bluuebunny/crossref_metadata_2025 huggingface dataset:
Abstract 969: Non-invasive detection of plasma proteins in immune checkpoint inhibitor-treated patients with advanced non-small cell lung cancer
Authors: Stensgaard Simone , Thomsen Astrid , Dissing Julie G. , Helstrup Sofie , Meldgaard Peter , Sorensen Boe S.
Published: April 2023

Introduction: Immunotherapy has altered the therapeutic landscape for patients with advanced non-small cell lung cancer (NSCLC). The immune checkpoint inhibitor pembrolizumab targets the PD-1 signaling axis and has produced durable clinical response, but the efficacy is dependent on the anti-tumor activity of the immune system. We aimed to identify plasma proteins that could be used to identify patients who will respond to treatment with pembrolizumab.

Methods: Plasma samples were collected from 42 patients with advanced NSCLC before start of treatment with pembrolizumab and after 1 and 2 cycles of treatment. The plasma samples were analyzed using the Olink Proximity Extension Assay with an immuno-oncology panel detecting the expression level of 92 circulating plasma proteins. To evaluate the association between plasma protein expression and progression-free survival (PFS) the patients were stratified into two subgroups based on the median PFS (median=220 days).

Results: The patient subgroup with long PFS had significantly higher levels of Fas Ligand (FasL) and Inducible T Cell Costimulator Ligand (ICOSLG) before the start of treatment than patients with short PFS (p=0.0021 and p=0.0230 for FasL and ICOSLG). FasL remained significantly higher for patients with long PFS after 1 and 2 cycles of treatment (p=0.0170 and p=0.0190, respectively). Kaplan-Meier analysis of baseline ICOSLG and FasL expression showed longer PFS and overall survival (OS) for patients with high ICOSLG expression (p=0.0489 and p=0.0223 for PFS and OS) and for patients with high FasL expression (p=0.0064 and p=0.0069 for PFS and OS). An association was found between ICOSLG and FasL expression at baseline (R2=0.1403, p=0.0145), however the two proteins showed different dynamics during treatment, with FasL expression increasing during the early weeks of treatment, while little to no change is observed in ICOSLG expression. Combining the baseline expression of the two proteins identified a patient group with either a high expression of FasL or ICOSLG, or both, that had superior PFS (p=0.044) and OS (p=0.0017).

Conclusion: These findings suggest that the expression of FasL and ICOSLG at baseline may help identify patients who will respond to treatment with pembrolizumab.

Citation Format: Simone Stensgaard, Astrid Thomsen, Julie G. Dissing, Sofie Helstrup, Peter Meldgaard, Boe S. Sorensen. Non-invasive detection of plasma proteins in immune checkpoint inhibitor-treated patients with advanced non-small cell lung cancer [abstract]. In: Proceedings of the American Association for Cancer Research Annual Meeting 2023; Part 1 (Regular and Invited Abstracts); 2023 Apr 14-19; Orlando, FL. Philadelphia (PA): AACR; Cancer Res 2023;83(7_Suppl):Abstract nr 969.
Abstract SY32-03: Overcoming PARP inhibitor resistance through rational combinations in the clinic
Authors: Yap Timothy A.
Published: April 2023

Genomic instability is a key hallmark of cancer that arises owing to defects in the DNA damage response (DDR) and/or increased replication stress. The therapeutic landscape of antitumor agents targeting the DDR has rapidly expanded to include inhibitors of key mediators of DNA repair and replication beyond PARP, such as ATR and WEE1. Dr Yap will cover the latest advances in biomarker-driven synthetic lethal combination treatment strategies for different cancers. He will discuss efforts to optimize combination therapies that are ongoing across a range of cancers, involving the development of predictive biomarkers of response, assessment of the mechanisms underlying resistance, and the evaluation of rational, tolerable combinations with novel molecularly targeted agents, immune-checkpoint inhibitors and antibody drug conjugates.

Citation Format: Timothy A. Yap. Overcoming PARP inhibitor resistance through rational combinations in the clinic. [abstract]. In: Proceedings of the American Association for Cancer Research Annual Meeting 2023; Part 1 (Regular and Invited Abstracts); 2023 Apr 14-19; Orlando, FL. Philadelphia (PA): AACR; Cancer Res 2023;83(7_Suppl):Abstract nr SY32-03.
Supplementary Figure 2 from RETRACTED: Minocycline Targets the NF-κB Nexus through Suppression of TGF-β1-TAK1-IκB Signaling in Ovarian Cancer
Authors: Ataie-Kachoie Parvin , Badar Samina , Morris David L. , Pourgholami Mohammad H.
Published: April 2023

PDF file - 2503K, Influence of minocycline on inducible NF-кB activation.
Data from RETRACTED: Minocycline Targets the NF-κB Nexus through Suppression of TGF-β1-TAK1-IκB Signaling in Ovarian Cancer
Authors: Ataie-Kachoie Parvin , Badar Samina , Morris David L. , Pourgholami Mohammad H.
Published: April 2023

Abstract
Substantial evidence supports the critical role of NF-κB in ovarian cancer. Minocycline, a tetracycline, has been shown to exhibit beneficial effects in this malignancy through regulation of a cohort of genes that overlap significantly with the NF-κB transcriptome. Here, it was examined whether or not the molecular mechanism could be attributed to modulation of NF-κB signaling using a combination of in vitro and in vivo models. Minocycline suppressed constitutive NF-κB activation in OVCAR-3 and SKOV-3 ovarian carcinoma cells and was correlated with attenuation of IκBα kinase (IKK) activation, IκBα phosphorylation and degradation, and p65 phosphorylation and nuclear translocation. The inhibition of IKK was found to be associated with suppression of TGF-β-activated-kinase-1 (TAK1) activation and its dissociation from TAK1-binding-protein-1 (TAB1), an indispensable functional mediator between TGF-β and TAK1. Further studies demonstrated that minocycline downregulated TGF-β1 expression. Enforced TGF-β1 expression induced NF-κB activity, and minocycline rescued this effect. Consistent with this finding, TGF-β1 knockdown suppressed NF-κB activation and abrogated the inhibitory effect of minocycline on this transcription factor. These results suggest that the minocycline-induced suppression of NF-κB activity is mediated, in part, through inhibition of TGF-β1. Furthermore, the influence of minocycline on NF-κB pathway activation was examined in female nude mice harboring intraperitoneal OVCAR-3 tumors. Both acute and chronic administration of minocycline led to suppression of p65 phosphorylation and nuclear translocation accompanied by downregulation of NF-κB activity and endogenous protein levels of its target gene products. These data reveal the therapeutic potential of minocycline as an agent targeting the pro-oncogenic TGF-β—NF-κB axis in ovarian cancer.

