuit board (PCB) reverse engineering (RE), the resulting device must retain the physical characteristics and functionality of the original. Although the applications of RE are within the discretion of the executing party, establishing a viable, non-destructive framework for analysis is vital for any stakeholder in the PCB industry. A widely regarded approach in PCB RE uses non-destructive x-ray computed tomography (CT) to produce three-dimensional volumes with several slices of data corresponding to multi-layered PCBs. However, the noise sources specific to x-ray CT and variability from designers hampers the thorough acquisition of features necessary for successful RE. This article investigates a deep learning approach as a successor to the current state-of-the-art for detecting vias on PCB x-ray CT images; vias are a key building block of PCB designs. During RE, vias offer an understanding of the PCB’s electrical connections across multiple layers. Our method is an improvement on an earlier iteration which demonstrates significantly faster runtime with quality of results comparable to or better than the current state-of-the-art, unsupervised iterative Hough-based method. Compared with the Hough-based method, the current framework is 4.5 times faster for the discrete image scenario and 24.1 times faster for the volumetric image scenario. The upgrades to the prior deep learning version include faster feature-based detection for real-world usability and adaptive post-processing methods to improve the quality of detections.
Exploring the Impact of Code Clones on Deep Learning Software
Authors: Mo Ran , Zhang Yao , Wang Yushuo , Zhang Siyuan , Xiong Pu , Li Zengyang , Zhao Yang
Published: July 2023

Deep learning (DL) is a really active topic in recent years. Code cloning is a common code implementation that could negatively impact software maintenance. For DL software, developers rely heavily on frameworks to implement DL features. Meanwhile, to guarantee efficiency, developers often reuse the steps and configuration settings for building DL models. These may bring code copy-pastes or reuses inducing code clones. However, there is little work exploring code clones’ impact on DL software. In this article, we conduct an empirical study and show that: (1) code clones are prevalent in DL projects, about 16.3% of code fragments encounter clones, which is almost twice larger than the traditional projects; (2) 75.6% of DL projects contain co-changed clones, meaning changes are propagated among cloned fragments, which can bring maintenance difficulties; (3) 
Percentage of the clones
and
Number of clone lines
are associated with the emergence of co-changes; (4) the prevalence of Code clones varies in DL projects with different frameworks, but the difference is not significant; (5) Type 1 co-changed clones often spread over different folders, but Types 2 and 3 co-changed clones mainly occur within the same files or folders; (6) 57.1% of all co-changed clones are involved in bugs.
Hydrous Transition Metal Oxides for Electrochemical Energy and Environmental Applications
Authors: Mitchell James B. , Chagnot Matthew , Augustyn Veronica
Published: July 2023

Hydrous transition metal oxides (TMOs) are redox-active materials that confine structural water within their bulk, organized in 1D, 2D, or 3D networks. In an electrochemical cell, hydrous TMOs can interact with electrolyte species not only via their outer surface but also via their hydrous inner surface, which can transport electrolyte species to the interior of the material. Many TMOs operating in an aqueous electrochemical environment transform to hydrous TMOs, which then serve as the electrochemically active phase. This review summarizes the physicochemical properties of hydrous TMOs and recent mechanistic insights into their behavior in electrochemical reactions of interest for energy storage, conversion, and environmental applications. Particular focus is placed on first-principles calculations and operando characterization to obtain an atomistic view of their electrochemical mechanisms. Hydrous TMOs represent an important class of energy and environmental materials in aqueous and nonaqueous environments. Further understanding of their interaction with electrolyte species is likely to yield advancements in electrochemical reactivity and kinetics for energy and environmental applications.
Thermodynamics Properties of (6, 6, 12)-Graphyne Structure Due to Biaxial Strain and Magnetic Field Effects
Authors: Rezania H. , Nourian E. , Abdi M. , Astinchap B.
Published: July 2023

In this paper, we apply a tight binding Hamiltonian model in the presence of magnetic field for investigation of the electronic and transport properties of (6, 6, 12)-graphyne layer. We have also considered the effects of in-plane biaxial strain on the electronic behavior of (6, 6, 12)-graphyne layer. Moreover the impact of strains on magnetic susceptibility and specific heat of the structure has been studied. Specially, the temperature dependence of static thermal conductivity of (6, 6, 12)-graphyne layer has been studied due to magnetic field and strain effects. We have exploited the linear response theory and Green’s function approach to obtain the temperature behavior of thermal conductivity, electrical conductivity and Seebeck coefficient. Our numerical results indicate, thermal conductivity increases upon increasing the temperature in the low amounts region. This fact comes from the increasing of thermal energy of charge carriers and excitation of them to the conduction bands. The temperature dependence of Seebeck coefficient shows that the thermopower of undoped (6, 6, 12)-graphyne layer gets positive sign on the whole range of temperatures in the absence of strain effects. The effects of both electron doping and magnetic field factors on temperature behavior of electrical conductivity of (6, 6, 12)-graphyne have been investigated in details. Moreover the effects of biaxial strain on thermal conductivity of single layer (6, 6, 12)-graphyne have been addressed.
V3: an enigmatic isoform of the proteoglycan versican
Authors: Wight Thomas N. , Day Anthony J. , Kang Inkyung , Harten Ingrid A. , Kaber Gernot , Briggs David C. , Braun Kathleen R. , Lemire Joan M. , Kinsella Michael G. , Hinek Aleksander , Merrilees Mervyn J.
Published: July 2023

