bluuebunny/crossref_metadata_2025 huggingface dataset:
Removal performance and adsorption behaviour on Mg-based adsorbents in As(III) and F simultaneous removal as in comparison with As(V)
Authors: Sugita Hajime , Morimoto Kazuya , Saito Takeshi , Hara Junko
Published: September 2024

In this study, simultaneous removal tests, with fixed initial arsenic (As) concentration of 1 mg l
−1
, for arsenite [As(III)] and fluoride (F) were performed using three types of Mg-based adsorbents. Their As(III) removal performance was of the order of MgCO
3
 << Mg(OH)
2
 < MgO. MgO met the environmental standards for As (0.01 mg l
−1
) at initial F concentrations (
C
F0
) of 15 and 30 mg l
−1
. MgO and Mg(OH)
2
met the As effluent standard (0.1 mg l
−1
) even at
C
F0
 = 60 mg l
−1
. In contrast, MgCO
3
did not meet the effluent standards under the test conditions. The F removal performance of the Mg-based adsorbents followed the order of MgCO
3
 < Mg(OH)
2
 < MgO. MgO and Mg(OH)
2
met the environmental standard of F (0.8 mg l
−1
), whereas MgCO
3
met the effluent standards for F in non-marine areas (8 mg l
−1
) at
C
F0
 = 15 and 30 mg l
−1
, and in marine areas (15 mg l
−1
) even at
C
F0
 = 60 mg l
−1
. The As(III) adsorption data fit the Langmuir model for MgO and the Freundlich model for MgO and Mg(OH)
2
, but not MgCO
3
for either model. Notably, the As(III) adsorption behaviour of MgO was strongly influenced by
C
F0
. Meanwhile, the F adsorption data fit both the Langmuir and Freundlich models for all Mg-based adsorbents.
The Gap Between Trustworthy AI Research and Trustworthy Software Research: A Tertiary Study
Authors: Liu Bohan , Li Gongyuan , Zhang He , Jin Yuzhe , Wang Zikuan , Shao Dong
Published: September 2024

With the increasing application and complexity of Artificial Intelligence (AI) systems, the trustworthiness of AI has garnered widespread attention across various fields. An AI system is a specific type of software system with unique trustworthiness requirements due to its distinctive characteristics in data and algorithms. Our objective is to investigate the state-of-the-art in trustworthy AI and trustworthy software separately and to analyze the connections and gaps between them. To this end, we conducted a tertiary study, which is a systematic literature review of existing secondary studies. These secondary studies are divided into two groups: one focuses on trustworthy AI and the other on trustworthy software. We developed frameworks for both trustworthy AI and trustworthy software, summarized the definitions of quality attributes in a structured format, and analyzed the similarities of these attributes between the two areas. Additionally, we created a swimlane diagram illustrating trustworthy practices throughout the development life-cycle and in relation to specific quality attributes. Researchers in these two areas originate from distinct research communities, leading to a significant gap between the trustworthiness of AI and software. However, we believe that existing research on trustworthy software can effectively address some gaps in trustworthy AI research, and we have identified evidence of connections between the two areas.
Aging delays the suppression of lipolysis and fatty acid oxidation in the postprandial period
Authors: Osmond Adam D. , Leija Robert G. , Arevalo Jose A. , Curl Casey C. , Duong Justin J. , Huie Melvin J. , Masharani Umesh , Brooks George A.
Published: September 2024

To our knowledge, our investigation is the first to demonstrate changes in lipolysis during an oral glucose tolerance test (OGTT) in healthy young and older individuals. Plasma glycerol and free fatty acid concentrations changed after glycerol rate of appearance (Ra), indicating that plasma concentrations are incomplete surrogates of the lipolytic rate. Moreover, simultaneous determinations of substrate oxidation rates are interpreted to indicate that metabolic inflexibility in aging is characterized by delayed changes in postprandial substrate utilization related to the lipolytic rate.
Common Risk Factors for CD4 Cell Count and Hemoglobin Level among Female Adult HIV‐Positive Patients: A Retrospective Longitudinal Study
Authors: Muhie Nurye Seid
Published: September 2024

Background. HIV is one of the most significant worldwide health concerns of the twenty‐first century and a serious threat to human society. Hemoglobin level and CD4 cell count are two of the most important biomarkers of HIV progression and patient survival. The objective of this study was to identify common risk factors associated with CD4 cell count and hemoglobin level among adult female HIV‐positive patients treated with ART at the University of Gondar Comprehensive Specialized Hospital, Ethiopia. Methods. The source of data in this study was secondary data conducted in the University of Gondar Comprehensive Specialized Hospital from September 2015 to March 2022 . Data exploration in this study was normal histogram plot, box plot, and Q‐Q plot considered to gain some visions of the data related to CD4 cell count and hemoglobin level. A Bayesian joint model was used in this longitudinal data set to get a wide range of information about adult female HIV‐patients. Results. The mean with a standard deviation of hematocrit (%), red blood cell (106/μl), lymphocyte (%), and weight (kg) of female patients were 37.2 (3.8), 4.0 (1.6), 43.6 (11.8), and 44.9 (9.4), respectively. In this study, the random intercept model for CD4 cell count and the random intercept and slope model for hemoglobin level were considered as the best selected model. Visit time, hematocrit, weight, RBC, lymphocyte count, educational status, marital status, disclosure, and substance use were common risk factors for CD4 cell count and hemoglobin level. Conclusion. This study concluded that, the risk factors visit time, weight, secondary educators, tertiary educators, married patients, patients who disclosed their HIV status to family members were associated with high CD4 cell count and hemoglobin level. While, hematocrit, RBC, lymphocyte count, separated marital status, widowed marital status, and substance‐addicted patients were associated with low CD4 cell count and hemoglobin level. The author recommended that FMOH or other health professionals, program planners, decision makers, project implementers, government, and nongovernmental organizations should be given special attention for adult female patinets to minimize the risk of HIV progression and improve their health status. The author also recommended that health staff should conduct health‐related studies for patients to examine continuous checkups. Health professionals also should give more attention to types of ART medication to reduce the progression of disease when the patients come back again into the hospital. Finally, adult female HIV‐positive patients should be given special attention based on these important factors to improve their CD4 cell count, hemoglobin level, and better health quality.
Supplementary Data from A Pan-Cancer Patient-Derived Xenograft Histology Image Repository with Genomic and Pathologic Annotations Enables Deep Learning Analysis
Authors: White Brian S. , Woo Xing Yi , Koc Soner , Sheridan Todd , Neuhauser Steven B. , Wang Shidan , Evrard Yvonne A. , Chen Li , Foroughi pour Ali , Landua John D. , Mashl R. Jay , Davies Sherri R. , Fang Bingliang , Raso Maria Gabriela , Evans Kurt W. , Bailey Matthew H. , Chen Yeqing , Xiao Min , Rubinstein Jill C. , Sanderson Brian J. , Lloyd Michael W. , Domanskyi Sergii , Dobrolecki Lacey E. , Fujita Maihi , Fujimoto Junya , Xiao Guanghua , Fields Ryan C. , Mudd Jacqueline L. , Xu Xiaowei , Hollingshead Melinda G. , Jiwani Shahanawaz , Acevedo Saul , Davis-Dusenbery Brandi N. , Robinson Peter N. , Moscow Jeffrey A. , Doroshow James H. , Mitsiades Nicholas , Kaochar Salma , Pan Chong-xian , Carvajal-Carmona Luis G. , Welm Alana L. , Welm Bryan E. , Govindan Ramaswamy , Li Shunqiang , Davies Michael A. , Roth Jack A. , Meric-Bernstam Funda , Xie Yang , Herlyn Meenhard , Ding Li , Lewis Michael T. , Bult Carol J. , Dean Dennis A. , Chuang Jeffrey H.
Published: September 2024