Implications: This preclinical study lends support to the notion that ovarian cancer management would benefit from administration of minocycline. Mol Cancer Res; 11(10); 1279–91. ©2013 AACR.
Supplementary Data from Testing Novel Pyrimidinyl Rexinoids: A New Paradigm for Evaluating Rexinoids for Cancer Prevention
Authors: Zhang Di , Leal Ana S. , Carapellucci Sarah , Shahani Pritika H. , Bhogal Jaskaran S. , Ibrahim Samir , Raban San , Jurutka Peter W. , Marshall Pamela A. , Sporn Michael B. , Wagner Carl E. , Liby Karen T.
Published: April 2023

Supplemental Figures, Tables and Methods
Supplementary Figure S5 from Fusobacterium Nucleatum Subspecies Animalis Influences Proinflammatory Cytokine Expression and Monocyte Activation in Human Colorectal Tumors
Authors: Ye Xiangcang , Wang Rui , Bhattacharya Rajat , Boulbes Delphine R. , Fan Fan , Xia Ling , Adoni Harish , Ajami Nadim J. , Wong Matthew C. , Smith Daniel P. , Petrosino Joseph F. , Venable Susan , Qiao Wei , Baladandayuthapani Veera , Maru Dipen , Ellis Lee M.
Published: April 2023

Morphological changes in THP-1 monocytes induced by co-culture with F. nucleatum ssp. animalis under normoxic conditions.
Supplemental Figure 5 from Suppression of Colon Tumorigenesis in Mutant Apc Mice by a Novel PDE10 Inhibitor that Reduces Oncogenic β-Catenin
Authors: Lee Kevin J. , Chang Wen-Chi L. , Chen Xi , Valiyaveettil Jacob , Ramirez-Alcantara Veronica , Gavin Elaine , Musiyenko Alla , Madeira da Silva Luciana , Annamdevula Naga S. , Leavesley Silas J. , Ward Antonio , Mattox Tyler , Lindsey Ashley S. , Andrews Joel , Zhu Bing , Wood Charles , Neese Ashleigh , Nguyen Ashley , Berry Kristy , Maxuitenko Yulia , Moyer Mary Pat , Nurmemmedov Elmar , Gorman Greg , Coward Lori , Zhou Gang , Keeton Adam B. , Cooper Harry S. , Clapper Margie L. , Piazza Gary A.
Published: April 2023

Eadie-Hofstee plot of data from Fig. 2C. Error bars = SEM
Supplemental Figure 4C from Suppression of Colon Tumorigenesis in Mutant Apc Mice by a Novel PDE10 Inhibitor that Reduces Oncogenic β-Catenin
Authors: Lee Kevin J. , Chang Wen-Chi L. , Chen Xi , Valiyaveettil Jacob , Ramirez-Alcantara Veronica , Gavin Elaine , Musiyenko Alla , Madeira da Silva Luciana , Annamdevula Naga S. , Leavesley Silas J. , Ward Antonio , Mattox Tyler , Lindsey Ashley S. , Andrews Joel , Zhu Bing , Wood Charles , Neese Ashleigh , Nguyen Ashley , Berry Kristy , Maxuitenko Yulia , Moyer Mary Pat , Nurmemmedov Elmar , Gorman Greg , Coward Lori , Zhou Gang , Keeton Adam B. , Cooper Harry S. , Clapper Margie L. , Piazza Gary A.
Published: April 2023

HPLC chromatogram of ADT 061
Supplementary Methods from Losartan and Vitamin D Inhibit Colonic Tumor Development in a Conditional Apc-Deleted Mouse Model of Sporadic Colon Cancer
Authors: Dougherty Urszula , Mustafi Reba , Haider Haider I. , Khalil Abdurahman , Souris Jeffrey S. , Joseph Loren , Hart John , Konda Vani J. , Zhang Wei , Pekow Joel , Li Yan Chun , Bissonnette Marc
Published: April 2023

Supplementary Methods
Supplementary methods and tables from Cost Effectiveness of Lung Cancer Screening With Low-Dose CT in Heavy Smokers in China
Authors: Yuan Jingmin , Sun Yan , Wang Ke , Wang Zhiyi , Li Duo , Fan Meng , Bu Xiang , Chen Mingwei , Ren Hui
Published: April 2023

This file contains parameter setting methods of the model and two supplementary tables. Table S1 shows the model validation results and Table S2 shows the parameters most sensitive to the ICER of each screening scenario.
Figure S3 from Scutellarin Suppresses Patient-Derived Xenograft Tumor Growth by Directly Targeting AKT in Esophageal Squamous Cell Carcinoma
Authors: Liu Feifei , Zu Xueyin , Xie Xiaomeng , Zhang Yuanyuan , Liu Kangdong , Chen Hanyong , Wang Ting , Bode Ann M. , Dong Zigang , Kim Dong Joon
Published: April 2023

Expression of phosphorylated or total AKT in ESCC tissues
Data from COX-2 Inhibitors Decrease Expression of PD-L1 in Colon Tumors and Increase the Influx of Type I Tumor-infiltrating Lymphocytes
Authors: Cecil Denise L. , Gad Ekram A. , Corulli Lauren R. , Drovetto Nicholas , Lubet Ronald A. , Disis Mary L.
Published: April 2023

