bluuebunny/crossref_metadata_2025 huggingface dataset:
Study on Osmotic Consolidation and Hydraulic Conductivity Behavior of an Expansive Soil Inundated with Sodium Chloride Solution
Authors: Sathyapriya S. , Sharvesh R. , Karthik V. , Periyasamy Selvakumar , Sundramurthy Venkatesa Prabhu
Published: July 2023

Canals are a very imperative source of irrigation for the agricultural sector in India. Seepage causes major water loss in canals, and hence, the installation of liners becomes necessary. Compacted clay soils are commonly used as liners in the canals. This structure will most probably be subjected to salinization and desalinization cycles throughout its life. Because of the interaction between the pore liquid and clay particles, physico-chemical influences considerably impact the behavior of clay barriers. In this paper, the effect of interacting fluid on volume change, consolidation parameters, and hydraulic conductivity of compacted clay soil is investigated with the help of a one-dimensional consolidation test. The compacted clay specimens were immersed alternatively with distilled water (DW) and sodium chloride (NaCl) solutions (SW) at constant loading of 10 kPa, which replicates the load conditions in the field canal due to 1 m head of water and incremental loading as per IS 2720 part 15 standards. The experimental results proved that there is a percentage volume change increase of about two times for each stage inundated with 4M NaCl solution than its preceding stages inundated with distilled water at constant loading of 10 kPa. The consolidation rate was accelerated with 4M NaCl solution than the normal consolidation at incremental loading. The permeability coefficient in the salt water-induced sample increased by 217% more than the distilled water-induced sample at incremental loading. Therefore, the soil specimen subjected to alternate salinization and desalinization cycles significantly affects the volumetric and consolidation behavior, leading to decreased life of clay barrier structures.
Data from HSA Adductomics Reveals Sex Differences in NHL Incidence and Possible Involvement of Microbial Translocation
Authors: Grigoryan Hasmik , Imani Partow , Sacerdote Carlotta , Masala Giovanna , Grioni Sara , Tumino Rosario , Chiodini Paolo , Dudoit Sandrine , Vineis Paolo , Rappaport Stephen M.
Published: July 2023

Abstract
Background: The higher incidence of non-Hodgkin’s lymphoma (NHL) in males is not well understood. Although reactive oxygen species (ROS) have been implicated as causes of NHL, they cannot be measured directly in archived blood.

Methods: We performed untargeted adductomics of stable ROS adducts in human serum albumin (HSA) from 67 incident NHL cases and 82 matched controls from the EPIC-Italy cohort. Regression and classification methods were employed to select features associated with NHL in all subjects and in males and females separately.

Results: Sixty seven HSA-adduct features were quantified by liquid chromatography-high-resolution mass spectrometry at Cys34 (n=55) and Lys525 (n=12). Three features were selected for association with NHL in all subjects, while seven were selected for males and five for females with minimal overlap. Two selected features were more abundant in cases and seven in controls, suggesting that altered homeostasis of ROS may affect NHL incidence. Heatmaps revealed differential clustering of features between sexes, suggesting differences in operative pathways.

Conclusions: Adduct clusters dominated by Cys34 oxidation products and disulfides further implicate ROS and redox biology in the etiology of NHL. Sex differences in dietary and alcohol consumption also help to explain the limited overlap of feature selection between sexes. Intriguingly, a disulfide of methanethiol from enteric microbial metabolism was more abundant in male cases, thereby implicating microbial translocation as a potential contributor to NHL in males.

Impact: Only two of the ROS adducts associated with NHL overlapped between sexes and one adduct implicates microbial translocation as a risk factor.
Supplementary Table 5 from Activating Inducible T cell Co-stimulator (ICOS) yields anti-tumor activity alone and in combination with anti-PD-1 checkpoint blockade
Authors: Yadavilli Sapna , Waight Jeremy D , Brett Sara , Bi Meixia , Zhang Tianqian , Liu Yao-Bin , Ellis Catherine , Turner David C , Hahn Ashleigh , Shi Hong , Seestaller-Wehr Laura , Jing Junping , Xie Qing , Shaik Jafar Sadik , Ji Xiao , Gagnon Robert , Fieles William , Hook Laura , Grant Steven , Hopley Stephanie , DeYoung M. Phillip , Blackwell Christina , Chisamore Michael , Biddlecombe Robert , Figueroa David J , Hopson Christopher B , Srinivasan Roopa , Smothers James , Maio Michele , Rischin Danny , Olive Daniel , Paul Elaine , Mayes Patrick A. , Hoos Axel , Ballas Marc
Published: July 2023

Pearson correlation (r) analysis of ICOS versus PD-L1 (CD274) in different tumor type.
Supplementary Table 4 from Activating Inducible T cell Co-stimulator (ICOS) yields anti-tumor activity alone and in combination with anti-PD-1 checkpoint blockade
Authors: Yadavilli Sapna , Waight Jeremy D , Brett Sara , Bi Meixia , Zhang Tianqian , Liu Yao-Bin , Ellis Catherine , Turner David C , Hahn Ashleigh , Shi Hong , Seestaller-Wehr Laura , Jing Junping , Xie Qing , Shaik Jafar Sadik , Ji Xiao , Gagnon Robert , Fieles William , Hook Laura , Grant Steven , Hopley Stephanie , DeYoung M. Phillip , Blackwell Christina , Chisamore Michael , Biddlecombe Robert , Figueroa David J , Hopson Christopher B , Srinivasan Roopa , Smothers James , Maio Michele , Rischin Danny , Olive Daniel , Paul Elaine , Mayes Patrick A. , Hoos Axel , Ballas Marc
Published: July 2023

Table S4
Figure S5 from Activator protein-1 (AP-1) signaling inhibits the growth of Ewing sarcoma cells in response to DNA replication stress
Authors: Croushore Emma E. , Koppenhafer Stacia L. , Goss Kelli L. , Geary Elizabeth L. , Gordon David J.
Published: July 2023