Supplementary methods
PDXNet consortium members from A Pan-Cancer Patient-Derived Xenograft Histology Image Repository with Genomic and Pathologic Annotations Enables Deep Learning Analysis
Authors: White Brian S. , Woo Xing Yi , Koc Soner , Sheridan Todd , Neuhauser Steven B. , Wang Shidan , Evrard Yvonne A. , Chen Li , Foroughi pour Ali , Landua John D. , Mashl R. Jay , Davies Sherri R. , Fang Bingliang , Raso Maria Gabriela , Evans Kurt W. , Bailey Matthew H. , Chen Yeqing , Xiao Min , Rubinstein Jill C. , Sanderson Brian J. , Lloyd Michael W. , Domanskyi Sergii , Dobrolecki Lacey E. , Fujita Maihi , Fujimoto Junya , Xiao Guanghua , Fields Ryan C. , Mudd Jacqueline L. , Xu Xiaowei , Hollingshead Melinda G. , Jiwani Shahanawaz , Acevedo Saul , Davis-Dusenbery Brandi N. , Robinson Peter N. , Moscow Jeffrey A. , Doroshow James H. , Mitsiades Nicholas , Kaochar Salma , Pan Chong-xian , Carvajal-Carmona Luis G. , Welm Alana L. , Welm Bryan E. , Govindan Ramaswamy , Li Shunqiang , Davies Michael A. , Roth Jack A. , Meric-Bernstam Funda , Xie Yang , Herlyn Meenhard , Ding Li , Lewis Michael T. , Bult Carol J. , Dean Dennis A. , Chuang Jeffrey H.
Published: September 2024

List of consortium members
Figure S7 from A Pan-Cancer Patient-Derived Xenograft Histology Image Repository with Genomic and Pathologic Annotations Enables Deep Learning Analysis
Authors: White Brian S. , Woo Xing Yi , Koc Soner , Sheridan Todd , Neuhauser Steven B. , Wang Shidan , Evrard Yvonne A. , Chen Li , Foroughi pour Ali , Landua John D. , Mashl R. Jay , Davies Sherri R. , Fang Bingliang , Raso Maria Gabriela , Evans Kurt W. , Bailey Matthew H. , Chen Yeqing , Xiao Min , Rubinstein Jill C. , Sanderson Brian J. , Lloyd Michael W. , Domanskyi Sergii , Dobrolecki Lacey E. , Fujita Maihi , Fujimoto Junya , Xiao Guanghua , Fields Ryan C. , Mudd Jacqueline L. , Xu Xiaowei , Hollingshead Melinda G. , Jiwani Shahanawaz , Acevedo Saul , Davis-Dusenbery Brandi N. , Robinson Peter N. , Moscow Jeffrey A. , Doroshow James H. , Mitsiades Nicholas , Kaochar Salma , Pan Chong-xian , Carvajal-Carmona Luis G. , Welm Alana L. , Welm Bryan E. , Govindan Ramaswamy , Li Shunqiang , Davies Michael A. , Roth Jack A. , Meric-Bernstam Funda , Xie Yang , Herlyn Meenhard , Ding Li , Lewis Michael T. , Bult Carol J. , Dean Dennis A. , Chuang Jeffrey H.
Published: September 2024

Figure S7
Figure S3 from A Pan-Cancer Patient-Derived Xenograft Histology Image Repository with Genomic and Pathologic Annotations Enables Deep Learning Analysis
Authors: White Brian S. , Woo Xing Yi , Koc Soner , Sheridan Todd , Neuhauser Steven B. , Wang Shidan , Evrard Yvonne A. , Chen Li , Foroughi pour Ali , Landua John D. , Mashl R. Jay , Davies Sherri R. , Fang Bingliang , Raso Maria Gabriela , Evans Kurt W. , Bailey Matthew H. , Chen Yeqing , Xiao Min , Rubinstein Jill C. , Sanderson Brian J. , Lloyd Michael W. , Domanskyi Sergii , Dobrolecki Lacey E. , Fujita Maihi , Fujimoto Junya , Xiao Guanghua , Fields Ryan C. , Mudd Jacqueline L. , Xu Xiaowei , Hollingshead Melinda G. , Jiwani Shahanawaz , Acevedo Saul , Davis-Dusenbery Brandi N. , Robinson Peter N. , Moscow Jeffrey A. , Doroshow James H. , Mitsiades Nicholas , Kaochar Salma , Pan Chong-xian , Carvajal-Carmona Luis G. , Welm Alana L. , Welm Bryan E. , Govindan Ramaswamy , Li Shunqiang , Davies Michael A. , Roth Jack A. , Meric-Bernstam Funda , Xie Yang , Herlyn Meenhard , Ding Li , Lewis Michael T. , Bult Carol J. , Dean Dennis A. , Chuang Jeffrey H.
Published: September 2024