Abstract
Colon cancer is initiated under inflammatory conditions associated with upregulation of immune checkpoint proteins. We evaluated immune modulation induced by nonsteroidal anti-inflammatory agents used for colon cancer prevention. Both celecoxib and naproxen inhibited polyp growth in APC Min mice. Treatment of mice with either drug significantly decreased PD-L1 expression on polyps in a dose-dependent manner (P < 0.0001 for both). The decrease in PD-L1 was associated with an influx of CD8+ T cells into polyps (P < 0.0001, celecoxib; P = 0.048, naproxen) compared with lesions from untreated animals and correlated with disease control. Naproxen is a nonselective inhibitor of both COX-1 and COX-2, and we questioned the role of the different cyclooxygenases in PD-L1 regulation. Silencing either COX-2 or COX-1 RNA in the murine colon cancer cell line MC38, reduced PD-L1 expression by 86% in COX-2–silenced cells (P < 0.0001) while there was little effect with COX-1 siRNA compared with control. Naproxen could inhibit the growth of MC38 in vivo. Naproxen-treated mice demonstrated a significant reduction in MC38 growth as compared with control (P < 0001). Both Tbet+ CD4 and CD8 tumor-infiltrating lymphocytes (TIL) were significantly increased (P = 0.04 and P = 0.038, respectively) without a concurrent increase in GATA3+ TIL (P > 0.05). CD8+ TIL highly expressed the activation marker, CD69. Not only was PD-L1 expression decreased on tumors, but LAG3+CD8+ T cells and PD-1 and LAG3 expression on regulatory T cells was also reduced (P = 0.008 and P = 0.002, respectively). These data demonstrate COX-2 inhibitors significantly decrease PD-L1 in colonic lesions and favorably impact the phenotype of tumor-infiltrating lymphocytes to control tumor growth.
Prevention Relevance:
Nonsteroidal anti-inflammatories (NSAID) are an essential component of any combination chemoprevention of colon cancer. We show NSAID treatment reduces PD-L1 expression on intestinal tumor cells. NSAID regulation of PD-L1 is dependent on COX-2 expression. These data underscore an important immunologic mechanism of action for NSAID in colon cancer prevention.

Watch the interview with Denise Cecil, PhD, recipient of the 2024 Cancer Prevention Research Award for Outstanding Journal Article: https://vimeo.com/992981665

See related Spotlight, p. 209
Figure S6 from Epithelial-to-Mesenchymal Transition Rewires the Molecular Path to PI3K-Dependent Proliferation
Authors: Salt Megan B. , Bandyopadhyay Sourav , McCormick Frank
Published: April 2023

PDF 971K, GAB1 mediates growth factor stimulated signaling from EGFR to PI3K-Akt, and is required for proliferation in H358-TwistER cells after EMT
Supplementary Table S2 from Safety and Activity of the First-in-Class Sym004 Anti-EGFR Antibody Mixture in Patients with Refractory Colorectal Cancer
Authors: Dienstmann Rodrigo , Patnaik Amita , Garcia-Carbonero Rocio , Cervantes Andrés , Benavent Marta , Roselló Susana , Tops Bastiaan B.J. , van der Post Rachel S. , Argilés Guillem , Skartved Niels J.Ø. , Hansen Ulla H. , Hald Rikke , Pedersen Mikkel W. , Kragh Michael , Horak Ivan D. , Braun Stephan , Van Cutsem Eric , Tolcher Anthony W. , Tabernero Josep
Published: April 2023

Supplementary Table S2. Sym004 pharmacokinetic derived measures - dose-escalation and dose-expansion cohorts.
Supplementary Figure 1A from Serine Catabolism Regulates Mitochondrial Redox Control during Hypoxia
Authors: Ye Jiangbin , Fan Jing , Venneti Sriram , Wan Ying-Wooi , Pawel Bruce R. , Zhang Ji , Finley Lydia W.S. , Lu Chao , Lindsten Tullia , Cross Justin R. , Qing Guoliang , Liu Zhandong , Simon M. Celeste , Rabinowitz Joshua D. , Thompson Craig B.
Published: April 2023

The correlation of SHMT2 and PHGDH expression in the samples from patients who died from the disease (top panel, pPHGDHvsSHMT1=0.092, pPHGDHvsSHMT2=7.3Ã—10-5) and the correlation found in the samples from patients where the tumor regressed or matured spontaneously (bottom panel, pPHGDHvsSHMT1=0.3, pPHGDHvsSHMT2=0.0084).
Supplementary Table S2 from Metabolic and Functional Genomic Studies Identify Deoxythymidylate Kinase as a Target in LKB1-Mutant Lung Cancer
Authors: Liu Yan , Marks Kevin , Cowley Glenn S. , Carretero Julian , Liu Qingsong , Nieland Thomas J.F. , Xu Chunxiao , Cohoon Travis J. , Gao Peng , Zhang Yong , Chen Zhao , Altabef Abigail B. , Tchaicha Jeremy H. , Wang Xiaoxu , Choe Sung , Driggers Edward M. , Zhang Jianming , Bailey Sean T. , Sharpless Norman E. , Hayes D. Neil , Patel Nirali M. , Janne Pasi A. , Bardeesy Nabeel , Engelman Jeffrey A. , Manning Brendan D. , Shaw Reuben J. , Asara John M. , Scully Ralph , Kimmelman Alec , Byers Lauren A. , Gibbons Don L. , Wistuba Ignacio I. , Heymach John V. , Kwiatkowski David J. , Kim William Y. , Kung Andrew L. , Gray Nathanael S. , Root David E. , Cantley Lewis C. , Wong Kwok-Kin
Published: April 2023

shRNAs used in manuscript.
Supplementary Figure 3 from Brain Tumor Cells in Circulation Are Enriched for Mesenchymal Gene Expression
Authors: Sullivan James P. , Nahed Brian V. , Madden Marissa W. , Oliveira Samantha M. , Springer Simeon , Bhere Deepak , Chi Andrew S. , Wakimoto Hiroaki , Rothenberg S. Michael , Sequist Lecia V. , Kapur Ravi , Shah Khalid , Iafrate A. John , Curry William T. , Loeffler Jay S. , Batchelor Tracy T. , Louis David N. , Toner Mehmet , Maheswaran Shyamala , Haber Daniel A.
Published: April 2023