Gemcitabine resistant cell lines.
Supplementary Table 3 from Activating Inducible T cell Co-stimulator (ICOS) yields anti-tumor activity alone and in combination with anti-PD-1 checkpoint blockade
Authors: Yadavilli Sapna , Waight Jeremy D , Brett Sara , Bi Meixia , Zhang Tianqian , Liu Yao-Bin , Ellis Catherine , Turner David C , Hahn Ashleigh , Shi Hong , Seestaller-Wehr Laura , Jing Junping , Xie Qing , Shaik Jafar Sadik , Ji Xiao , Gagnon Robert , Fieles William , Hook Laura , Grant Steven , Hopley Stephanie , DeYoung M. Phillip , Blackwell Christina , Chisamore Michael , Biddlecombe Robert , Figueroa David J , Hopson Christopher B , Srinivasan Roopa , Smothers James , Maio Michele , Rischin Danny , Olive Daniel , Paul Elaine , Mayes Patrick A. , Hoos Axel , Ballas Marc
Published: July 2023

Gene expression in human T-cell
Figure S4 from Activator protein-1 (AP-1) signaling inhibits the growth of Ewing sarcoma cells in response to DNA replication stress
Authors: Croushore Emma E. , Koppenhafer Stacia L. , Goss Kelli L. , Geary Elizabeth L. , Gordon David J.
Published: July 2023

Short-term gemcitabine drug treatment.
Supplementary Table 2 from Activating Inducible T cell Co-stimulator (ICOS) yields anti-tumor activity alone and in combination with anti-PD-1 checkpoint blockade
Authors: Yadavilli Sapna , Waight Jeremy D , Brett Sara , Bi Meixia , Zhang Tianqian , Liu Yao-Bin , Ellis Catherine , Turner David C , Hahn Ashleigh , Shi Hong , Seestaller-Wehr Laura , Jing Junping , Xie Qing , Shaik Jafar Sadik , Ji Xiao , Gagnon Robert , Fieles William , Hook Laura , Grant Steven , Hopley Stephanie , DeYoung M. Phillip , Blackwell Christina , Chisamore Michael , Biddlecombe Robert , Figueroa David J , Hopson Christopher B , Srinivasan Roopa , Smothers James , Maio Michele , Rischin Danny , Olive Daniel , Paul Elaine , Mayes Patrick A. , Hoos Axel , Ballas Marc
Published: July 2023

Table S2
Figure S1 from Activator protein-1 (AP-1) signaling inhibits the growth of Ewing sarcoma cells in response to DNA replication stress
Authors: Croushore Emma E. , Koppenhafer Stacia L. , Goss Kelli L. , Geary Elizabeth L. , Gordon David J.
Published: July 2023

Dependency of Ewing sarcoma cells on RRM1 and RRM2.
Supplementary Figure S8 from LNS8801 inhibits Acute Myeloid Leukemia by inducing the production of reactive oxygen species and activating the endoplasmic reticulum stress pathway
Authors: Lee Inyoung , Doepner Miriam , Weissenrieder Jillian S , Majer Ariana D , Mercado Sophia , Estell Angela , Natale Christopher A , Sung Pamela J , Foskett J. Kevin , Carroll Martin , Ridky Todd W
Published: July 2023

Supplementary Figure S8. LNS8801 depletes Mcl-1 in AML cells while not altering other Bcl-2 family proteins (A and B) (A) Western blot of pro-apoptotic proteins from U937 cells treated with 250nM LNS8801 as a time course. (B) Western blot of anti-apoptotic proteins treated with 250nM LNS8801 for 24 hours.
Supplementary Figure 6 from Activating Inducible T cell Co-stimulator (ICOS) yields anti-tumor activity alone and in combination with anti-PD-1 checkpoint blockade
Authors: Yadavilli Sapna , Waight Jeremy D , Brett Sara , Bi Meixia , Zhang Tianqian , Liu Yao-Bin , Ellis Catherine , Turner David C , Hahn Ashleigh , Shi Hong , Seestaller-Wehr Laura , Jing Junping , Xie Qing , Shaik Jafar Sadik , Ji Xiao , Gagnon Robert , Fieles William , Hook Laura , Grant Steven , Hopley Stephanie , DeYoung M. Phillip , Blackwell Christina , Chisamore Michael , Biddlecombe Robert , Figueroa David J , Hopson Christopher B , Srinivasan Roopa , Smothers James , Maio Michele , Rischin Danny , Olive Daniel , Paul Elaine , Mayes Patrick A. , Hoos Axel , Ballas Marc
Published: July 2023

Feladilimab-mediated ICOS co-stimulation results in differential
phenotypic changes and cytokine production in CD4+ non-Treg and Treg populations.
Supplementary Figure S3 from LNS8801 inhibits Acute Myeloid Leukemia by inducing the production of reactive oxygen species and activating the endoplasmic reticulum stress pathway
Authors: Lee Inyoung , Doepner Miriam , Weissenrieder Jillian S , Majer Ariana D , Mercado Sophia , Estell Angela , Natale Christopher A , Sung Pamela J , Foskett J. Kevin , Carroll Martin , Ridky Todd W
Published: July 2023

Supplementary Figure S3. GPER expression grossly does not correlate with AML outcome and mutation status (A) GPER expression stratified by ELN2017. (B) GPER expression stratified by FLT3-ITD mutation status. (C) GPER expression stratified by different AML fusion proteins. All data were acquired from the BEAT-AML dataset. P-values were calculated via one-way ANOVA multiple comparisons (*p=<0.05, **p=<0.01, ***p=<0.001, ****p=<0.0001).
Supplementary Figure 10 from Activating Inducible T cell Co-stimulator (ICOS) yields anti-tumor activity alone and in combination with anti-PD-1 checkpoint blockade
Authors: Yadavilli Sapna , Waight Jeremy D , Brett Sara , Bi Meixia , Zhang Tianqian , Liu Yao-Bin , Ellis Catherine , Turner David C , Hahn Ashleigh , Shi Hong , Seestaller-Wehr Laura , Jing Junping , Xie Qing , Shaik Jafar Sadik , Ji Xiao , Gagnon Robert , Fieles William , Hook Laura , Grant Steven , Hopley Stephanie , DeYoung M. Phillip , Blackwell Christina , Chisamore Michael , Biddlecombe Robert , Figueroa David J , Hopson Christopher B , Srinivasan Roopa , Smothers James , Maio Michele , Rischin Danny , Olive Daniel , Paul Elaine , Mayes Patrick A. , Hoos Axel , Ballas Marc
Published: July 2023