Figure S3
Figure S15 from A Pan-Cancer Patient-Derived Xenograft Histology Image Repository with Genomic and Pathologic Annotations Enables Deep Learning Analysis
Authors: White Brian S. , Woo Xing Yi , Koc Soner , Sheridan Todd , Neuhauser Steven B. , Wang Shidan , Evrard Yvonne A. , Chen Li , Foroughi pour Ali , Landua John D. , Mashl R. Jay , Davies Sherri R. , Fang Bingliang , Raso Maria Gabriela , Evans Kurt W. , Bailey Matthew H. , Chen Yeqing , Xiao Min , Rubinstein Jill C. , Sanderson Brian J. , Lloyd Michael W. , Domanskyi Sergii , Dobrolecki Lacey E. , Fujita Maihi , Fujimoto Junya , Xiao Guanghua , Fields Ryan C. , Mudd Jacqueline L. , Xu Xiaowei , Hollingshead Melinda G. , Jiwani Shahanawaz , Acevedo Saul , Davis-Dusenbery Brandi N. , Robinson Peter N. , Moscow Jeffrey A. , Doroshow James H. , Mitsiades Nicholas , Kaochar Salma , Pan Chong-xian , Carvajal-Carmona Luis G. , Welm Alana L. , Welm Bryan E. , Govindan Ramaswamy , Li Shunqiang , Davies Michael A. , Roth Jack A. , Meric-Bernstam Funda , Xie Yang , Herlyn Meenhard , Ding Li , Lewis Michael T. , Bult Carol J. , Dean Dennis A. , Chuang Jeffrey H.
Published: September 2024

Figure S15
Figure S14 from A Pan-Cancer Patient-Derived Xenograft Histology Image Repository with Genomic and Pathologic Annotations Enables Deep Learning Analysis
Authors: White Brian S. , Woo Xing Yi , Koc Soner , Sheridan Todd , Neuhauser Steven B. , Wang Shidan , Evrard Yvonne A. , Chen Li , Foroughi pour Ali , Landua John D. , Mashl R. Jay , Davies Sherri R. , Fang Bingliang , Raso Maria Gabriela , Evans Kurt W. , Bailey Matthew H. , Chen Yeqing , Xiao Min , Rubinstein Jill C. , Sanderson Brian J. , Lloyd Michael W. , Domanskyi Sergii , Dobrolecki Lacey E. , Fujita Maihi , Fujimoto Junya , Xiao Guanghua , Fields Ryan C. , Mudd Jacqueline L. , Xu Xiaowei , Hollingshead Melinda G. , Jiwani Shahanawaz , Acevedo Saul , Davis-Dusenbery Brandi N. , Robinson Peter N. , Moscow Jeffrey A. , Doroshow James H. , Mitsiades Nicholas , Kaochar Salma , Pan Chong-xian , Carvajal-Carmona Luis G. , Welm Alana L. , Welm Bryan E. , Govindan Ramaswamy , Li Shunqiang , Davies Michael A. , Roth Jack A. , Meric-Bernstam Funda , Xie Yang , Herlyn Meenhard , Ding Li , Lewis Michael T. , Bult Carol J. , Dean Dennis A. , Chuang Jeffrey H.
Published: September 2024

Figure S14
Figure S10 from A Pan-Cancer Patient-Derived Xenograft Histology Image Repository with Genomic and Pathologic Annotations Enables Deep Learning Analysis
Authors: White Brian S. , Woo Xing Yi , Koc Soner , Sheridan Todd , Neuhauser Steven B. , Wang Shidan , Evrard Yvonne A. , Chen Li , Foroughi pour Ali , Landua John D. , Mashl R. Jay , Davies Sherri R. , Fang Bingliang , Raso Maria Gabriela , Evans Kurt W. , Bailey Matthew H. , Chen Yeqing , Xiao Min , Rubinstein Jill C. , Sanderson Brian J. , Lloyd Michael W. , Domanskyi Sergii , Dobrolecki Lacey E. , Fujita Maihi , Fujimoto Junya , Xiao Guanghua , Fields Ryan C. , Mudd Jacqueline L. , Xu Xiaowei , Hollingshead Melinda G. , Jiwani Shahanawaz , Acevedo Saul , Davis-Dusenbery Brandi N. , Robinson Peter N. , Moscow Jeffrey A. , Doroshow James H. , Mitsiades Nicholas , Kaochar Salma , Pan Chong-xian , Carvajal-Carmona Luis G. , Welm Alana L. , Welm Bryan E. , Govindan Ramaswamy , Li Shunqiang , Davies Michael A. , Roth Jack A. , Meric-Bernstam Funda , Xie Yang , Herlyn Meenhard , Ding Li , Lewis Michael T. , Bult Carol J. , Dean Dennis A. , Chuang Jeffrey H.
Published: September 2024

Figure S10
Data from A Pan-Cancer Patient-Derived Xenograft Histology Image Repository with Genomic and Pathologic Annotations Enables Deep Learning Analysis
Authors: White Brian S. , Woo Xing Yi , Koc Soner , Sheridan Todd , Neuhauser Steven B. , Wang Shidan , Evrard Yvonne A. , Chen Li , Foroughi pour Ali , Landua John D. , Mashl R. Jay , Davies Sherri R. , Fang Bingliang , Raso Maria Gabriela , Evans Kurt W. , Bailey Matthew H. , Chen Yeqing , Xiao Min , Rubinstein Jill C. , Sanderson Brian J. , Lloyd Michael W. , Domanskyi Sergii , Dobrolecki Lacey E. , Fujita Maihi , Fujimoto Junya , Xiao Guanghua , Fields Ryan C. , Mudd Jacqueline L. , Xu Xiaowei , Hollingshead Melinda G. , Jiwani Shahanawaz , Acevedo Saul , Davis-Dusenbery Brandi N. , Robinson Peter N. , Moscow Jeffrey A. , Doroshow James H. , Mitsiades Nicholas , Kaochar Salma , Pan Chong-xian , Carvajal-Carmona Luis G. , Welm Alana L. , Welm Bryan E. , Govindan Ramaswamy , Li Shunqiang , Davies Michael A. , Roth Jack A. , Meric-Bernstam Funda , Xie Yang , Herlyn Meenhard , Ding Li , Lewis Michael T. , Bult Carol J. , Dean Dennis A. , Chuang Jeffrey H.
Published: September 2024