DNA-FISH analysis of non-EGFR-amplified GBM CTCs.
Supplementary Figure S3 from NRG1 Fusions in KRAS Wild-Type Pancreatic Cancer
Authors: Heining Christoph , Horak Peter , Uhrig Sebastian , Codo Paula L. , Klink Barbara , Hutter Barbara , Fröhlich Martina , Bonekamp David , Richter Daniela , Steiger Katja , Penzel Roland , Endris Volker , Ehrenberg Karl Roland , Frank Stephanie , Kleinheinz Kortine , Toprak Umut H. , Schlesner Matthias , Mandal Ranadip , Schulz Lothar , Lambertz Helmut , Fetscher Sebastian , Bitzer Michael , Malek Nisar P. , Horger Marius , Giese Nathalia A. , Strobel Oliver , Hackert Thilo , Springfeld Christoph , Feuerbach Lars , Bergmann Frank , Schröck Evelin , von Kalle Christof , Weichert Wilko , Scholl Claudia , Ball Claudia R. , Stenzinger Albrecht , Brors Benedikt , Fröhling Stefan , Glimm Hanno
Published: April 2023

Supplementary Figure S3 illustrates genomic breakpoints of fusions in KRASwt tumors.
Figure S5 from Recurrent Tumor Cell–Intrinsic and –Extrinsic Alterations during MAPKi-Induced Melanoma Regression and Early Adaptation
Authors: Song Chunying , Piva Marco , Sun Lu , Hong Aayoung , Moriceau Gatien , Kong Xiangju , Zhang Hong , Lomeli Shirley , Qian Jin , Yu Clarissa C. , Damoiseaux Robert , Kelley Mark C. , Dahlman Kimberley B. , Scumpia Philip O. , Sosman Jeffrey A. , Johnson Douglas B. , Ribas Antoni , Hugo Willy , Lo Roger S.
Published: April 2023

Figure S5
Supplementary Data from Selective Alanine Transporter Utilization Creates a Targetable Metabolic Niche in Pancreatic Cancer
Authors: Parker Seth J. , Amendola Caroline R. , Hollinshead Kate E.R. , Yu Qijia , Yamamoto Keisuke , Encarnación-Rosado Joel , Rose Rebecca E. , LaRue Madeleine M. , Sohn Albert S.W. , Biancur Doug E. , Paulo Joao A. , Gygi Steven P. , Jones Drew R. , Wang Huamin , Philips Mark R. , Bar-Sagi Dafna , Mancias Joseph D. , Kimmelman Alec C.
Published: April 2023

statistics for all main and supplementary data
Figure S16 from In Vivo Epigenetic CRISPR Screen Identifies Asf1a as an Immunotherapeutic Target in Kras-Mutant Lung Adenocarcinoma
Authors: Li Fei , Huang Qingyuan , Luster Troy A. , Hu Hai , Zhang Hua , Ng Wai-Lung , Khodadadi-Jamayran Alireza , Wang Wei , Chen Ting , Deng Jiehui , Ranieri Michela , Fang Zhaoyuan , Pyon Val , Dowling Catríona M. , Bagdatlioglu Ece , Almonte Christina , Labbe Kristen , Silver Heather , Rabin Alexandra R. , Jani Kandarp , Tsirigos Aristotelis , Papagiannakopoulos Thales , Hammerman Peter S. , Velcheti Vamsidhar , Freeman Gordon J. , Qi Jun , Miller George , Wong Kwok-Kin
Published: April 2023

Secondary clustering of macrophages/monocytes
Supplementary Data from Oncogenic KRAS-Driven Metabolic Reprogramming in Pancreatic Cancer Cells Utilizes Cytokines from the Tumor Microenvironment
Authors: Dey Prasenjit , Li Jun , Zhang Jianhua , Chaurasiya Surendra , Strom Anders , Wang Huamin , Liao Wen-Ting , Cavallaro Frederick , Denz Parker , Bernard Vincent , Yen Er-Yen , Genovese Giannicola , Gulhati Pat , Liu Jielin , Chakravarti Deepavali , Deng Pingna , Zhang Tingxin , Carbone Federica , Chang Qing , Ying Haoqiang , Shang Xiaoying , Spring Denise J. , Ghosh Bidyut , Putluri Nagireddy , Maitra Anirban , Wang Y. Alan , DePinho Ronald A.
Published: April 2023

Supplementary Figures 1-6
Supplementary Table S1 from Identification of BBOX1 as a Therapeutic Target in Triple-Negative Breast Cancer
Authors: Liao Chengheng , Zhang Yang , Fan Cheng , Herring Laura E. , Liu Juan , Locasale Jason W. , Takada Mamoru , Zhou Jin , Zurlo Giada , Hu Lianxin , Simon Jeremy M. , Ptacek Travis S. , Andrianov Victor G. , Loza Einars , Peng Yan , Yang Huanghe , Perou Charles M. , Zhang Qing
Published: April 2023

Table S1. List of 65 2-OG dioxygenases
CD-20-0047R2_Supplementary_Figure_5.pdf from Prognostic and Predictive Impact of Circulating Tumor DNA in Patients with Advanced Cancers Treated with Immune Checkpoint Blockade
Authors: Zhang Qu , Luo Jia , Wu Song , Si Han , Gao Chen , Xu Wenjing , Abdullah Shaad E. , Higgs Brandon W. , Dennis Phillip A. , van der Heijden Michiel S. , Segal Neil H. , Chaft Jamie E. , Hembrough Todd , Barrett J. Carl , Hellmann Matthew D.
Published: April 2023

Figure S5
CD-20-0047R2_Supplementary_Figure_4.pdf from Prognostic and Predictive Impact of Circulating Tumor DNA in Patients with Advanced Cancers Treated with Immune Checkpoint Blockade
Authors: Zhang Qu , Luo Jia , Wu Song , Si Han , Gao Chen , Xu Wenjing , Abdullah Shaad E. , Higgs Brandon W. , Dennis Phillip A. , van der Heijden Michiel S. , Segal Neil H. , Chaft Jamie E. , Hembrough Todd , Barrett J. Carl , Hellmann Matthew D.
Published: April 2023