V3 is an isoform of the extracellular matrix (ECM) proteoglycan (PG) versican generated through alternative splicing of the versican gene such that the two major exons coding for sequences in the protein core that support chondroitin sulfate (CS) glycosaminoglycan (GAG) chain attachment are excluded. Thus, versican V3 isoform carries no GAGs. A survey of PubMed reveals only 50 publications specifically on V3 versican, so it is a very understudied member of the versican family, partly because to date there are no antibodies that can distinguish V3 from the CS-carrying isoforms of versican, that is, to facilitate functional and mechanistic studies. However, a number of in vitro and in vivo studies have identified the expression of the V3 transcript during different phases of development and in disease, and selective overexpression of V3 has shown dramatic phenotypic effects in “gain and loss of function” studies in experimental models. Thus, we thought it would be useful and instructive to discuss the discovery, characterization, and the putative biological importance of the enigmatic V3 isoform of versican.
Cholesterol depletion decreases adhesion of non-small cell lung cancer cells to E-selectin
Authors: Mohammadalipour Amina , Showalter Christian A. , Muturi Harrison T. , Farnoud Amir M. , Najjar Sonia M. , Burdick Monica M.
Published: July 2023

This study investigates the effects of cholesterol on the adhesive behaviors of lung cancer cells in recruitment at metastatic sites. Using cholesterol-modulating compounds, we found that reducing cholesterol decreases the adhesion of non-small cell lung cancer (NSCLC) cells while having no significant effect on small cell lung cancer (SCLC) cells. The study suggests that cholesterol regulates NSCLC cell metastasis by redistributing the adhesion proteins on the cells and modulating cells’ membrane fluidity.
NKCC1 in human diseases: is the SLC12A2 gene haploinsufficient?
Authors: Delpire Eric , Koumangoye Rainelli
Published: July 2023

Mutations in the SLC12A2 gene, which encodes the Na-K-2Cl cotransporter-1 (NKCC1), are linked to various conditions such as neurodevelopmental deficits, deafness, and fluid secretion in different epithelia. Cases of complete NKCC1 deficiency in young patients are straightforward, leading to clinical presentations that overlap with the phenotypes observed in NKCC1 knockout mouse models. However, cases involving deleterious variants in one allele are more difficult, as the clinical presentation is variable, and the cause-effect relationship is not always clear. For instance, we worked on a single patient’s case from multiple angles and published six related papers to convince ourselves of the cause-and-effect relationship between her NKCC1 mutation and her clinical presentations. The cluster of mutations in a small portion of the carboxyl terminus and its association with deafness point to a cause-and-effect relationship, even if the molecular mechanism is unknown. Overall, the preponderance of evidence suggests that the SLC12A2 gene is a human disease-causing and likely haploinsufficient gene that requires further investigation.
Wireless Sensor Deployment Based on Multiobjective Adaptive Fish Migration Optimization
Authors: Xu Lin-Dong , Zheng Wei-Min , Chai Qing-Wei , Xu Li-Li , Geng Zhuang
Published: July 2023

Wireless Sensor Network (WSN) is a powerful tool to help humans monitor a specific area, and the deployment strategy of sensors profoundly determines the performance of WSN. How to find the best deployment method has become the research topic for many scholars. The deployment strategy aims to expand the deployment scope, reduce energy consumption, and reduce duplicate coverage areas. Many multiobjective heuristic algorithms have been proposed to solve this problem. This paper proposes a multiobjective adaptive fish migration optimization (MAFMO) algorithm, which adds an adaptive‐based repository and crowding degree‐selection strategy for multiobjective optimization. The simulation results reveal that the MAFMO algorithm has more advantages in malleability and distribution than other famous algorithms. Finally, the algorithm is applied to the WSN deployment problem, and the simulation results are compared with other algorithms. The results show that a better solution can be found using MAFMO.
Fat Embolization Syndrome Secondary to Steroid Treatment in a Case of Sickle Cell Vaso-Occlusive Crisis
Authors: Thirugnanasambandam Ram Prakash , Maraikayar Farish Mohamed , Liu Marie , Elbashir Khalid , Muthu John
Published: July 2023