Rationale for combination of feladilimab with anti–PD-1
blockade.
TABLE 1 from A Th1-like CD4+ T-cell Cluster That Predicts Disease-free Survival in Early-stage Lung Cancer
Authors: Yanagihara Akitoshi , Yamasaki Satoshi , Hashimoto Kosuke , Taguchi Ryo , Umesaki Tetsuya , Imai Hisao , Kaira Kyoichi , Nitanda Hiroyuki , Sakaguchi Hirozo , Ishida Hironori , Kobayashi Kunihiko , Horimoto Katsuhisa , Kagamu Hiroshi
Published: July 2023

Patient characteristics
FIGURE 3 from A Th1-like CD4+ T-cell Cluster That Predicts Disease-free Survival in Early-stage Lung Cancer
Authors: Yanagihara Akitoshi , Yamasaki Satoshi , Hashimoto Kosuke , Taguchi Ryo , Umesaki Tetsuya , Imai Hisao , Kaira Kyoichi , Nitanda Hiroyuki , Sakaguchi Hirozo , Ishida Hironori , Kobayashi Kunihiko , Horimoto Katsuhisa , Kagamu Hiroshi
Published: July 2023

CD8+ T-cell clusters in TILs. A, Representative cell-level molecular expression using tSNE figures by mass cytometry analysis of gated CD8+CD3+ TILs and peripheral blood cells. B, FlowSOM annotation using CD45RA, CD62L, and CCR7 expression is shown.
FIGURE 2 from A Th1-like CD4+ T-cell Cluster That Predicts Disease-free Survival in Early-stage Lung Cancer
Authors: Yanagihara Akitoshi , Yamasaki Satoshi , Hashimoto Kosuke , Taguchi Ryo , Umesaki Tetsuya , Imai Hisao , Kaira Kyoichi , Nitanda Hiroyuki , Sakaguchi Hirozo , Ishida Hironori , Kobayashi Kunihiko , Horimoto Katsuhisa , Kagamu Hiroshi
Published: July 2023

CD4+ T-cell clusters in TILs. A, TIL T cells were analyzed by mass cytometry. TIL and preoperative peripheral blood T-cell data were compiled, processed by clustering into 10 clusters, and then annotated on the basis of CXCR3, CCR4, CCR6, and FoxP3 expression. B, Representative annotation of TIL-tSNE using CXCR3, CCR4, CCR6, and FoxP3, comparison of the percentage of CD62Llow CD4+ T cells between peripheral blood and TIL, and pie chart showing the average percentage of TIL-CD4+ T-cell clusters are shown. C, Volcano plot of the differential expression analysis between the TIL-Th7R and TIL-Th1 clusters derived from scRNA-seq analysis. Genes with FDR (adjusted P value) < 0.02 and fold change > 1.5 are represented by red dots. Genes with positive log2 fold change were highly expressed in TIL-Th7R.
Supplementary Figure 5 from Metronomic Administration of Topotecan Alone and in Combination with Docetaxel Inhibits Epithelial–mesenchymal Transition in Aggressive Variant Prostate Cancers
Authors: Mitra Ghosh Taraswi , Mazumder Suman , Davis Joshua , Yadav Jyoti , Akinpelu Ayuba , Alnaim Ahmed , Kumar Harish , Waliagha Razan , Church Bird Allison E. , Rais-Bahrami Soroush , Bird R. Curtis , Mistriotis Panagiotis , Mishra Amarjit , Yates Clayton C. , Mitra Amit K. , Arnold Robert D.
Published: July 2023

Supplementary Fig. 5 shows Ingenuity pathway analysis (IPA) predictions for common DEGs among RNAseq vs. scRNAseq in all PCa cell lines IPA predicted A) Diseases and biological pathways for common DGEs. Major pathways are cell invasion, movement, neoplasia, migration, transformation, metastatic and growth B) Causal network pathway for common DEGS include LY2109761 (TGF-β receptor inhibitor), IGF2R (receptor for both insulin-like growth factor 2), IL11RA (cytokine), SEMG2 (semenogelin proteins), CCR2 (chemokine receptor type 2), TRAF3IP3 (mediates cell growth by modulating the c-Jun N-terminal kinase signal transduction pathway), GGTI-2154 (inhibitor of geranylgeranyltransferase I ), L778123 (inhibitor of FPTase and GGPTase-I), TGFB1 and CXCL5. C) upstream regulators for common DEGs were THBF1, RAF1, AGT, ER receptor, OSM, SLC15A4, JUN, and IL1B D) Canonical pathways for common DEGs were s100 family, Hepatic fibrosis, Rho family, RHOGDI and integrin singling pathway.
Data from Activating Inducible T cell Co-stimulator (ICOS) yields anti-tumor activity alone and in combination with anti-PD-1 checkpoint blockade
Authors: Yadavilli Sapna , Waight Jeremy D , Brett Sara , Bi Meixia , Zhang Tianqian , Liu Yao-Bin , Ellis Catherine , Turner David C , Hahn Ashleigh , Shi Hong , Seestaller-Wehr Laura , Jing Junping , Xie Qing , Shaik Jafar Sadik , Ji Xiao , Gagnon Robert , Fieles William , Hook Laura , Grant Steven , Hopley Stephanie , DeYoung M. Phillip , Blackwell Christina , Chisamore Michael , Biddlecombe Robert , Figueroa David J , Hopson Christopher B , Srinivasan Roopa , Smothers James , Maio Michele , Rischin Danny , Olive Daniel , Paul Elaine , Mayes Patrick A. , Hoos Axel , Ballas Marc
Published: July 2023