Figure S4
CD-20-0047R2_Supplementary_Figure_2.pdf from Prognostic and Predictive Impact of Circulating Tumor DNA in Patients with Advanced Cancers Treated with Immune Checkpoint Blockade
Authors: Zhang Qu , Luo Jia , Wu Song , Si Han , Gao Chen , Xu Wenjing , Abdullah Shaad E. , Higgs Brandon W. , Dennis Phillip A. , van der Heijden Michiel S. , Segal Neil H. , Chaft Jamie E. , Hembrough Todd , Barrett J. Carl , Hellmann Matthew D.
Published: April 2023

Figure S2
Supplementary Data from Regulatory T-cell Depletion Alters the Tumor Microenvironment and Accelerates Pancreatic Carcinogenesis
Authors: Zhang Yaqing , Lazarus Jenny , Steele Nina G. , Yan Wei , Lee Ho-Joon , Nwosu Zeribe C. , Halbrook Christopher J. , Menjivar Rosa E. , Kemp Samantha B. , Sirihorachai Veerin R. , Velez-Delgado Ashley , Donahue Katelyn , Carpenter Eileen S. , Brown Kristee L. , Irizarry-Negron Valerie , Nevison Anna C. , Vinta Alekya , Anderson Michelle A. , Crawford Howard C. , Lyssiotis Costas A. , Frankel Timothy L. , Bednar Filip , Pasca di Magliano Marina
Published: April 2023

Supplemental table 1, 2 and 3
Supplementary Data from Regulatory T-cell Depletion Alters the Tumor Microenvironment and Accelerates Pancreatic Carcinogenesis
Authors: Zhang Yaqing , Lazarus Jenny , Steele Nina G. , Yan Wei , Lee Ho-Joon , Nwosu Zeribe C. , Halbrook Christopher J. , Menjivar Rosa E. , Kemp Samantha B. , Sirihorachai Veerin R. , Velez-Delgado Ashley , Donahue Katelyn , Carpenter Eileen S. , Brown Kristee L. , Irizarry-Negron Valerie , Nevison Anna C. , Vinta Alekya , Anderson Michelle A. , Crawford Howard C. , Lyssiotis Costas A. , Frankel Timothy L. , Bednar Filip , Pasca di Magliano Marina
Published: April 2023

Supplementary Methods
Supplementary Data from Oral Mucosal Organoids as a Potential Platform for Personalized Cancer Therapy
Authors: Driehuis Else , Kolders Sigrid , Spelier Sacha , Lõhmussaar Kadi , Willems Stefan M. , Devriese Lot A. , de Bree Remco , de Ruiter Emma J. , Korving Jeroen , Begthel Harry , van Es Johan H. , Geurts Veerle , He Gui-Wei , van Jaarsveld Richard H. , Oka Rurika , Muraro Mauro J. , Vivié Judith , Zandvliet Maurice M.J.M. , Hendrickx Antoni P.A. , Iakobachvili Nino , Sridevi Priya , Kranenburg Onno , van Boxtel Ruben , Kops Geert J.P.L. , Tuveson David A. , Peters Peter J. , van Oudenaarden Alexander , Clevers Hans
Published: April 2023

Table S5
Movie S2 from Oral Mucosal Organoids as a Potential Platform for Personalized Cancer Therapy
Authors: Driehuis Else , Kolders Sigrid , Spelier Sacha , Lõhmussaar Kadi , Willems Stefan M. , Devriese Lot A. , de Bree Remco , de Ruiter Emma J. , Korving Jeroen , Begthel Harry , van Es Johan H. , Geurts Veerle , He Gui-Wei , van Jaarsveld Richard H. , Oka Rurika , Muraro Mauro J. , Vivié Judith , Zandvliet Maurice M.J.M. , Hendrickx Antoni P.A. , Iakobachvili Nino , Sridevi Priya , Kranenburg Onno , van Boxtel Ruben , Kops Geert J.P.L. , Tuveson David A. , Peters Peter J. , van Oudenaarden Alexander , Clevers Hans
Published: April 2023

Movie S2
Table S5 from Machine-Learning and Chemicogenomics Approach Defines and Predicts Cross-Talk of Hippo and MAPK Pathways
Authors: Pham Trang H. , Hagenbeek Thijs J. , Lee Ho-June , Li Jason , Rose Christopher M. , Lin Eva , Yu Mamie , Martin Scott E. , Piskol Robert , Lacap Jennifer A. , Sampath Deepak , Pham Victoria C. , Modrusan Zora , Lill Jennie R. , Klijn Christiaan , Malek Shiva , Chang Matthew T. , Dey Anwesha
Published: April 2023

Chemical genetics screen with a library comprising 485 compounds including targeted agents, chemotherapeutics, and tool compounds
Supplementary Figures from Impaired SARS-CoV-2 Variant Neutralization and CD8+ T-cell Responses Following 3 Doses of mRNA Vaccines in Myeloma: Correlation with Breakthrough Infections
Authors: Azeem Maryam I. , Nooka Ajay K. , Shanmugasundaram Uma , Cheedarla Narayanaiah , Potdar Sayalee , Manalo Renee Julia , Moreno Alberto , Switchenko Jeffrey M. , Cheedarla Suneethamma , Doxie Deon Bryant , Radzievski Roman , Ellis Madison Leigh , Manning Kelly E. , Wali Bushra , Valanparambil Rajesh M. , Maples Kathryn T. , Baymon Essence , Kaufman Jonathan L. , Hofmeister Craig C. , Joseph Nisha S. , Lonial Sagar , Roback John D. , Sette Alessandro , Ahmed Rafi , Suthar Mehul S. , Neish Andrew S. , Dhodapkar Madhav V. , Dhodapkar Kavita M.
Published: April 2023

This file contains supplementary figures 1-25
Supplementary File 3 (metabolomics) from NetrinG1+ Cancer-Associated Fibroblasts Generate Unique Extracellular Vesicles that Support the Survival of Pancreatic Cancer Cells Under Nutritional Stress
Authors: Raghavan Kristopher S. , Francescone Ralph , Franco-Barraza Janusz , Gardiner Jaye C. , Vendramini-Costa Débora B. , Luong Tiffany , Pourmandi Narges , Andren Anthony , Kurimchak Alison , Ogier Charline , Campbell Paul M. , Duncan James S. , Lyssiotis Costas A. , Languino Lucia R. , Cukierman Edna
Published: April 2023