Abstract
Patient-derived xenografts (PDX) model human intra- and intertumoral heterogeneity in the context of the intact tissue of immunocompromised mice. Histologic imaging via hematoxylin and eosin (H&E) staining is routinely performed on PDX samples, which could be harnessed for computational analysis. Prior studies of large clinical H&E image repositories have shown that deep learning analysis can identify intercellular and morphologic signals correlated with disease phenotype and therapeutic response. In this study, we developed an extensive, pan-cancer repository of >1,000 PDX and paired parental tumor H&E images. These images, curated from the PDX Development and Trial Centers Research Network Consortium, had a range of associated genomic and transcriptomic data, clinical metadata, pathologic assessments of cell composition, and, in several cases, detailed pathologic annotations of neoplastic, stromal, and necrotic regions. The amenability of these images to deep learning was highlighted through three applications: (i) development of a classifier for neoplastic, stromal, and necrotic regions; (ii) development of a predictor of xenograft-transplant lymphoproliferative disorder; and (iii) application of a published predictor of microsatellite instability. Together, this PDX Development and Trial Centers Research Network image repository provides a valuable resource for controlled digital pathology analysis, both for the evaluation of technical issues and for the development of computational image–based methods that make clinical predictions based on PDX treatment studies.

Significance: A pan-cancer repository of >1,000 patient-derived xenograft hematoxylin and eosin–stained images will facilitate cancer biology investigations through histopathologic analysis and contributes important model system data that expand existing human histology repositories.
Abstract A051 Genome-wide CRISPR/Cas9 library screening identified TP53 as a critical driver for resistance to EZH2 inhibitor in rhabdoid tumors
Authors: Chauvin Céline , Hery Tiphaine , Bouarich Rachida , Nemati Fariba , Teyssonneau Diego , Fouassier Camille , Giudiceandrea Chiara , Han Zhi-Yan , Zaidi Sakina , Surdez Didier , Roman-Roman Sergio , Decaudin Didier , Margueron Raphaël , Bourdeaut Franck
Published: September 2024

Rhabdoid tumors (RTs) are rare, highly aggressive pediatric malignancies which occur in kidney, soft-parts and brain. They are characterized by a complete inactivation of the SMARCB1 tumor suppressor gene encoding a core subunit of the chromatin remodeling SWI/SNF complex. Prognosis for children with RTs is poor as, in many instances, these tumors are resistant to conventional type chemotherapy. Pharmacological inhibition of EZH2 is a promising strategy to treat some tumors with loss of function in SMARCB1. However, the clinical response rate remains low, and both primary and secondary resistance have been reported. Understanding the mechanisms of resistance to EZH2 inhibition may allow new therapeutic hypothesis. For this purpose, we realized a genome-wide CRISPR-Cas9 knockout screening on two rhabdoid cell lines treated with EZH2 inhibitor. We identified TP53 loss as the sole consistent gene knock-out able to confer some resistance to EZH2 inhibition in both cell lines. Conversely, we demonstrated that MDM2/MDM4 inhibition, in a TP53-dependant manner, strongly synergized with EZH2 inhibition to control cell lines viability in vitro. We further treated 4 rhabdoid patient-derived xenografts with UNC1999, Idasanutlin and the combination of both and observed a potent tumor growth control upon combined EZH2 and MDM2/MDM4 inhibitions. To conclude, our results strongly encourage to assess the actual efficacy of combined MDM2/MDM4 and EZH2 inhibitors in the treatment of patients with SMARCB1-deficient rhabdoid tumors.

Citation Format: Céline Chauvin, Tiphaine Hery, Rachida Bouarich, Fariba Nemati, Diego Teyssonneau, Camille Fouassier, Chiara Giudiceandrea, Zhi-Yan Han, Sakina Zaidi, Didier Surdez, Sergio Roman-Roman, Didier Decaudin, Raphaël Margueron, Franck Bourdeaut. Genome-wide CRISPR/Cas9 library screening identified TP53 as a critical driver for resistance to EZH2 inhibitor in rhabdoid tumors [abstract]. In: Proceedings of the AACR Special Conference in Cancer Research: Advances in Pediatric Cancer Research; 2024 Sep 5-8; Toronto, Ontario, Canada. Philadelphia (PA): AACR; Cancer Res 2024;84(17 Suppl):Abstract nr A051.
Abstract A052 Project HOPE: A spatiotemporal single-cell landscape of high-grade gliomas in children, adolescents and young adults
Authors: Danielli Sara G. , Neyazi Sina , Hack Olivia A. , Jiang Li , Lo Cascio Costanza , Nascimento Andrezza , Nguyen Cuong , Rozowsky Jacob , Liu Ilon , Hoare Owen , Shamardani Karin , Cunliffe-Koehler Kennedy , Gojo Johannes , Ligon Keith L. , Baird Lissa , Alexandrescu Sanda , Cotter Jennifer , Prados Michael , Resnick Adam , Wang Lin , Monje Michelle , Diaz Aaron , Filbin Mariella G.
Published: September 2024