Abstract
In recent years there has been considerable interest in monoclonal antibody (mAb)-based induction of co-stimulatory receptor signaling as an approach to combat cancer. However, promising nonclinical data have yet to translate to a meaningful clinical benefit. Inducible T cell co-stimulator (ICOS) is a co-stimulatory receptor important for immune responses. Using a novel clinical-stage anti-ICOS immunoglobulin G4 mAb (feladilimab), which induces but does not deplete ICOS+ T cells and their rodent analogs, we provide an end-to-end evaluation of the antitumor potential of antibody-mediated ICOS co-stimulation alone and in combination with programmed cell death protein 1 (PD-1) blockade. We demonstrate, consistently, that ICOS is expressed in a range of cancers, and its induction can stimulate growth of antitumor reactive T cells. Further, feladilimab, alone and with a PD-1 inhibitor, induced antitumor activity in mouse and humanized tumor models. In addition to nonclinical evaluation, we present three patient case studies from a first-time-in-human, phase 1, open label, dose escalation and dose expansion clinical trial (INDUCE-1; ClinicalTrials.gov: NCT02723955), evaluating feladilimab alone and in combination with pembrolizumab in patients with advanced solid tumors. Preliminary data showing clinical benefit in patients with cancer treated with feladilimab alone or in combination with pembrolizumab was reported previously; with example cases described here. Additional work is needed to further validate the translation to the clinic, which includes identifying select patient populations that will benefit from this therapeutic approach, and randomized data with survival endpoints to illustrate its potential, similar to that shown with CTLA-4 and PD-1 blocking antibodies.
Diagnostic potential of myocardial early systolic lengthening for patients with suspected non-ST-segment elevation acute coronary syndrome
Authors: Zhang Wanwei , Cai Qizhe , Lin Mingming , Tian Runyu , Jin Shan , Qin Yunyun , Lu Xiuzhang
Published: July 2023

Background

During early systole, ischemic myocardium with reduced active force experiences early systolic lengthening (ESL). This study aimed to explore the diagnostic potential of myocardial ESL in suspected non-ST-segment elevation acute coronary syndrome (NSTE-ACS) patients with normal wall motion and left ventricular ejection fraction (LVEF).

Methods

Overall, 195 suspected NSTE-ACS patients with normal wall motion and LVEF, who underwent speckle tracking echocardiography (STE) before coronary angiography, were included in this study. Patients were stratified into the coronary artery disease (CAD) group when there was ≥ 50% stenosis in at least one major coronary artery. The CAD patients were further stratified into the significant (≥ 70% reduction of vessel diameter) stenosis group or the nonsignificant stenosis group. Myocardial strain parameters, including global longitudinal strain (GLS), duration of early systolic lengthening (DESL), early systolic index (ESI), and post-systolic index (PSI), were analyzed using STE and compared between groups. Receiver operating characteristic curve (ROC) analysis was performed to determine the diagnostic accuracy. Logistic regression analysis was conducted to establish the independent and incremental determinants for the presence of significant coronary stenosis.

Results

The DESL and ESI values were higher in patients with CAD than those without CAD. In addition, CAD patients with significant coronary stenosis had higher DESL and ESI than those without significant coronary stenosis. The ROC analysis revealed that ESI was superior to PSI for identifying patients with CAD, and further superior to GLS and PSI for predicting significant coronary stenosis. Moreover, ESI could independently and incrementally predict significant coronary stenosis in patients with CAD.

Conclusions

The myocardial ESI is of great value for the diagnosis and risk stratification of clinically suspected NSTE-ACS patients with normal LVEF and wall motion.
Homelessness in the district of Nipissing of Ontario, Canada before, at the onset and during the COVID-19 pandemic: a trend analysis (2018–2021)
Authors: Odd Megan , Erfani Amir
Published: July 2023

Background

Homelessness is a growing social concern experienced across Canada. In Ontario, specifically in the District of Nipissing, the issue has become larger with an increasing number of homeless individuals. Previous research has described the demographic composition of the homeless population both in the Nipissing District of Ontario and in the city of North Bay. However, no studies have examined homelessness in this region before, at the beginning and during the COVID-19 pandemic. This research investigates structural and individual-level barriers and factors that are associated with becoming homeless or remaining homeless.

Methods

This study utilizes data from the 2018 (n = 147), 2020 (n = 254), and 2021 (n = 207) homelessness enumeration surveys, conducted in the District of Nipissing, Ontario by the District of Nipissing Social Services Administration Board. This study employs quantitative, descriptive analyses to examine trends and socio-demographic variations in the reasons of homelessness, barriers to housing, episodic and chronic homelessness before, at the beginning, and during the COVID-19 pandemic.

Results

The results revealed a rise in the proportion of male homeless (57% vs. 64%), and first-time homelessness among those aged 35–44 (3%, vs. 15%) and 55–64 (1% vs. 5%) at the onset and during the pandemic. The sleep location of homeless individuals was also influenced by the pandemic, where emergency shelter use dropped to half during 2020–2021(33% vs. 17%), while the use of locations (hotel/motels) where proper pandemic protocols and social distancing were possible increased sharply from 2 to 12% of homeless individuals. With the onset of the pandemic, chronic homelessness and one-episodic homelessness increased, suggesting that individuals are becoming homeless and staying homeless for prolonged periods. The barriers to housing during the pandemic were largely addiction, substance use and the inaccessibility of safe and secure rental units, while the corresponding barriers before the pandemic were mainly low income.