Spreadsheet including the metabolomic analyses corresponding to the experiments indicated by the naming of the assorted tabs. Specific analysis parameters for each experiment are provided within the respective main figure legends.
Supplemental Table ST3 from Incorporating RNA-based Risk Scores for Genomic Instability to Predict Breast Cancer Recurrence and Immunogenicity in a Diverse Population
Authors: Hamilton Alina M. , Van Alsten Sarah C. , Gao Xiaohua , Nsonwu-Farley Joseph , Calhoun Benjamin C. , Love Michael I. , Troester Melissa A. , Hoadley Katherine A.
Published: April 2023

Supplemental table 3 shows five-year recurrence hazard ratios for immune classes among ER-negative and ER-positive cases in CBCS.
Figure S6 from Intertumoral Differences Dictate the Outcome of TGF-β Blockade on the Efficacy of Viro-Immunotherapy
Authors: Groeneveldt Christianne , van Ginkel Jurriaan Q. , Kinderman Priscilla , Sluijter Marjolein , Griffioen Lisa , Labrie Camilla , van den Wollenberg Diana J.M. , Hoeben Rob C. , van der Burg Sjoerd H. , ten Dijke Peter , Hawinkels Lukas J.A.C. , van Hall Thorbald , van Montfoort Nadine
Published: April 2023

Figure S6. Introduction of TRP1 expression on MC38.TRP1 cells allows killing via CD3-bsAbs.
Data from Evaluation of the DLL3-targeting Antibody–Drug Conjugate Rovalpituzumab Tesirine in Preclinical Models of Neuroblastoma
Authors: Krytska Kateryna , Casey Colleen E. , Pogoriler Jennifer , Martinez Daniel , Rathi Komal S. , Farrel Alvin , Berko Esther R. , Tsang Matthew , Sano Renata R. , Kendsersky Nathan , Erickson Stephen W. , Teicher Beverly A. , Isse Kumiko , Saunders Laura , Smith Malcolm A. , Maris John M. , Mossé Yael P.
Published: April 2023

Neuroblastomas have neuroendocrine features and often show similar gene expression patterns to small cell lung cancer including high expression of delta-like ligand 3 (DLL3). Here we determine the efficacy of rovalpituzumab tesirine (Rova-T), an antibody–drug conjugated (ADC) with a pyrrolobenzodiazepine dimer toxin targeting DLL3, in preclinical models of human neuroblastoma.

We evaluated DLL3 expression in RNA-sequencing datasets and performed IHC on neuroblastoma patient-derived xenograft (PDX), human neuroblastoma primary tumor and normal childhood tissue microarrays. We then evaluated the activity of Rova-T against 11 neuroblastoma PDX models using varying doses and schedules and compared antitumor activity with expression levels.

DLL3 mRNA was differentially overexpressed in neuroblastoma at comparable levels to small cell lung cancer, as well as Wilms and rhabdoid tumors. DLL3 protein was robustly expressed across the neuroblastoma PDX array, but membranous staining was variable. The human neuroblastoma array, however, showed staining in only 44% of cases, whereas no significant staining was observed in the normal childhood tissue array. Rova-T showed a clear dose–response effect across the 11 models tested, with a single dose inducing a complete or partial response in 3 of 11 and stable disease in another 3 of 11 models. No overt signs of toxicity were observed, and there was no treatment-related mortality. Strong membranous staining was necessary, but not sufficient, for antitumor activity.

Rova-T has activity in a subset of neuroblastoma preclinical models, but heterogeneous expression in these models and the near absence of expression seen in human tumors suggests that any DLL3-targeting clinical trial should be only performed with a robust companion diagnostic to evaluate DLL3 expression for patient selection.
Significance:
GD2-directed antibody therapy is standard of care for high-risk neuroblastoma; therapy is toxic, and relapses often occur. DLL3, an inhibitory Notch ligand, is overexpressed in several neuronal cancers. A DLL3-targeting ADC showed objective activity only in neuroblastoma models with high DLL3 expression. These data provide vigilance about clinical development of DLL3 immunotherapies for neuroblastoma.
Data from Multiregional Sequencing Analysis Reveals Extensive Genetic Heterogeneity in Gastric Tumors from Latinos
Authors: Toal Ted W. , Estrada-Florez Ana P. , Polanco-Echeverry Guadalupe M. , Sahasrabudhe Ruta M. , Lott Paul C. , Suarez-Olaya John J. , Guevara-Tique Alix A. , Rocha Sienna , Morales-Arana Alexa , Castro-Valencia Fabian , Urayama Shiro , Kirane Amanda , Wei Dongguang , Rios-Sarabia Nora , Medrano Rafael , Mantilla Alejandra , Echeverry de Polanco Magdalena , Torres Javier , Bohorquez-Lozano Mabel E. , Carvajal-Carmona Luis G.
Published: April 2023

Gastric cancer is a leading cause of cancer mortality and health disparities in Latinos. We evaluated gastric intratumoral heterogeneity using multiregional sequencing of >700 cancer genes in 115 tumor biopsies from 32 patients, 29 who were Latinos. Analyses focused on comparisons with The Cancer Genome Atlas (TCGA) and on mutation clonality, druggability, and signatures. We found that only approximately 30% of all mutations were clonal and that only 61% of the known TCGA gastric cancer drivers harbored clonal mutations. Multiple clonal mutations were found in new candidate gastric cancer drivers such as EYS, FAT4, PCDHA1, RAD50, EXO1, RECQL4, and FSIP2. The genomically stable (GS) molecular subtype, which has the worse prognosis, was identified in 48% of our Latino patients, a fraction that was >2.3-fold higher than in TCGA Asian and White patients. Only a third of all tumors harbored clonal pathogenic mutations in druggable genes, with most (93%) GS tumors lacking actionable clonal mutations. Mutation signature analyses revealed that, in microsatellite-stable (MSS) tumors, DNA repair mutations were common for both tumor initiation and progression, while tobacco, POLE, and inflammation signatures likely initiate carcinogenesis. MSS tumor progression was likely driven by aging- and aflatoxin-associated mutations, as these latter changes were usually nonclonal. In microsatellite-unstable tumors, nonclonal tobacco-associated mutations were common. Our study, therefore, contributed to advancing gastric cancer molecular diagnostics and suggests clonal status is important to understanding gastric tumorigenesis. Our findings of a higher frequency of a poor prognosis associated molecular subtype in Latinos and a possible new aflatoxin gastric cancer etiology also advance cancer disparities research.
Significance:
Our study contributes to advancing our knowledge of gastric carcinogenesis, diagnostics, and cancer health disparities.
Adverse Reactions Associated with Intravenous Immunoglobulin Administration in the Treatment of Neurological Disorders: A Systematic Review
Authors: Jiang Melinda , Kimber James Stuart , Gupta Aashray , Kovoor Joshua , Stretton Brandon , Ravindran Janakan , Hissaria Pravin , Smith William Bernard , Bacchi Stephen
Published: April 2023