Fat embolization syndrome (FES) is often seen as a complication of fractures and has been known to cause respiratory failure, rashes of the skin, thrombocytopenia, and neurological damage. Nontraumatic FES is uncommon and occurs due to bone marrow necrosis. Vaso-occlusive crisis in sickle cell patients secondary to steroid therapy is a rare entity and not widely acknowledged. We report a case of FES secondary to steroid therapy administered for a patient with intractable migraine. FES is an uncommon yet serious complication that occurs due to bone marrow necrosis and is usually associated with increased mortality or damaging neurologic sequelae for the surviving patient. Our patient was initially admitted for intractable migraine and worked up to rule out any acute emergency conditions. She was then given steroids for her migraine which did not subside with the initial treatment. Her condition worsened, and she developed respiratory failure along with altered mental status requiring care in the intensive care unit (ICU). Imaging studies showed microhemorrhages throughout the cerebral hemispheres, brainstem, and cerebellum. The imaging of her lungs confirmed severe acute chest syndrome. The patient also had hepatocellular and renal injuries indicative of multiorgan failure. The patient was treated with a red cell exchange transfusion (RBCx) leading to an almost complete recovery in a few days. The patient, however, had residual neurological sequelae with the presence of numb chin syndrome (NCS). This report thus highlights the need to recognize potential multiorgan failure secondary to steroid treatment and the importance of initiating treatment with red cell exchange transfusions to decrease the risk of such complications secondary to steroids.
Mineral Trioxide Aggregate as an Apexogenesis Agent for Complicated Crown Fractures in Young Permanent Incisor
Authors: Dubey Bibhav , Rathore Monika
Published: July 2023

Traumatic dental injuries are extremely common in children, and trauma to developing permanent teeth can disrupt root maturation; vital pulp therapy is an appropriate treatment for these teeth. This case report describes a 9-year-old boy who suffered dental trauma while playing football, resulting in an enamel–dentin fracture with pulp exposure in the left central incisor with an open apex (Cvek’s stage 3) and an enamel–dentin fracture in the right central incisor with an open apex (Cvek’s stage 3). Apexogenesis with mineral trioxide aggregate was performed to preserve the neurovascular bundle, allowing normal radicular formation in the left central incisor. During a 2-year follow-up, the tooth showed no signs and symptoms, and radiographic examinations revealed no evidence of radiolucent lesions in the periapical region. This case study provides compelling evidence that the utilization of the described agent yields significant efficacy in treating traumatic fractures accompanied by pulp exposure.
Simultaneous Multiplicative and Additive Actuator Faults Estimation‐Based Sliding Mode FTC for a Class of Uncertain Nonlinear System
Authors: Mabrouk Nabila , Ben Brahim Ali , Ben Hmida Fayçal
Published: July 2023

In this article, an adaptive sliding mode fault tolerant control (FTC) is improved in the case of uncertain nonlinear system which is affected by both multiplicative and additive faults in actuator. Especially, when the nonlinear system is modeled by Takagi–Sugeno (T‐S) fuzzy system with local nonlinear model. The main contribution of this paper is developing a model of multiplicative faults, which offers a more realistic dynamic evolution of the actuator degradation. The degradation process is modeled by Wiener process and estimated by the maximum likelihood estimation (MLE). Sliding mode observer (SMO) is conceived to realize the additive actuator faults using convex multiobjective optimization. On these bases, the estimated multiplicative and additive actuator faults are used to design the adaptive sliding mode controller (SMC). Finally, the proposed fault‐tolerant control scheme is demonstrated by the results of inverted pendulum system simulation.
Feasibility of Accurate Point Cloud Model Reconstruction for Earthquake-Damaged Structures Using UAV-Based Photogrammetry
Authors: Shan Jiazeng , Zhu Hongtao , Yu Runze
Published: July 2023

Camera-enabled unmanned aerial vehicles (UAVs) provide a promising technique to considerably speed up the inspection and visual data collection from regions that may otherwise be inaccessible. In addition, the technology of image-based 3D reconstruction can generate a point cloud model using images captured by UAVs. However, the performance of the point cloud modeling may be affected by multiple factors, such as the modeling software, ground control points (GCPs), and UAV flight modes. In this study, three common software packages were compared, and Pix4Dmapper was considered a suitable software for point cloud modeling for earthquake-damaged buildings. The accuracy and resolution of point cloud models are usually evaluated by root mean square error (RMSE) and ground sampling distance (GSD). The effects of the main factors, including the number of GCPs, distribution of GCPs, flight manner of the UAV, and distance from the UAV to the target, were investigated on the basis of two real-world multistory earthquake-damaged structures. The influence rules of the main factors revealed that a close range, automatic flight mode of the UAV, a large number of GCPs, and a relatively wide distribution of the GCPs may generate a point cloud model with low computational costs, high accuracy, and high resolution. In the particular illustration example here, the RMSE is 6.78 mm while the GSD is 1.60 mm. Finally, rapid structural damage inspection was demonstrated using an accurate point cloud model and compared with the inspection results of a total station and terrestrial laser scanner point cloud models. The comparison of different inspection results showed that the relative errors were relatively acceptable within 4%.
The Efficacy of Low-Kilovoltage X-Rays Intraoperative Radiation as Boost for Breast Cancer: A Systematic Review and Meta-Analysis
Authors: Fan Yuanjian , Chen Ruiwan , Lu Ying , Lin Ying , Zhang Yunjian , Shao Nan , Wang Shenming , Nie Dahong , Shan Zhen
Published: July 2023