Conclusions

The rise in male homelessness, age at first-time homelessness and interpersonal conflict causing homelessness at the onset and during the pandemic suggest that policy makers need to focus on providing homeless supports to these groups of homeless populations at the time of pandemic.
Molecular epidemiology of non-falciparum Plasmodium infections in three different areas of the Ivory Coast
Authors: Miezan Assohoun J. S. , Gnagne Akpa P. , Bedia-Tanoh Akoua V. , Kone Estelle G. M. , Konate-Toure Abibatou A. , Angora Kpongbo E. , Bosson-Vanga Abo H. , Kassi Kondo F. , Kiki-Barro Pulchérie C. M. , Djohan Vincent , Menan Hervé E. I. , Yavo William
Published: July 2023

Background

Malaria is a major public health problem, particularly in the tropical regions of America, Africa and Asia. Plasmodium falciparum is not only the most widespread but also the most deadly species. The share of Plasmodium infections caused by the other species (Plasmodium ovale and Plasmodium malariae) is clearly underestimated. The objective of the study was to determine the molecular epidemiology of plasmodial infection due to P. malariae and P. ovale in Côte d'Ivoire.

Methods

The study was cross-sectional. The study participants were recruited from Abengourou, San Pedro and Grand-Bassam. Sample collection took place from May 2015 to April 2016. Questionnaires were administered and filter paper blood samples were collected for parasite DNA extraction. The molecular analysis was carried out from February to March 2021. A nested PCR was used for species diagnosis. The data was presented in frequencies and proportions.

Results

A total of 360 patients were recruited, including 179 men (49,7%) for 181 women (50,3%). The overall Plasmodium positive rate was 72.5% (261/360). The specific index was 77.4% and 1.5% for P. falciparum and P. malariae in mono-infection, respectively. There was also 15% P. falciparum and P. malariae co-infection, 3.4% P. falciparum and P. ovale co-infection and 2.3% P. falciparum, P. malariae and P. ovale triple-infection. Typing of P. ovale subspecies showed a significant predominance of P. ovale curtisi (81.2% of cases).

Conclusion

Plasmodium falciparum remains the most prevalent malaria species in Côte d'Ivoire, but P. malariae and P. ovale are also endemic mostly in co-infection. Malaria elimination requires a better understanding of the specific epidemiological characteristics of P. malariae and P. ovale with a particular emphasis on the identification of asymptomatic carriers.
Multimodal prehabilitation in patients with non-small cell lung cancer undergoing anatomical resection: protocol of a non-randomised feasibility study
Authors: Molenaar Charlotte Johanna Laura , Von Meyenfeldt Erik Martin , de Betue Carlijn Tini Ireen , van den Berg Rosaline , ten Cate David Wouter Gerard , Schep Goof , Youssef-El Soud Magdolen , van Thiel Eric , Rademakers Nicky , Hoornweg Sanne Charlotte , Slooter Gerrit Dirk , van den Broek Frank , Marres Geertruid Marie Heleen ,   Dutch Prehab Lung Research Group, van de Voort Loes , de Kort Frank , de Jongh Chris , van Erven Cathrin , Staffeleu–Noodelijk Mirjam , Driessen Els , van de Wal Marieke , de Graaff Netty , van Limpt Anouk , Scholten-Bakker Maaike
Published: July 2023

Background

The preoperative period can be used to enhance a patient’s functional capacity with multimodal prehabilitation and consequently improve and fasten postoperative recovery. Especially, non-small cell lung cancer (NSCLC) surgical patients may benefit from this intervention, since the affected and resected organ is an essential part of the cardiorespiratory fitness. Drafting a prehabilitation programme is challenging, since many disciplines are involved, and time between diagnosis of NSCLC and surgery is limited. We designed a multimodal prehabilitation programme prior to NSCLC surgery and aimed to conduct a study to assess feasibility and indicative evidence of efficacy of this programme. Publication of this protocol may help other healthcare facilities to implement such a programme.

Methods

The multimodal prehabilitation programme consists of an exercise programme, nutritional support, psychological support, smoking cessation, patient empowerment and respiratory optimisation. In two Dutch teaching hospitals, 40 adult patients with proven or suspected NSCLC will be included. In a non-randomised fashion, 20 patients follow the multimodal prehabilitation programme, and 20 will be assessed in the control group, according to patient preference. Assessments will take place at four time points: baseline, the week before surgery, 6 weeks postoperatively and 3 months postoperatively. Feasibility and indicative evidence of efficacy of the prehabilitation programme will be assessed as primary outcomes.

Discussion

Since the time between diagnosis of NSCLC and surgery is limited, it is a challenge to implement a prehabilitation programme. This study will assess whether this is feasible, and evidence of efficacy can be found. The non-randomised fashion of the study might result in a selection and confounding bias. However, the control group may help putting the results of the prehabilitation group in perspective. By publishing this protocol, we aim to facilitate others to evaluate and implement a multimodal prehabilitation programme for surgical NSCLC patients.

Trial registration

The current study is registered as NL8080 in the Netherlands Trial Register on the 10th of October 2019, https://www.trialregister.nl/trial/8080. Secondary identifiers: CCMO (Central Committee on Research Involving Human Subjects) number NL70578.015.19, reference number of the Medical Ethical Review Committee of Máxima MC W19.045.
The application of Aptamer in biomarker discovery
Authors: Li Yongshu , TAM Winnie Wailing , Yu Yuanyuan , Zhuo Zhenjian , Xue Zhichao , Tsang Chiman , Qiao Xiaoting , Wang Xiaokang , Wang Weijing , Li Yongyi , Tu Yanyang , Gao Yunhua
Published: July 2023