Despite the growing insights into the cellular heterogeneity of pediatric brain tumors, the transcriptional changes and spatial reorganization during disease progression remain largely unexplored. Here, we present an in-depth single-cell and 10X Xenium spatial transcriptomic characterization of 24 matched pediatric high-grade gliomas (pHGGs) in children, adolescents and young adults (AYA) profiled at both diagnosis and recurrence - constituting a total of 55 tissue samples. By stratifying the transcriptional programs activated at recurrence, we identify two distinct global response sets. Hemispheric AYA tumors predominantly exhibit upregulation of extracellular matrix pathways at recurrence, whereas midline tumors preferentially activate generic stress response programs. On a cellular level, we find that heterogeneity within the malignant tumor compartment remains largely unchanged at recurrence. However, a subset of AYA patients with hemispheric pHGG shows enrichment of the neural-progenitor-like (NPC-like) tumor cell state, and compositional changes in the immune and normal cell landscape, characterized by a global decrease in myeloid cells and an increase in oligodendrocyte fractions. Those changes lead, in turn, to enhanced NPC-like tumor cell-to-oligodendrocyte interactions. Spatial analysis of our extensive cohort at unprecedented subcellular resolution further reveals distinct cellular and spatial features associated with tumor progression, particularly in the remodeling of cell-cell interactions and tumor cell neighborhoods. Overall, this study provides a comprehensive longitudinal single-cell and spatial atlas of pHGG, uncovering the extensive cellular heterogeneity associated with tumor progression. Our findings highlight the role of intrinsic and extrinsic tumor adaptations in shaping disease progression in pHGG, offering potential novel therapeutic targets.

Citation Format: Sara G. Danielli, Sina Neyazi, Olivia A. Hack, Li Jiang, Costanza Lo Cascio, Andrezza Nascimento, Cuong Nguyen, Jacob Rozowsky, Ilon Liu, Owen Hoare, Karin Shamardani, Kennedy Cunliffe-Koehler, Johannes Gojo, Keith L. Ligon, Lissa Baird, Sanda Alexandrescu, Jennifer Cotter, Michael Prados, Adam Resnick, Lin Wang, Michelle Monje, Aaron Diaz, Mariella G. Filbin. Project HOPE: A spatiotemporal single-cell landscape of high-grade gliomas in children, adolescents and young adults [abstract]. In: Proceedings of the AACR Special Conference in Cancer Research: Advances in Pediatric Cancer Research; 2024 Sep 5-8; Toronto, Ontario, Canada. Philadelphia (PA): AACR; Cancer Res 2024;84(17 Suppl):Abstract nr A052.
Abstract B004: Putting function back into paediatric cancer genomics – modelling the therapeutic implications of novel genomic features
Authors: Sadras Teresa , Brown Lauren M. , Salib Alice , Liu Pei Y. , Mayoh Chelsea , Tyrrell Vanessa , Cowley Mark J. , Ekert Paul G.
Published: September 2024

One of the great promises of precision oncology programs lies in linking the specific genomic features of a tumour to therapies that directly or indirectly target these features.The ZERO Childhood Cancer Program (ZERO) is Australia’s national precision medicine program for childhood cancer. ZERO has demonstrated that precision guided therapy is associated with improved survival of children diagnosed with high-risk cancers, by identifying therapeutic options that would otherwise go unrecognised. However, there are many roadblocks preventing use of these therapies. One is the situation where a genomic feature is suspected of being a cancer driver and targetable, but has not been previously described. Another is encountering more familiar oncogenic lesions in atypical tumour contexts. This lack of direct clinical experience or preclinical data about the biological and therapeutic significance of the lesions means, the targeted therapies are often not used even when potential for clinical benefit. We are attempting to address this through an experimental program that generates models of individual genomic lesions to establish, at the bench, whether a genomic aberration is oncogenic and how it can be therapeutically targeted. Our focus has been on to novel variants predicted to activate receptor tyrosine kinase signalling found in the ZERO program.We will show we use a variety of approaches, including CRISPR/Cas9 engineering of novelkinase activating lesions in cytokine dependent cell lines to measure whether they are sufficient to transform these cells from cytokine dependence to independence. Further, we compare how driver fusions engineered in the endogenous genome compare, with respect to transforming capacity and responses to targeted therapies, to exogenous over-expression of the same fusions By studying rare or unique variants, we have identified novel mechanisms of tyrosine kinase activation, and identified therapeutic options for individual cancers, so meeting a definition of precision medicine. Further, we contend that understanding the biology of rare or unique variants does more than recover lost therapeutic opportunities for clinicians and families, it also provides important new knowledge about the biology of childhood cancer.

Citation Format: Teresa Sadras, Lauren M. Brown, Alice Salib, Pei Y. Liu, Chelsea Mayoh, Vanessa Tyrrell, Mark J. Cowley, Paul G. Ekert. Putting function back into paediatric cancer genomics – modelling the therapeutic implications of novel genomic features [abstract]. In: Proceedings of the AACR Special Conference in Cancer Research: Advances in Pediatric Cancer Research; 2024 Sep 5-8; Toronto, Ontario, Canada. Philadelphia (PA): AACR; Cancer Res 2024;84(17 Suppl):Abstract nr B004.
Abstract IA003: Genetic predisposition to pediatric cancer: the long way from discovery to surveillance guidelines
Authors: Bourdeaut Franck
Published: September 2024

Pediatric cancers are estimated to be related to a genetic predisposition in about 8 to 10% of cases. This estimation mostly relies on already discovered cancer predisposing genes. However, the numerous new cancer predisposing genes that have been discovered in the past decade thanks to high throughput sequencing in vast cohort of pediatric patients illustrate that new genes may still be unravelled. Moreover, the frequency of early post-zygotic mosaicism is being readdressed thanks to more dedicated sequencing and research. The actual clinical impact of all those discoveries is the main challenge for the community: defining the penetrance, delineating the cancer spectrum and therefore the appropriate surveillance, and setting up innovative follow-up techniques are necessary. Here, we’ll describe recent findings on brain tumor predisposing genes (ELP1 and SMARCB1, among others) to illustrate the increasing recognition of genetic predisposition in pediatric cancers and how the clinical translation of these laboratory findings remain challenging at clinical and ethical levels.