Background. Intraoperative radiotherapy (IORT) is a novel promising technology that may replace external beam radiation therapy (EBRT) as boost for patients receiving breast-conserving surgery. To better evaluate the efficacy of IORT using low-kilovoltage (low-kV) X-rays as boost, we presented this meta-analysis according to the PRISMA checklist. Methods. Studies reported survival outcomes of intraoperative radiation using low-kilovoltage X-rays system (Intrabeam®, Carl Zeiss Meditec, Dublin, CA, USA) as boost were identified through electronic bibliographic database: PUBMED. The meta-analysis module in Stata (16.0) is used to pool the studies. A Poisson regression model is used to predict a 5-year local recurrence rate. Results. Twelve studies including 3006 cases were included in the final analysis, with a median follow-up of 55 months weighted by sample size. The pooled local recurrence rate is 0.39% per person-year (95% CI: 0.15%–0.71%), with a low degree of heterogeneity (

I

2

 = 0%). The predicted 5-year local recurrence rate was 3.45%. No difference in pooled local recurrence rate was found between non-neoadjuvant patients studies and neoadjuvant patients studies (0.41% per person-year vs. 0.58% per person-year,

P
=
0.580

). Conclusions. This study shows that low-kV IORT is an effective method as boost in breast cancer patients, with a low pooled local recurrence rate and low predicted 5-year local recurrence rate. Besides, no difference in the local recurrence rate was found between non-neoadjuvant patients studies and neoadjuvant patients studies. Low-kV IORT boost may be a promising alternative to EBRT boost in the future, which is being tested in the ongoing TARGIT-B trial.
Phase I trial of Ganitumab plus Dasatinib to Cotarget the Insulin-Like Growth Factor 1 Receptor and Src Family Kinase YES in Rhabdomyosarcoma
Authors: Akshintala Srivandana , Sundby R. Taylor , Bernstein Donna , Glod John W. , Kaplan Rosandra N. , Yohe Marielle E. , Gross Andrea M. , Derdak Joanne , Lei Haiyan , Pan Alexander , Dombi Eva , Palacio-Yance Isabel , Herrera Kailey R. , Miettinen Markku M. , Chen Helen X. , Steinberg Seth M. , Helman Lee J. , Mascarenhas Leo , Widemann Brigitte C. , Navid Fariba , Shern Jack F. , Heske Christine M.
Published: July 2023

Purpose:

Antibodies against insulin-like growth factor (IGF) type 1 receptor have shown meaningful but transient tumor responses in patients with rhabdomyosarcoma (RMS). The SRC family member YES has been shown to mediate IGF type 1 receptor (IGF-1R) antibody acquired resistance, and cotargeting IGF-1R and YES resulted in sustained responses in murine RMS models. We conducted a phase I trial of the anti–IGF-1R antibody ganitumab combined with dasatinib, a multi-kinase inhibitor targeting YES, in patients with RMS (NCT03041701).

Patients and Methods:

Patients with relapsed/refractory alveolar or embryonal RMS and measurable disease were eligible. All patients received ganitumab 18 mg/kg intravenously every 2 weeks. Dasatinib dose was 60 mg/m2/dose (max 100 mg) oral once daily [dose level (DL)1] or 60 mg/m2/dose (max 70 mg) twice daily (DL2). A 3+3 dose escalation design was used, and maximum tolerated dose (MTD) was determined on the basis of cycle 1 dose-limiting toxicities (DLT).

Results:

Thirteen eligible patients, median age 18 years (range 8–29) enrolled. Median number of prior systemic therapies was 3; all had received prior radiation. Of 11 toxicity-evaluable patients, 1/6 had a DLT at DL1 (diarrhea) and 2/5 had a DLT at DL2 (pneumonitis, hematuria) confirming DL1 as MTD. Of nine response-evaluable patients, one had a confirmed partial response for four cycles, and one had stable disease for six cycles. Genomic studies from cell-free DNA correlated with disease response.

Conclusions:

The combination of dasatinib 60 mg/m2/dose daily and ganitumab 18 mg/kg every 2 weeks was safe and tolerable. This combination had a disease control rate of 22% at 5 months.
Supplementary Tables S1-S5 from Targeting the Clear Cell Sarcoma Oncogenic Driver Fusion Gene EWSR1::ATF1 by HDAC Inhibition
Authors: Mae Hirokazu , Outani Hidetatsu , Imura Yoshinori , Chijimatsu Ryota , Inoue Akitomo , Kotani Yuki , Yasuda Naohiro , Nakai Sho , Nakai Takaaki , Takenaka Satoshi , Okada Seiji
Published: July 2023

Supplementary Table S1;List of resources (antibodies, primers, siRNA).

Supplementary Table S2;DEG analysis of scRNA-seq data.

Supplementary Table S3;Upregulated GO terms of BP.