Intravenous immunoglobulin (IVIg), which is used to treat multiple neurological conditions, may be associated with serious adverse reactions. The individual neurological disease characteristics associated with adverse reactions, along with strategies to prevent and treat adverse reactions, are uncertain. A systematic review was conducted of the databases PubMed, Embase, and Cochrane Library to summarise studies that report adverse reactions of IVIg therapy in patients with neurological disease. There were 65 studies included in the review. The reported rates of adverse reactions vary widely, but the best evidence suggests rates between 25 and 34% per patient. Common adverse reactions include headache and laboratory abnormalities. Less common but serious adverse reactions included thromboembolic complications and anaphylaxis. Overall, there is a lack of high-quality comparative data to definitively determine if any specific neurological indications are associated with a higher risk of adverse reactions. However, individual neurological disease characteristics possibly associated with an increased likelihood of adverse reactions include limited mobility (as in certain neuromuscular conditions), paraproteinaemia (as in certain peripheral neuropathies), and cardiomyopathy (as in certain myopathies). There is limited evidence to support the effectiveness of prevention and treatment strategies, which may include modification to dose, reduced infusion rate, and premedication. Further studies regarding methods to prevent and treat IVIg-ARs in neurology patients are required.
The Mentoring and Monitoring Practices of Schools District Supervisors
Authors: Caayaman Teresita A.
Published: April 2023

Mentoring and Monitoring are crucial skills of Schools District Supervisors   in doing their roles and functions as mandated in Republic Act 9155.  However, it has been observed that formal mentoring and monitoring were not yet fully implemented in the Department of Education, Bohol Division, specifically to the   Secondary   School Principals.  On this ground, this study was conducted to assess the mentoring and monitoring practices of Schools District Supervisors in terms of Instructional Leadership and in terms of Curricula Supervision. The study   utilized   data triangulation in qualitative research to examine three sources of data   from the two groups of respondents who    were the twenty   Full-fledged Schools District Supervisors and twenty-eight   Full-fledged Secondary School Principals in the three Congressional Districts in Bohol.  Both respondents were conducted an   open-ended   interview   with the same   questions while on the   documentary data, data from the Schools District Supervisors of their trainings attended  were included.  The results showed   that the mentoring and the monitoring practice of Schools District Supervisors in terms of Instructional Leadership was communicating verbally, while there were no practices revealed    for the following:  mentoring and monitoring practices of Schools District Supervisors in terms of Curricula Supervision.  mentoring and  monitoring practices of Schools District Supervisors  which   are effectively implemented to the  Secondary School Principals in terms of Instructional Leadership and in terms of  Curricula Supervision,  mentoring and monitoring  practices of Schools District Supervisors  how they   are   effectively implemented to the  Secondary School Principals in terms of Instructional Leadership and in terms of  Curricula Supervision  These results imply the need to intensify the mentoring and monitoring practices of Schools District Supervisors by creating a policy on it.
Work-Life Balance of Married Female Teachers During Pandemic in the Philippines: A Qualitative Metaphorical Analysis
Authors: Delavin Elreen Aguilar , Pogoy Angeline M.
Published: April 2023

Work-life balance is a cycle of one's life experiences which means satisfaction with work, family, and self. The study explored the self-representation of married female teachers with their work-life balance in Philippine public schools during pandemics through qualitative research using metaphorical analysis. The participants' metaphors of their work-life balance were identified in the interview, such as being like a drained cellphone, melting candle, strong and big tree, spider, COVID-19 vaccine, and season. Also, several studies revealed that they juggle multiple roles during pre-pandemic. Hence, their experiences in terms of work-life balance have advantages and disadvantages during the pandemic, which may worsen or lighten the current roles they have. Thus, it is recommended to raise more awareness of women's work-life balance in their organizations or agencies. Also, strengthening Republic Act 9710 in the workplace is highly recommended.
Accounting Learning Gaps of K-12 Accountancy, Business, and Management (ABM) Graduates: Basis for Remediation Program for BSA Accountancy Program of Sorsogon State University (SorSu)
Authors: Bongalonta Michael B. , Bongalonta Michelle M.
Published: April 2023

This study was conducted to identify the accounting learning gaps of K-12 ABM graduates enrolled in the Sorsogon State University (SorSU) BS in Accountancy program in the Academic Year 2021-2022. This study used mixed design to quantitatively determine the accounting learning gaps of K-12 ABM Graduates explore those issues concerning the causes of accounting learning gaps encountered by the respondents.