Citation Format: Franck Bourdeaut. Genetic predisposition to pediatric cancer: the long way from discovery to surveillance guidelines [abstract]. In: Proceedings of the AACR Special Conference in Cancer Research: Advances in Pediatric Cancer Research; 2024 Sep 5-8; Toronto, Ontario, Canada. Philadelphia (PA): AACR; Cancer Res 2024;84(17 Suppl):Abstract nr IA003.
Supplementary Table 2 from Inferring Characteristics of the Tumor Immune Microenvironment of Patients with HNSCC from Single-Cell Transcriptomics of Peripheral Blood
Authors: Cao Yingying , Chang Tiangen , Schischlik Fiorella , Wang Kun , Sinha Sanju , Hannenhalli Sridhar , Jiang Peng , Ruppin Eytan
Published: September 2024

Supplementary Table 2
Supplementary Material SM1 from Inferring Characteristics of the Tumor Immune Microenvironment of Patients with HNSCC from Single-Cell Transcriptomics of Peripheral Blood
Authors: Cao Yingying , Chang Tiangen , Schischlik Fiorella , Wang Kun , Sinha Sanju , Hannenhalli Sridhar , Jiang Peng , Ruppin Eytan
Published: September 2024

A list of predictable genes in different immune cell types.
Supplementary Figure 5 from Inferring Characteristics of the Tumor Immune Microenvironment of Patients with HNSCC from Single-Cell Transcriptomics of Peripheral Blood
Authors: Cao Yingying , Chang Tiangen , Schischlik Fiorella , Wang Kun , Sinha Sanju , Hannenhalli Sridhar , Jiang Peng , Ruppin Eytan
Published: September 2024

Supplementary Figure 5
Supplementary Figure 13 from Inferring Characteristics of the Tumor Immune Microenvironment of Patients with HNSCC from Single-Cell Transcriptomics of Peripheral Blood
Authors: Cao Yingying , Chang Tiangen , Schischlik Fiorella , Wang Kun , Sinha Sanju , Hannenhalli Sridhar , Jiang Peng , Ruppin Eytan
Published: September 2024

Supplementary Figure 13
Supplementary Figure 10 from Inferring Characteristics of the Tumor Immune Microenvironment of Patients with HNSCC from Single-Cell Transcriptomics of Peripheral Blood
Authors: Cao Yingying , Chang Tiangen , Schischlik Fiorella , Wang Kun , Sinha Sanju , Hannenhalli Sridhar , Jiang Peng , Ruppin Eytan
Published: September 2024

Supplementary Figure 10
Supplementary Figure 1 from Inferring Characteristics of the Tumor Immune Microenvironment of Patients with HNSCC from Single-Cell Transcriptomics of Peripheral Blood
Authors: Cao Yingying , Chang Tiangen , Schischlik Fiorella , Wang Kun , Sinha Sanju , Hannenhalli Sridhar , Jiang Peng , Ruppin Eytan
Published: September 2024

Supplementary Figure 1
Data from Inferring Characteristics of the Tumor Immune Microenvironment of Patients with HNSCC from Single-Cell Transcriptomics of Peripheral Blood
Authors: Cao Yingying , Chang Tiangen , Schischlik Fiorella , Wang Kun , Sinha Sanju , Hannenhalli Sridhar , Jiang Peng , Ruppin Eytan
Published: September 2024

Abstract
In this study, we explore the possibility of inferring characteristics of the tumor immune microenvironment from the blood. Specifically, we investigate two datasets of patients with head and neck squamous cell carcinoma with matched single-cell RNA sequencing (scRNA-seq) from peripheral blood mononuclear cells (PBMCs) and tumor tissues. Our analysis shows that the immune cell fractions and gene expression profiles of various immune cells within the tumor microenvironment can be inferred from the matched PBMC scRNA-seq data. We find that the established exhausted T-cell signature can be predicted from the blood and serve as a valuable prognostic blood biomarker of immunotherapy response. Additionally, our study reveals that the inferred ratio between tumor memory B- and regulatory T-cell fractions is predictive of immunotherapy response and is superior to the well-established cytolytic and exhausted T-cell signatures. These results highlight the promising potential of PBMC scRNA-seq in cancer immunotherapy and warrant, and will hopefully facilitate, further investigations on a larger scale. The code for predicting tumor immune microenvironment from PBMC scRNA-seq, TIMEP, is provided, offering other researchers the opportunity to investigate its prospective applications in various other indications.
Significance:
Our work offers a new and promising paradigm in liquid biopsies to unlock the power of blood single-cell transcriptomics in cancer immunotherapy.
Support Varieties and Nilpotent Elements for Simple Lie Algebras
Authors: Nakano Daniel K.
Published: September 2024

Support Varieties and Nilpotent Elements for Simple Lie AIgebras
The Marriage Ceremony in Early Medieval Ashkenaz
Authors: Yahalom Shalem
Published: September 2024

This article examined the marriage procedures prevalent in Mainz and other places in eleventh century Ashkenaz. Marriages took place on the Sabbath, as in Christian society, where weddings were held on holidays and days of rest. The ketubah was written on Friday in order to prepare for the wedding. Marriage during this period was not a symbolic ritual but a tangible act of sexual intercourse. Accordingly, a festive meal was held during which the couple consummated the marriage. Since the betrothal took place in a limited social circle, the betrothal blessing was recited toward the end of the Sabbath in the framework of a public, festive ceremony. After verification of the bride’s virginity, which meant she was eligible to receive the ketubah, the marriage blessings were recited on Saturday night and the ketubah became legally binding.
The Early Work of Paul Fraisse: The Timing of ‘Spontaneous’ Rhythms
Authors: Wearden John H.
Published: September 2024