Biomarkers are detectable molecules that can reflect specific physiological states of cells, organs, and organisms and therefore be regarded as indicators for specific diseases. And the discovery of biomarkers plays an essential role in cancer management from the initial diagnosis to the final treatment regime. Practically, reliable clinical biomarkers are still limited, restricted by the suboptimal methods in biomarker discovery. Nucleic acid aptamers nowadays could be used as a powerful tool in the discovery of protein biomarkers. Nucleic acid aptamers are single-strand oligonucleotides that can specifically bind to various targets with high affinity. As artificial ssDNA or RNA, aptamers possess unique advantages compared to conventional antibodies. They can be flexible in design, low immunogenicity, relative chemical/thermos stability, as well as modifying convenience. Several SELEX (Systematic Evolution of Ligands by Exponential Enrichment) based methods have been generated recently to construct aptamers for discovering new biomarkers in different cell locations. Secretome SELEX-based aptamers selection can facilitate the identification of secreted protein biomarkers. The aptamers developed by cell-SELEX can be used to unveil those biomarkers presented on the cell surface. The aptamers from tissue-SELEX could target intracellular biomarkers. And as a multiplexed protein biomarker detection technology, aptamer-based SOMAScan can analyze thousands of proteins in a single run. In this review, we will introduce the principle and workflow of variations of SELEX-based methods, including secretome SELEX, ADAPT, Cell-SELEX and tissue SELEX. Another powerful proteome analyzing tool, SOMAScan, will also be covered. In the second half of this review, how these methods accelerate biomarker discovery in various diseases, including cardiovascular diseases, cancer and neurodegenerative diseases, will be discussed.
Phase II Study of Olaparib and Temozolomide for Advanced Uterine Leiomyosarcoma (NCI Protocol 10250)
Authors: Ingham Matthew , Allred Jacob B. , Chen Li , Das Biswasjit , Kochupurakkal Bose , Gano Katherine , George Suzanne , Attia Steven , Burgess Melissa A. , Seetharam Mahesh , Boikos Sosipatros A. , Bui Nam , Chen James L. , Close Julia L. , Cote Gregory M. , Thaker Premal H. , Ivy S. Percy , Bose Sminu , D'Andrea Alan , Marino-Enriquez Adrian , Shapiro Geoffrey I. , Schwartz Gary K.
Published: July 2023

PURPOSE

Uterine leiomyosarcoma (uLMS) is an aggressive subtype of soft-tissue sarcoma with frequent metastatic relapse after curative surgery. Chemotherapy provides limited benefit for advanced disease. Multiomics profiling studies have identified homologous recombination deficiency in uLMS. In preclinical studies where olaparib and temozolomide provided modest activity, the combination was highly effective for inhibiting uLMS tumor growth.

PATIENTS AND METHODS

NCI Protocol 10250 is a single-arm, open-label, multicenter, phase II study evaluating olaparib and temozolomide in advanced uLMS. Patients with progression on ≥1 prior line received temozolomide 75 mg/m2 orally once daily with olaparib 200 mg orally twice a day both on days 1-7 in 21-day cycles. The primary end point was the best objective response rate (ORR) within 6 months. A one-stage binomial design was used. If ≥5 of 22 responded, the treatment would be considered promising (93% power; α = .06). All patients underwent paired biopsies that were evaluated with whole-exome sequencing (WES)/RNAseq and a RAD51 foci formation assay.

RESULTS

Twenty-two patients were evaluable. The median age was 55 years, and 59% had received three or more prior lines. Best ORR within 6 months was 23% (5 of 22). The overall ORR was 27% (6 of 22). The median progression-free survival (mPFS) was 6.9 months (95% CI, 5.4 months to not estimable). Hematologic toxicity was common (grade 3/4 neutropenia: 75%; thrombocytopenia: 32%) but manageable with dose modification. Five of 16 (31%) of tumors contained a deleterious homologous recombination gene alteration by WES, and 9 of 18 (50%) were homologous recombination-deficient by the RAD51 assay. In an exploratory analysis, mPFS was prolonged for patients with homologous recombination-deficient versus homologous recombination-proficient tumors (11.2 v 5.4 months, P = .05) by RAD51.

CONCLUSION

Olaparib and temozolomide met the prespecified primary end point and provided meaningful clinical benefit in patients with advanced, pretreated uLMS.
Zoonotic gastrointestinal nematodes in pet cats in Yogyakarta (Indonesia) and their susceptibility to anthelmintics
Authors: WIDIYONO IRKHAM , RUSMIHAYATI RUSMIHAYATI , PURNAMANINGSIH HARY , SAHARA ANA
Published: July 2023

Abstract. Widiyono I, Rusmihayati, Purnamaningsih H, Sahara A. 2023. Zoonotic gastrointestinal nematodes in pet cats in Yogyakarta (Indonesia) and their susceptibility to anthelmintics. Biodiversitas 24: 3332-3337. Domestic cats (Felis catus Linnaeus, 1758), which live close to humans, can host some zoonotic nematodes. Therefore, a study on gastrointestinal nematodes in domestic cats and their anthelmintic resistance is essential for controlling and preventing zoonotic nematodiasis. Our goal was to investigate the diversity of gastrointestinal nematodes in pet cats in Yogyakarta and their susceptibility to anthelmintics. One hundred seventy-four (174) out of 215 cat patients (80.93%) presented at the animal clinic of the Department of Internal Medicine, Faculty of Veterinary Medicine, Universitas Gadjah Mada, Yogyakarta, Indonesia, and suspected gastrointestinal parasite infections suffered from nematodiasis. Ninety-eight (98) animals suffering from moderate to severe gastrointestinal nematodiasis with Egg Per Gram feces (EPG) >300 were included into nematode identification, clinical analyses, and evaluation of nematode susceptibility to anthelmintics. The animals were divided in three treatment groups, namely pyrantel pamoate at the dose of 5 mg/kg BW orally on D0 (OP), subcutaneous injection of ivermectin at the dose of 200 µg/kg BW on day 0 (SCI), and no medication as a Control (C). Fecal samples were collected on day 0 and 10 for parasitological examinations. The results showed that pet cats were infected with Toxocara sp. and Ancylostoma sp., with the incidence of single infection by Toxocara sp., Ancylostoma sp., and mixed infection at 50%, 36.73%, and 13.27%, respectively. The animals were clinically healthy or showing clinical signs, e.g., anorexia, diarrhea, vomiting, and dull hair. Pyrantel pamoate and ivermectin showed >98% efficacy against these nematodes. In conclusion, there were two zoonotic gastrointestinal nematodes in pet cats in Yogyakarta, namely Ancylostoma and Toxocara, which still showed high susceptibility to pyrantel pamoate and ivermectin.
Identification of bacterial isolates of Tumpang and Bumiasri (East Java, Indonesia) using 16S rRNA gene sequencing and screening of their active compounds as a biofertilizer
Authors: PRIHARTIN INDAH , ISMAIL AKHIS SOLEH , SUKORINI HENIK , NURSANDI FATIMAH , ZAKIA AULIA , FARAHDINA FARUSA ANGGITA RISYAWAL
Published: July 2023