Supplementary Table S4;Downregulated GO terms of BP.

Supplementary Table S5;Motif enrichment calculated by FindMotifs tool.
Supplementary Figure S4 from Targeting the Clear Cell Sarcoma Oncogenic Driver Fusion Gene EWSR1::ATF1 by HDAC Inhibition
Authors: Mae Hirokazu , Outani Hidetatsu , Imura Yoshinori , Chijimatsu Ryota , Inoue Akitomo , Kotani Yuki , Yasuda Naohiro , Nakai Sho , Nakai Takaaki , Takenaka Satoshi , Okada Seiji
Published: July 2023

Fig. S4 The SOX10 knockdown and overexpression efficiency.
Supplementary Figure S3 from Targeting the Clear Cell Sarcoma Oncogenic Driver Fusion Gene EWSR1::ATF1 by HDAC Inhibition
Authors: Mae Hirokazu , Outani Hidetatsu , Imura Yoshinori , Chijimatsu Ryota , Inoue Akitomo , Kotani Yuki , Yasuda Naohiro , Nakai Sho , Nakai Takaaki , Takenaka Satoshi , Okada Seiji
Published: July 2023

Fig. S3 Mivebresib (ABBV-075) inhibited cell viability of CCS cells and lowered expression of EWSR1::ATF1.
FIGURE 5 from Targeting the Clear Cell Sarcoma Oncogenic Driver Fusion Gene EWSR1::ATF1 by HDAC Inhibition
Authors: Mae Hirokazu , Outani Hidetatsu , Imura Yoshinori , Chijimatsu Ryota , Inoue Akitomo , Kotani Yuki , Yasuda Naohiro , Nakai Sho , Nakai Takaaki , Takenaka Satoshi , Okada Seiji
Published: July 2023

SOX10 regulates the expression of EWSR1::ATF1. A, CCS cells were treated with 0, 0.3, 1.0, 3.0, or 10.0 μmol/L vorinostat for 24 hours. SOX10 protein expression levels were estimated via Western blotting. Loading controls are identical to those shown in Fig. 4A. B, CCS cells were treated with 0 or 3 μmol/L vorinostat for 24 hours. SOX10 mRNA expression levels in CCS cells were quantified using qPCR (normalized to GAPDH; n = 3). C, EWSR1::ATF1 protein expression levels of MP-CCS-SY and SU-CCS1 cells 48 hours after SOX10 knockdown were detected via Western blotting. D,EWSR1::ATF1 mRNA expression levels of MP-CCS-SY and SU-CCS1 cells 48 hours after SOX10 knockdown were quantified using qRT-PCR (normalized to GAPDH; n = 3). E, Genome browser screenshot of the epigenome maps at EWSR1. Tracks visualize CUT&RUN-seq data for SOX10 (n = 2), and scATAC-seq data are shown for treatments with 3 μmol/L vorinostat or vehicle for 24 hours. Blue highlights indicate the inserted DNA regions used in the reporter assay. F, Relative EWSR1 promoter activity of MP-CCS-SY and SU-CCS1 cells 48 hours after SOX10 knockdown was measured with a reporter assay (n = 3). G, Proliferation of CCS cells after SOX10 knockdown was measured using a WST-8 assay during 1–4 days of culture. H, EWSR1::ATF1 mRNA expression levels of MP-CCS-SY and SU-CCS1 cells 48 hours after SOX10 overexpression. I, Relative EWSR1 promoter activity of MP-CCS-SY and SU-CCS1 cells 24 hours after SOX10 overexpression was measured with a reporter assay (n = 3). J, Proliferation of CCS cells after SOX10 overexpression was measured using a WST-8 assay during 1–4 days of culture. K, MP-CCS-SY and SU-CCS1 cells after SOX10 knockdown or not were treated with vorinostat at 1 μmol/L. Relative cell viability was assessed after 48 hours by WST-8 assay. L, MP-CCS-SY and SU-CCS1 cells after SOX10 overexpression or not were treated with vorinostat at 1 μmol/L. Relative cell viability was assessed after 48 hours by WST-8 assay. M, MP-CCS-SY and SU-CCS1 cells after SOX10 overexpression or not were treated with vorinostat at 1 μmol/L. Relative EWSR1::ATF1 mRNA expression levels were quantified using qRT-PCR (normalized to GAPDH; n = 3). Data in B, D, F–M are means ± SDs. *, P < 0.05; **, P < 0.01; ns, nonsignificant (Student t test).
Supplementary Methods S1 from Validation of Immunotherapy Response Score as predictive of pan-solid tumor anti-PD-1/PD-L1 benefit
Authors: Bulen Benjamin J , Khazanov Nickolay A , Hovelson Daniel H. , Lamb Laura E , Matrana Marc , Burkard Mark E , Yang Eddy Shih-Hsin , Edenfield William J. , Claire Dees Elizabeth , Onitilo Adedayo A. , Buchschacher Gary L , Miller Alan M , Parsons Benjamin M. , Wassenaar Timothy R. , Suga Jennifer M. , Siegel Robert D , Irvin William , Nair Suresh , Slim Jennifer N. , Misleh Jamal , Khatri Jamil , Masters Gregory A , Thomas Sachdev , Safa Malek M. , Anderson Daniel M. , Mowers Jonathan , Dusenbery Anna C , Drewery Stephanie , Plouffe Komal , Reeder Travis , Vakil Hana , Patrias Lynnae , Falzetta Amanda , Hamilton Ryan , Kwiatkowski Kat , Johnson D. Bryan , Rhodes Daniel R , Tomlins Scott A.
Published: July 2023