The article discusses Paul Fraisse’s early study of the timing of what he called ‘spontaneous’ rhythms, where people were required to perform a specified sequence of spaced taps on a response key without the times between the responses being controlled. Results come from his doctoral thesis, carried out under the supervision of Albert Michotte in Louvain/Leuven in Belgium between 1935 and 1937. In spite of the lack of timing instructions, responses were divided into ‘short times’ (around 200 ms), ‘long times’ (usually around 450 ms), and ‘pauses’ (the times between execution of consecutive rhythmic sequences). This division held over changes in the tap sequence, when different patterns of three, four, and five responses were produced. A later experiment varied total sequence duration, including the pauses, and the ratio of long to short times was approximately preserved even with marked changes in sequence duration, except at the slowest speed. Fraisse regarded the pause as having a different function from the short and long times. It changed only slightly when the pattern changed, but marked changes in the duration of the pause did not affect the pattern. Fraisse suggested it was a kind of separator, needed to maintain the rhythmic structure of the patterns, and used the idea of a temporal ‘Gestalt’ where the pause represented the ‘ground’ or ‘framework’ and the rhythmic sequence the ‘Figure ’.
On the Ciidae (Coleoptera) described by Michio Chûjô deposited in the Natural History Museum of Denmark
Authors: SOUZA-GONÇALVES IGOR , LOPES-ANDRADE CRISTIANO
Published: September 2024

The Japanese entomologist Michio Chûjô described five Ciidae species collected during the Danish “Noona Dan” Expedition in 1961–62 to the southern Philippines and the Bismarck Archipelago, Papua New Guinea. We had access to images of their holotypes deposited in the Natural History Museum of Denmark and concluded that some taxonomic changes are necessary to better position them within the currently recognized Ciidae genera. The following new combinations are proposed: Ditrichocis mussauense (Chûjô, 1966) comb. nov., Neoennearthron mindanaonus (Chûjô, 1966) comb. nov., Nipponocis palawanus (Chûjô, 1966) comb. nov., and Paratrichapus bismarckensis (Chûjô, 1966) comb. nov.. Images of all holotypes are provided, as far as comments justifying the four new combinations and the retention of Octotemnus palawanus Chûjô, 1966 in the genus.
Two new Trachyphloeini (Coleoptera; Curculionidae; Entiminae) from Laos
Authors: BOROVEC ROMAN , ANDERSON ROBERT
Published: September 2024

Two new species of the tribe Trachyphloeini from Laos, Laohajekia uniformis Borovec and Anderson sp. nov. and Trachyphloeosoma newthayorum Borovec and Anderson sp. nov., are described, illustrated and compared with related species. Trachyphloeosoma roelofsi (Sharp) is recorded from Laos for the first time.
First record of Hornylia nalanda from India (Hemiptera: Heteroptera: Reduviidae: Emesinae)
Authors: BOYANE SWAPNIL S. , RANJITH A.P. , GHATE HEMANT V.
Published: September 2024

The emesine bug, Hornylia nalanda Wygodzinsky, 1966, previously described from Sri Lanka on single male specimen, has been recorded in the present study from India, based on one female specimen collected from Malappuram, Kerala. Illustrated description of the first female specimen, along with images of the holotype and comments on related species and genera within the tribe Emesini are provided.
Taxonomy of the leafhopper genus Varicopsella (Hemiptera: Cicadellidae: Eurymelinae: Macropsini) with description of a new species from Thailand
Authors: WANG DONGMING , ZHANG YALIN
Published: September 2024

The leafhopper genus Varicopsella is reviewed and a new species, Varicopsella cornifera sp. nov., from Thailand is described and illustrated. A species checklist and a key to all known species of Varicopsella are provided.
One new species of Phryganogryllacris (Orthoptera: Ensifera: Gryllacrididae) from Yunnan, China
Authors: CHEN XIAOQIN , YANG ZIYI
Published: September 2024

Phryganogryllacris is a large Raspy Cricket genus comprising 26 known valid species widely distributed in temperate and tropical Asia. In this paper, Phryganogryllacris nigra sp. nov. is proposed as a new species based on the specimen from Daweishan, Pinbian, Yunnan. New material studied is deposited in Guangxi Normal University, China.
Beautiful in its time: The unsettling beauty of weakness in mission
Authors: Deuel Dave
Published: September 2024

God’s mission ( missio Dei) is the outworking of his image plan for his people and their redemption. In our need to connect with God and to reflect his image, God displays our dependency in the form of weakness-attraction before a watching world. In the words of Qohelet 3:11, each occasion in eternity is ‘beautiful in its time’ as are all God’s systems from creation. God intends to restore worship and fellowship with his image bearers in the Garden of Eden in the cool of the day (Gen 3:8).
Delinquency During Puberty as a Biosocial Behavior: Time-Varying Effects of Social Contexts on Girls’ Delinquency in South Korea
Authors: Lee Heeyoung
Published: September 2024

Using Time-Varying Effect Model (TVEM) to analyze five waves of nationally representative South Korean panel data, from Grades 8 to 12, this study investigates how the effects of delinquent peers, parental care, and compliance with school rules on delinquency likelihood change across adolescence for girls with early versus late pubertal timing. The results reveal complex nonlinear trajectories that differ by puberty group: delinquent peer influence becomes more pronounced for late maturers after Grade 10, parental care consistently suppresses delinquency only for early maturers, and school rule compliance relates negatively to delinquency in late maturers but positively in early maturers. The findings challenge the partial application of the maturity gap hypothesis to early maturers only, highlighting how both early and late maturers experience strain from off-time development but negotiate it differently through shifting interactions with key social contexts over adolescence.
Low Expression of CASP8 Could be a Prognostic Biomarker in Neuroblastoma Patients
Authors: Altun Zekiye , Ceyhan Metin , Yuan Hongling , Kızmazoğlu Deniz , Aktaş Safiye , Olgun Nur
Published: September 2024

The aim of study was to investigate whether CASP8 (CASPASE8) could be a biomarker for prognosis in neuroblastoma. The prognostic value of CASP8 was determined by analyzing CASP8 methylation status and gene expressions in the tumor tissues of 37 neuroblastoma patients. Bisulfite and quantitative multiplex-methylation-specific polymerase chain reaction (PCR) were used to identify the methylation status. CASP8 messenger ribonucleic acid (RNA) expression levels were determined using reverse transcriptase–quantitative PCR. CASP8 expression levels associated with prognostic value were also analyzed using the TARGET NBL (141 cases) database through PDX for Childhood Cancer Therapeutics (PCAT) and SEQC (498 cases) via the R2 platform. CASP8 methylation status was associated with risk groups, MYCN amplification, and 17q gain status. CASP8 expression was found to be statistically different between high- and low-risk neuroblastoma groups. Low expression of CASP8 was associated with MYCN amplification status. Low expression of CASP8 has shown statistically significant prognostic value through TARGET NBL and SEQC-498 data sets. CASP8 messenger RNA expressions and methylation status were associated with the MYCN amplified high-risk group in neuroblastoma. CASP8 messenger RNA expressions may be considered as a clinical prognostic marker in neuroblastoma.
Mobility trajectories in multiple sclerosis: A comparative study of timed 25-foot walk and a patient-reported outcome measure
Authors: Briggs Farren BS , Gunzler Douglas D , Miller Deborah M , Ontaneda Daniel , De Nadai Alessandro S
Published: September 2024

Background:

Loss of mobility is common in persons with multiple sclerosis (PwMS), but little is known about this impairment from the patient’s perspective.