Abstract. Prihartin I, Ismail AS, Sukorini H, Nursandi F, Zakia A, Farahdina FAR. 2023. Identification of bacterial isolates of Tumpang and Bumiasri (East Java, Indonesia) using 16S rRNA gene sequencing and screening of their active compounds as a biofertilizer. Biodiversitas 24: 3338-3343. The objective of the study was to identify Tumpang (TPG) and Bumiasri (BAS) isolates using 16S rRNA gene sequencing and screen-on biofertilizer active-compounds. Research materials used in the study were bacterial isolates of TPG isolated from Tumpang area and BAS isolated from Bumiasri area, East Java, Indonesia. The variables observed was isolate identification using 16S-rRNA gene and screen for active compounds for biofertilizer using liquid chromatography tandem-mass spectrometry (LC-MS/MS-QTOF). The biofertilizer composed of mineral mix (P, K, Fe, Mg and S), rice-straw extract, water and TPG isolate as C1 Biofertilizer and BAS as C2 Biofertilizer. The sequencing results of TPG isolates obtained DNA sequences that resembled the bacterium Lysinibacillus fusiformis with a similarity of 99%, while BAS isolate resembled the bacterium Lysinibacillus macroides with a similarity of 99%. These genes sequences have been submitted to GenBank under the bacterial names L. fusiformis BIP-211 and L. macroides BIP-212 respectively. The LC-MS/MS-QTOF screening result shows that the C1 biofertilizer contain benzoic-acid compound, 4-(butylamino), methoxycinnamyl P-coumarate. Futhermore, betaine (glycine betaine) and benzoic-acid 4-(butylamino) was identified in C2. So, the TPG and BAS isolates was confirmed as L. fusiformis BIP-211 and L. macroides BIP-212 respectively. The both C1 and C2 biofertilizer consists two active-compounds.
OPTICAL COHERENCE TOMOGRAPHY AND OPTICAL COHERENCE TOMOGRAPHY ANGIOGRAPHY IN OPHTHALMOLOGY
Authors:   Military Institute of Aviation Medicine, Warsaw, Poland, Paczwa Katarzyna , Gołębiewska Joanna ,   Military Institute of Aviation Medicine, Warsaw, Poland
Published: July 2023

Abstract: Optical coherence tomography is a non-invasive method of imagining the anterior and the posterior segment of the eye. It is commonly used in ophthalmic practice to diagnose and monitor various pathologies of the eyeball. Optical coherence tomography angiography (OCTA) is a useful tool to visualize the entire retinal and choroidal microvasculature, allowing the assessment of retinal perfusion without intravenous dye administration.
Analysis of lung cancer risk factors from medical records in Ethiopia using machine learning
Authors: Endalie Demeke , Abebe Wondmagegn Taye
Published: July 2023

Cancer is a broad term that refers to a wide range of diseases that can affect any part of the human body. To minimize the number of cancer deaths and to prepare an appropriate health policy on cancer spread mitigation, scientifically supported knowledge of cancer causes is critical. As a result, in this study, we analyzed lung cancer risk factors that lead to a highly severe cancer case using a decision tree-based ranking algorithm. This feature relevance ranking algorithm computes the weight of each feature of the dataset by using split points to improve detection accuracy, and each risk factor is weighted based on the number of observations that occur for it on the decision tree. Coughing of blood, air pollution, and obesity are the most severe lung cancer risk factors out of nine, with a weight of 39%, 21%, and 14%, respectively. We also proposed a machine learning model that uses Extreme Gradient Boosting (XGBoost) to detect lung cancer severity levels in lung cancer patients. We used a dataset of 1000 lung cancer patients and 465 individuals free from lung cancer from Tikur Ambesa (Black Lion) Hospital in Addis Ababa, Ethiopia, to assess the performance of the proposed model. The proposed cancer severity level detection model achieved 98.9%, 99%, and 98.9% accuracy, precision, and recall, respectively, for the testing dataset. The findings can assist governments and non-governmental organizations in making lung cancer-related policy decisions.
Physical activity, sedentary behavior and pancreatitis risk: Mendelian randomization study
Authors: Ling Ruiqi , Liang Juan , Mo Shaojian , Qi Jiabao , Fu Xifeng , Tian Yanzhang
Published: July 2023

Background

Although observational studies have shown that physical activity is a protective factor for acute pancreatitis, the causal associations between PA/ sedentary behavior and acute pancreatitis (AP) and chronic pancreatitis (CP) remain unclear.

Methods

We used Mendelian randomization as a strategy to assess the causalities between exposures and outcomes by simulating randomized experiments with genetic variation. The collected genetic variants data of physical activity were from UK Biobank, the data on sedentary behavior were also from UK Biobank, and both of them could be found in the GWAS catalog, and the data on AP and CP were from FinnGen. There were three physical activity related activity patterns (moderate to vigorous physical activity [MVPA], accelerometer-based physical activity with average acceleration, [AccAve] and accelerometer-based physical activity with accelerations >425 milli-gravities, [Acc425]) and three sedentary behavior-related lifestyle patterns (Leisure screen time [LST], Sedentary commuting, Sedentary behavior at work). We used inverse variance weighted (IVW), weighted median and MR-Egger for the analysis of Mendelian randomization, followed by sensitivity tests with the Cochran Q test, MR-Egger intercepts analysis and MR-PRESSO.