Supplementary Methods S1 shows the additional methods and references supporting the main manuscript
Supplementary Figure S1 from Clinically defined mutations in MEN1 alter its tumor-suppressive function through increased menin turnover
Authors: Duan Suzann , Sheriff Sulaiman , Elvis-Offiah Uloma B. , Witten Brandon L , Sawyer Travis W. , Sundaresan Sinju , Cierpicki Tomasz , Grembecka Jolanta , Merchant Juanita L.
Published: July 2023

Supplementary Figure 1
Supplementary Data S1 from Validation of Immunotherapy Response Score as predictive of pan-solid tumor anti-PD-1/PD-L1 benefit
Authors: Bulen Benjamin J , Khazanov Nickolay A , Hovelson Daniel H. , Lamb Laura E , Matrana Marc , Burkard Mark E , Yang Eddy Shih-Hsin , Edenfield William J. , Claire Dees Elizabeth , Onitilo Adedayo A. , Buchschacher Gary L , Miller Alan M , Parsons Benjamin M. , Wassenaar Timothy R. , Suga Jennifer M. , Siegel Robert D , Irvin William , Nair Suresh , Slim Jennifer N. , Misleh Jamal , Khatri Jamil , Masters Gregory A , Thomas Sachdev , Safa Malek M. , Anderson Daniel M. , Mowers Jonathan , Dusenbery Anna C , Drewery Stephanie , Plouffe Komal , Reeder Travis , Vakil Hana , Patrias Lynnae , Falzetta Amanda , Hamilton Ryan , Kwiatkowski Kat , Johnson D. Bryan , Rhodes Daniel R , Tomlins Scott A.
Published: July 2023

Supplementary Data S1 shows the REMARK checklist for the study
Data from Validation of Immunotherapy Response Score as predictive of pan-solid tumor anti-PD-1/PD-L1 benefit
Authors: Bulen Benjamin J , Khazanov Nickolay A , Hovelson Daniel H. , Lamb Laura E , Matrana Marc , Burkard Mark E , Yang Eddy Shih-Hsin , Edenfield William J. , Claire Dees Elizabeth , Onitilo Adedayo A. , Buchschacher Gary L , Miller Alan M , Parsons Benjamin M. , Wassenaar Timothy R. , Suga Jennifer M. , Siegel Robert D , Irvin William , Nair Suresh , Slim Jennifer N. , Misleh Jamal , Khatri Jamil , Masters Gregory A , Thomas Sachdev , Safa Malek M. , Anderson Daniel M. , Mowers Jonathan , Dusenbery Anna C , Drewery Stephanie , Plouffe Komal , Reeder Travis , Vakil Hana , Patrias Lynnae , Falzetta Amanda , Hamilton Ryan , Kwiatkowski Kat , Johnson D. Bryan , Rhodes Daniel R , Tomlins Scott A.
Published: July 2023

Abstract
Immunotherapy Response Score (IRS) integrates tumor mutation burden (TMB) and quantitative expression biomarkers to predict anti-PD-1/PD-L1 (PD-[L]1) monotherapy benefit. Here, we evaluated IRS in additional cohorts. Patients from an observational trial (NCT03061305) treated with anti-PD-(L)1 monotherapy were included and assigned to IRS-High (-H) vs. -Low (-L) groups. Associations with real-world progression free survival (rwPFS) and overall survival (OS) were determined by Cox proportional hazards (CPH) modeling. Those with available PD-L1 immunohistochemistry treated with anti-PD-(L)1 with or without chemotherapy were separately assessed. Patients treated with PD-(L)1 and/or chemotherapy (five relevant tumor types) were assigned to three IRS groups (IRS-L divided into IRS-Ultra-Low [-UL] and Intermediate-Low [-IL] and similarly assessed. In the 352 patient anti-PD-(L)1 monotherapy validation cohort (31 tumor types), IRS-H vs. IRS-L patients had significantly longer rwPFS and OS. IRS significantly improved CPH associations with rwPFS and OS beyond microsatellite instability (MSI)/TMB alone. In a 189 patient (10 tumor types) PD-L1 IHC comparison cohort, IRS, but not PD-L1 IHC nor TMB, was significantly associated with anti-PD-L1 rwPFS. In a 1,103-patient cohort (from five relevant tumor types), rwPFS did not significantly differ in IRS-UL patients treated with chemotherapy vs. chemotherapy plus anti-PD-(L)1, nor in IRS-H patients treated with anti-PD-(L)1 vs. anti-PD-(L)1 + chemotherapy. IRS associations were consistent across subgroups, including both Europeans and non-Europeans. These results confirm the utility of IRS utility for predicting pan-solid tumor PD-(L)1 monotherapy benefit beyond available biomarkers and demonstrate utility for informing on anti-PD-(L)1 and/or chemotherapy treatment.
A Resurgence of Cooperation between Scientists and Laypersons
Authors:   University of Tartu, Campana Piva Heidi
Published: July 2023