Objective:

The aim is to model longitudinal variation in a mobility patient-reported outcome (PRO) and compare trajectories to those observed for Timed 25-Foot Walk (T25FW) in a retrospective cohort.

Methods:

Latent-class growth analysis was applied to 47,508 measures of Performance Scales© Mobility PRO (PS-Mobility) over ~4 years for 8524 PwMS. For 7347 PwMS, there were 41,988 T25FW measures during this period. Repeated measures correlation and concordance of trajectory assignment were evaluated.

Results:

At the group level, PS-Mobility and T25FW linearly worsened and repeated-measures correlation was moderate. Eight latent classes with varying shapes that worsened described PS-Mobility variation, compared to six latent classes for T25FW that differed by intercept. The agreement between PS-Mobility and T25FW cluster assignment was modest. A higher proportion of individuals who were Black/African American, older, Medicaid beneficiaries, living in deprived neighborhoods, had longer disease duration, had progressive disease, and ever smokers were assigned to more impaired clusters.

Discussion:

Cross-sectionally, PS-Mobility and T25FW were highly correlated, but longitudinally correlation was modest to moderate, underscoring the importance of considering both objective and subjective perspectives in evaluating mobility changes in PwMS.
Dengue virus infection in hematopoietic stem cell transplant recipients: A case series and comparative literature review from dengue endemic region
Authors: Shahani Waseem , Fayyaz Faiqa , Abdul Samad Shafaq , Nizamuddin Muhammad , Abid Madiha , Jamal Aisha , Ghayas Zainab , Rafiq Ayesha , Hayee Abdul , Safdar Dilnasheen , Farzana Tasleem , Zaidi Uzma
Published: September 2024

This case series describes the wide spectrum of clinical presentation, laboratory findings, and morbidity/mortality associated with dengue fever in hematopoietic stem cell transplant recipients, treated in a dengue endemic region. The risk of acquiring viral infections increases manifold after transplant due to the severely immunocompromised state amid conditioning toxicity and immunosuppressive therapy. The classical warning signs of dengue viremia are often masked in posttransplant patients, leading to a missed diagnosis of dengue and grave consequences observed in some of the patients. Accurate and timely diagnosis of dengue fever especially in dengue prevalent areas can prevent the unwarranted complications and reduce the morbidity and mortality associated with dengue in allogeneic/autologous transplant recipients.
Unintended Sequalae of Long-Term Transvenous Pacemaker Leads in a Patient With Congenital Heart Disease
Authors: Cheon Soyoung , Faateh Muhammad , Ashfaq Awais
Published: September 2024

Long-term use of transvenous pacemakers, a common modality used for symptomatic bradyarrhythmias, can lead to rare but significant complications, especially in patients with congenital heart disease. We present a complex and challenging surgical lead extraction for a patient with long-standing superior vena cava syndrome resulting from prolonged transvenous leads.
Randomized open-label study of second-generation antipsychotics for the treatment of schizophrenia: 104-week final results of the JUMPs study assessing treatment discontinuation, remission, and social functioning
Authors: Ishigooka Jun , Nakagome Kazuyuki , Ohmori Tetsuro , Iwata Nakao , Inada Ken , Iga Jun-ichi , Kishi Taro , Fujita Kiyoshi , Kikuchi Yuka , Shichijo Toshiaki , Tabuse Hideaki , Koretsune Shotatsu , Terada Hiroshi , Terada Haruko , Kishimoto Toshifumi , Tsutsumi Yuichiro , Ohi Kazutaka
Published: September 2024

Background

We report the final results of treatment with aripiprazole, blonanserin, and paliperidone from the Japan Useful Medication Program for Schizophrenia (JUMPs), a 104-week naturalistic study.

Methods

JUMPs was an open-label, three-arm, randomized, parallel-group, 104-week study. Patients aged ≥ 20 years with schizophrenia requiring antipsychotic treatment or a switch from previous therapy were enrolled. The primary endpoint was treatment discontinuation rate over 104 weeks. Secondary endpoints included remission rate, Personal and Social Performance (PSP), safety, Positive and Negative Syndrome Scale (PANSS), and quality of life (QOL; EuroQol-5 dimension).

Results

In total, 251 patients received aripiprazole (n = 82), blonanserin (n = 85), or paliperidone (n = 84). Treatment discontinuation rates (aripiprazole, 80.5%; blonanserin, 81.2%; paliperidone, 71.4%) were not significantly different (p = 0.2385) among the treatment groups at 104 weeks; comparable outcomes were observed for endpoints, including remission (42.9%, 46.7%, and 45.8%), PANSS, and safety. In the overall cohort, while the improvement in the PSP total score at Week 104 was not significantly different from baseline, a significant improvement (p < 0.05) in QOL and total PANSS scores (including all subscales) was observed at Week 104 compared with baseline. Multivariable analysis identified a shorter disease duration and a higher chlorpromazine-equivalent antipsychotic dosage level (≥ 1000 mg) before switching to monotherapy as predictors of treatment discontinuation.

Conclusions

The 104-week treatment outcomes were comparable between groups; the overall trend of improvement in remission rate, safety, and QOL suggests the importance of continued treatment.

Clinical trial registration

UMIN-Clinical Trials Registry UMIN000007942 (public release date: 14/05/2012).