Results

A causal relationship was found between LST and acute pancreatitis based on IVW analysis (odds ratios [OR] = 1.38, corresponding 95% confidence intervals [CI] = 1.16–1.64, p = 0.0002) and there were no causal relationships between physical activity/sedentary behavior and chronic pancreatitis. Sensitivity analysis showed no pleiotropy and heterogeneity of the results.

Conclusions

Results show that reducing LST contributes to the prevention of acute pancreatitis, thereby reducing the health burden associated with it.
Analysis of Word Formation Process in Register Used by English and Indonesian Football Commentary
Authors: Sundari Wiwiek , Faizal M. Muhammad
Published: July 2023

This study examines the use of register and word-formation in football commentary, focusing on Indonesian and English commentators. With European countries being the center of the football industry, studying the commentary from these languages can provide insights for other countries, including Indonesia. The aim of this research is to identify the application of register and classify word-formation patterns in Indonesian and English football commentary. Linguistic theories from experts such as George Yule, Katamba, O’Grady and Guzman, and Stockwell and Minkova are utilized. A descriptive qualitative research method is employed, analyzing video documentation of matches using Simak Bebas Libat Cakap (SLBC) to collect data. The findings reveal 78 word formations in both Indonesian and English commentary, with compounding and coinage being the most frequent processes. The word-formation analysis found compounding, coinage, borrowing, derivation, reduplication, and abbreviation. Differences and similarities are observed in terms of word usage, word-formation patterns, and the background factors influencing them.
Studying infant mortality: A demographic analysis based on data mining models
Authors: Satti Muhammad Islam , Ali Mir Wajid , Irshad Azeem , Shah Mohd Asif
Published: July 2023

Child mortality, particularly among infants below 5 years, is a significant community well-being concern worldwide. The health sector’s top priority in emerging states is to minimize children’s death and enhance infant health. Despite a substantial decrease in worldwide deaths of children below 5 years, it remains a significant community well-being concern. Children under five years of age died at 37 per 1,000 live birth globally in 2020. However, in underdeveloped countries such as Pakistan and Ethiopia, the fatality rate of children per 1,000 live birth is 65.2 and 48.7, respectively, making it challenging to reduce. Predictive analytics approaches have become well-known for predicting future trends based on previous data and extracting meaningful patterns and connections between parameters in the healthcare industry. As a result, the objective of this study was to use data mining techniques to categorize and highlight the important causes of infant death. Datasets from the Pakistan Demographic Health Survey and the Ethiopian Demographic Health Survey revealed key characteristics in terms of factors that influence child mortality. A total of 12,654 and 12,869 records from both datasets were examined using the Bayesian network, tree (J-48), rule induction (PART), random forest, and multi-level perceptron techniques. On both datasets, various techniques were evaluated with the aforementioned classifiers. The best average accuracy of 97.8% was achieved by the best model, which forecasts the frequency of child deaths. This model can therefore estimate the mortality rates of children under five years in Ethiopia and Pakistan. Therefore, an online model to forecast child death based on our research is urgently needed and will be a useful intervention in healthcare.
Predictive modeling of adverse drug reactions to tamoxifen therapy for breast cancer on base of pharmacogenomic testing
Authors: Golubenko Ekaterina Olegovna , Savelyeva Marina Ivanovna , Sozaeva Zhannet Alimovna , Korennaya Vera Vyacheslavovna , Poddubnaya Irina Vladimirovna , Valiev Timur Tejmurazovich , Kondratenko Svetlana Nikolaevna , Ilyin Mikhail Vitalyevich
Published: July 2023

Objectives

The present study investigated the analysis of adverse drug reactions (ADRs) to tamoxifen (TAM) in breast cancer patients in relation to the carriage of genetic polymorphisms of genes encoding enzymes of CYP system and transporters of P-glycoprotein (Pg) and predictive models based on it.

Methods

A total of 120 women with breast cancer taking adjuvant TAM were examined for the gene polymorphisms such as CYP2D6*4, CYP3A5*3, CYP2C9*2, CYP2C9*3, CYP2C19*2, CYP2C19*3 and ABCB1 (C3435T). Allelic variants were determined using the real-time polymerase chain reaction method. The research material was double sampling of buccal epithelium. Medical history data and extracts from case histories were used as sources of medical information, on the basis of which questionnaires specially created by us were filled out.

Results

An associative analysis showed association with the development of ADRs to TAM indicating their clinical significance from different genetic polymorphisms of CYP2D6, CYP3A5, CYP2C9 and ABCB1. The complex associative analysis performed using mathematical modeling made it possible to build predictive risk models for the development of ADRs such as hot flashes, dyspepsia, bone pain, and asthenia.

Conclusions

Models that include both genetic and non-genetic determinants of ADRs of TAM may further improve the prediction of individual response to TAM.
Comparison of L1 and L5 GPS smartphone absolute positioning results
Authors: Uradziński Marcin , Bakuła Mieczysław
Published: July 2023

The paper presents the analysis of single-point GPS positioning results obtained from smartphones, using code observations on the L1 and L5 frequencies. In this research we used two Huawei P30 Pro mobile phones and one geodetic receiver (Javad Alpha) acting as the reference receiver. Smartphones were placed at an equal distance of 0.5 m from this receiver. Such a close distance was specially planned by the authors in order to achieve identical observation conditions. Thus, it was possible to compare the accuracy of GPS positioning using pseudoranges on the L1 and L5 frequencies for individual observation epochs. The analysis was carried out from static GPS positioning, using the results from the open-source RTKLib software. In general, the usefulness of code measurements on the L5 frequency to determine the GPS position made it possible to increase the accuracy by several times with respect to the positions determined using the C/A code on the L1 frequency. Average errors of horizontal and vertical coordinates were about 70 % lower for the GPS solution using the L5 code observations than using the L1 code observations. Based on statistical analysis, a horizontal accuracy of about 0.45 m and vertical accuracy of about 1.8 m (STDEV) with only five GPS satellites may be obtained using a smartphone with L5 code observations.