After a long period during which the involvement of laypersons was considered undesirable in the Western tradition of science, we have recently witnessed numerous collaborations which suggest that the desirability of societal involvement in the scientific practice is becoming recognized. This article argues that the historical considerations that once led to this division in cognitive labour have been in transformation, having undergone diverse shifts. In a first instance, the exclusion of laypersons from science is analysed in terms of the key concepts of systematicity, universality, and authority. For that, two examples are given: the case of the British photographic survey and that of the American Museum of Natural History. Next, the dissolution of these barriers between scientists and laypersons is discussed and illustrated by examples: the Dystrophic Epidermolysis Bullosa Research Association in Austria, Fukushima nuclear monitoring stations, and the French Association of Muscular Dystrophy. It is concluded that, for science to be truly democratized, co-produced knowledge needs to be integrated in political decision-making processes, which is currently still lacking. Furthermore, since expertise can also be found in society, non-certified experts should work in conjunction with scientists, yet at the same time, the divide between experts and non-experts must be maintained. The inclusion of non-scientific experts in decision-making is fundamentally different from the inclusion of lay stakeholders. Hence, different participatory roles should be expected from stakeholders, experts, or scientists, and the most important challenge now is how to formally define such roles.
Fault tolerance of a quadrotor via feedback linearization approach
Authors: Jebelli Ali , Najafiyanfar Alireza , Mahabadi Arezoo , E. Yagoub Mustapha C.
Published: July 2023

A control algorithm is proposed to efficiently control the state, position, and height of a nonlinear dynamic model of a quadcopter. Based on feedback linearization, a state space model is presented for the system with the controller with a two-loop control structure designed and implemented in it. The inner and faster controller is responsible for adjusting the quadcopter height and angles, and the outer and slower controller is responsible for changing the desired figures of roll and pitch angles to control the system position. Whenever a rotor of the quadcopter rotor fails, the status and position of the system are converged and the system is stabilized. Simulation results based on different scenarios indicate the proper performance of the control system whenever there are external disturbances. Note that the gyroscopic effects because of the propeller rotation were not considered.
Designing and implementing a multi-function board to increase the operation time of mobile robots using solar panels
Authors: Jebelli Ali , Mahabadi Arezoo
Published: July 2023

Today, the use of mobile robots and autonomous vehicles has increased due to their use in various industries, and their performance and duration of operation largely depend on the amount of energy consumed and their batteries. One of the ways to increase the operation time of robots is the use of solar panels that can charge their batteries while moving, but the amount of energy received from solar panels reduces their efficiency due to factors affecting them, such as the angle of the sun, weather conditions, and their use in mobile robots alone is not recommended. In this research, we introduce an electric circuit with very low losses to increase the received power of solar panels and increase their efficiency, which is able to supply the power of the robot through solar panels when the sunlight and the angle of radiation are suitable and charge the batteries through the maximum power point controller (MPPC), and by reducing the amount of energy received from the panels by changing the energy source to the battery, the duration of the system’s dependence on the battery has decreased, which increases the duration of the mobile robots.
CURe-Mi mobile manipulator robot for contact-less COVID-19 patients serving missions
Authors: Rokhim Ismail , Ramadhan Nur Jamiludin , Najakh Zainun
Published: July 2023

Since March 2020, coronavirus disease (COVID-19) has become a major global concern. Even in an emergency, medical personnel should avoid contact with COVID-19 patients. Mobile manipulators are a non-contact alternative to medical personnel for performing healthcare tasks such as distributing supplies to COVID-19-quarantined patients. In this study, patients use an Android application to order mobile manipulator robots, which include the Collaborative Manipulator Robot UR5e and the autonomous mobile robot MiR200 (abbreviated and referred to as CURe-Mi). The HTTP protocol is used for communication between the Android application and the robot. The experiment was conducted in a small room with several tables and bottles used to simulate hospital rooms and medications. The delivery testing results show that all four items were delivered successfully. The results of the manipulator robot and mobile robot movement accuracy tests show that the average error is 0.213 and 4.51 cm, respectively. The Android application performance test demonstrates that the application successfully sends commands to the mobile manipulator robot within its maximum range of 1,800 cm. The CURe-Mi mobile manipulator robot has successfully assisted medical personnel in handling several contactless COVID-19 patients serving missions.
Vector-logic computing for faults-as-address deductive simulation
Authors: Gharibi Wajeb , Hahanov Vladimir , Chumachenko Svetlana , Litvinova Eugenia , Hahanov Ivan , Hahanova Irina
Published: July 2023

The aim of the research is to create logic-free vector computing, leveraging read-write transactions in memory, to solve the problems of modeling and simulation stuck-at-fault combinations for complex logic elements and digital structures. At the same time, the problem of creating smart data structures based on logical vectors, truth tables, and deductive matrices is considered to simplify algorithms for parallel stuck-at-fault simulation. Vector computing is a computational process based on read-write transactions on bits of a binary vector of functionality, where the input data and faults are the addresses of the bits. A method for the synthesis of deductive vectors for propagating input fault lists is proposed, which has a quadratic computational complexity of read-write transactions. Deductive vectors, combined into a quadratic matrix, represent explicit data structures for parallel simulation of single and multiple stuck-at-faults. The initial information for constructing a deductive matrix is a logical vector and a bit-recoding matrix. Matrix is easily obtained using a recursive procedure based on the combinatorial properties of the truth table. Considering emerging trends, focused on in-memory computing, an algorithm for fault, as addresses, simulation is proposed, using logical and deductive vectors placed in memory. The simulation algorithm is proposed not to use commands of powerful processors.
Examining Extreme Rainfall Forecast and Communication Processes in the South-Central United States
Authors: Wanless Anna C. , Riley Rachel E.
Published: July 2023

Extreme rainfall events are hazardous and costly. They have increased in parts of the United States, and climate models project that trend to continue. Effective communication of potential threats and impacts associated with extreme rainfall events is one of the foci of a weather forecaster’s job and aligns with the National Weather Service (NWS)’s mission to protect life and property. This research investigated how NWS forecasters processed and communicated information about extreme rainfall events that occurred in the south-central United States between 2015 and 2019. The study also explored forecasters’ perceptions of the relationship between the events and climate change and whether those perceptions impacted the forecasts, including how forecast information was communicated. Semistructured interviews were conducted with 21 NWS forecasters about how they internally processed and externally communicated model outliers and anomalous rainfall events. Thematic analysis of the interview data identified components of sensemaking and decision-making conceptual frameworks as well as principles of forecasting. These components were then combined to create an extreme event forecast communication process model to illustrate the findings. Although forecast and communication processes are complex and vary between offices and forecasters, the communication process model presents a high-level conceptualization of how forecasters translate highly technical and disparate material into usable information for their audiences within the context of rare meteorological events.

Significance Statement

This study presents an extreme event forecast communication process model that helps to explain how National Weather Service forecasters process and communicate extreme rainfall events. Forecasters were interviewed about their experience with extreme rainfall events. Effective communication of such events is important because they can lead to significant, and sometimes deadly, impacts. In the future, the extreme event forecast communication process model might provide a framework for best practices and be incorporated into forecaster training materials. Additional research is needed to determine whether the model applies to regions outside the south-central United States.
Institutional Creation as a Local Governance Response to Syrian Refugees: The Case of Turkish Municipalities
Authors: Yavçan Başak , Memişoğlu Fulya
Published: July 2023

External shocks constitute ideal moments for exploring the creation of new institutions as well as changes within existing ones. This paper treats the influx of Syrian refugees into Turkish urban centers as a critical juncture and investigates the changes in the local governance bodies as a result. Based on interviews and focus group discussions with administrative and nongovernmental actors involved in the local response to refugees, we explore the factors that contributed to the emergence of new institutions within municipalities and their institutionalization as bodies able to resist changes of municipal mayors across elections. We investigate how the newly created institutions matter for refugee policy response in looking at various host cities before and after the 2019 local elections. We argue that actual change in the way institutions operate takes place in municipalities (and their respective departments within) that have managed to institutionalize their refugee response through innovative and sustainable policy initiatives that can spill over to areas of policymaking other than refugee response, which invest in building capacity and multilevel partnerships.
Deterring Migration in Times of Crises: The Ethics of Behavioral Change in Migration Information Campaigns
Authors: Majidi Nassim
Published: July 2023

The European migration “crisis” has led to new policy and funding mechanisms, such as the European Trust Fund for Africa and funding from the UK Home Office that have in common a dual, and often contradictory, objective: to support migrant protection, while reinforcing a migration management or migration control agenda. They have given flexibility, in a context of “crisis response,” to a range of actors with different levels of responsibilities and of transparency when reaching out to migrants, at times to the detriment of one aspect (the respect for human rights) for the benefit of another (irregular migration control), and with questionable results. This article provides an analysis of one program implemented in Ethiopia and Afghanistan: an information campaign implemented between 2016 and 2019, with a focus on behavioral change among potential migrants. This case study reveals practices in migration information campaigns that go against existing standards in social and behavioral communications campaigns. Building on such standards, the article provides a critical lens through which to assess migration information campaigns, through the prism of three criteria outlined in the paper and used to evaluate the results of the program, and provides a way forward for setting standards in planning and implementating migration information campaigns.