Results revealed that student-respondents were found to have weakness or very little accounting knowledge and skills were attributed to some factors such Limited Accounting Background and Proper Preparation, Lack of Calculation Skills, Non-integration of Accounting Lessons into Real-Life Context, Limited Physical and Human Resources are Available for the Implementation of the Accountancy, Business and Management (ABM) Track under the K-12 System and Students Study Habits and Approaches. The Proposed Accounting crash Corse was deemed necessary to address the identified learning gaps of ABM Graduates.
Otis-Lennon School Ability Test, Association of Benedictine Schools Achievement Test, and National Achievement Test as Correlates of Academic Performance
Authors: Santillan Jr. Eduardo P.
Published: April 2023

Believing that students take several tests whose results help describe these learners, the researcher measured the correlation between the academic performance (AP) and Otis-Lennon School Ability Test (OLSAT), AP and Association of Benedictine Schools Achievement Test (ABSAT), and AP and National Achievement Test (NAT), OLSAT and ABSAT, OLSAT and NAT, and ABSAT and NAT scores of the grade 6 students of a private school in Angeles City. This is a descriptive correlational study. Using frequency and percentage, the researcher described the results of the given standardized tests and the pupils’ academic performance using general weighted average. Using descriptive statistics, the researcher learned that participants had average performance in AP and the specified tests. Using Pearson r, the researcher learned that all variables registered positive results, particularly average performance. Thus, the study arrived at significant relationships between participants’ academic performance and the named tests. The study also revealed significant relationships between participants’ AP and the tests, between OLSAT and NAT, between ABSAT and OLSAT, and between ABSAT and NAT. The study implies that the school must maintain its good teaching and learning practices and innovate to capitalize and improve general performance.
Playing Games to Earn Money: The Conceptual Framework of Interaction between Gender, Learning Styles, Problematic Gaming Behavior and Success-Economic Gain Motivation of Playing Games
Authors: Torralba Edwin M.
Published: April 2023

This study identified the constructs of problematic gaming behavior that significantly impact the success-economic gain motivation of gamers. Furthermore, this study explored the role of gender, number of games played, and learning styles in problematic gaming behavior and the success-economic gain motivation of gamers using an online survey (N = 136). This study identified escape from adverse moods and preoccupation as the significant determinants of success-economic gain motivation of gamers. Escape from bad moods and preoccupation mediates the relationship between gamers' gender, number of games played, and success-economic gain motivation. Regression analysis reveals that active-reflective and sequential-global learning styles moderate the relationship between escapism, preoccupation, and success-economic gain motivation of gamers. The results suggest that the combination of active-global learning style and reflective-sequential learning style has the highest impact on the success-economic gain motivation of gamers. The results led to two conceptual frameworks that show how gender, learning styles, problematic gaming behavior, and success-economic gain motivation all play a role in game play.
Effectiveness of “How to Write a Sentence” as Instructional Material to Improve the Writing Skills of Grade 6 Pupils
Authors: Apolonio John Noah B.
Published: April 2023

As students’ progress in their studies, they must learn a variety of important skills. Among these is writing, which is undeniably one of the most important skills that every student must develop.   However, writing has always been a major challenge for students learning English, particularly in elementary schools and for second language learners. This study determined the effectiveness of the instructional material "How to Write a Sentence" as an intervention to improve the writing skills and academic performance in English of Grade 6 students at a public elementary school in the Philippines. The one-group pretest-posttest design of the quasi-experimental research design was used in this study. A 50-item pretest and posttest were used to assess the participants' academic performance before and after the intervention was implemented. The mean, standard deviation, and paired-samples t-test were used to interpret the data. Results revealed that the use of the instructional material "How to Write a Sentence" was found to be an effective intervention in improving the writing skills and academic performance in English of Grade 6 students at a public elementary school in the Philippines. It is recommended that administrators should encourage teachers to collaborate in order to further enhance or improve the intervention material or to create other contextualized and localized learning materials suited to diverse learner types.
Impact of Quality Management System Practices on the Business Performance of a Government Corporation in Clark Freeport Zone, Philippines
Authors: Quiambao Jherson L. , Alvaro Karlo Nicolas G.
Published: April 2023

Quality Management System [QMS] is an emerging management philosophy that takes its course amid today’s competitive and dynamic global markets where quality becomes a critical factor of business excellence. Discovering its value as a success factor, many studies were conducted to determine the level of influence of QMS practices on the business performance. Invested from the non-consensus findings from these studies and the scarcity of published papers about QMS in Philippine government corporations, the researchers conducted quantitative research in a government corporation in Clark Freeport Zone, Philippines, designed with descriptive, cross-sectional, causal-comparative framework to determine the impact of the QMS practices on its business performance. A 40-item close-ended survey instrument, tested for validity and reliability, was developed to measure the QMS practices in the context of the ISO 9001:2015 QMS, and the Business Performance in the perspectives of the Balanced Scorecard. This was accommodated by 125 respondents, representing 88% of its target population. Results revealed that the QMS practices dimensions top management leadership, customer orientation, process control and improvement, and employee engagement each had significant positive impact on each business performance perspectives financial, customer, internal business processes, and innovation and learning of the subject government corporation. Determining the influence of quality practices on business performance is significantly relevant in government corporations since these entities act as both a public sector and a business entity. It creates an opportunity for the Philippine leaders to justify the national thrust of delivering quality-oriented government service to the Filipino people.
Entrepreneur's Commitment to Achieve Success
Authors: Apriyanti Masayu Endang , Astuty Pudji
Published: April 2023

Entrepreneurs are noble jobs because they provide many benefits to others, help the government reduce unemployment and alleviate poverty, which in turn can improve people's welfare. However, not everyone wants and is able to become an entrepreneur, because to become a true entrepreneur, it is not only seeking profit for oneself, but also thinking about the good and benefits for many parties which is carried out wholeheartedly, by dedicating the best in every endeavor it undertakes.

This study analyzes secondary data, from articles, books, scientific journals and primary data through direct interviews with Mr. Alex Wijaya, as an entrepreneur at PT. Cpta Medya Filter, from this informants who are in accordance with their expertise in a field, so that those concerned can be used as resource persons to be used as objects of research, regarding the commitment of entrepreneurs in starting and operating their businesses to achieve success. The research findings show that the strong commitment of employers plays an important role in supporting the achievement of goals. a business that was founded 20 years ago, its credibility is getting better day by day, as evidenced by its effective business management, so that operations run smoothly and the business economy is getting better. even affected by the pandemic for about 2 years, demand has decreased and operations have stalled, but all can be overcome, able to survive and even have more assets for the welfare of the company and all employees.
Explorations of the Policy Drive to Foster a Research Culture within a Dual Sector Scottish HE Institution
Authors: O’Donnell Patrick
Published: April 2023

In August 2011, the University of the Highlands and Islands (UHI) celebrated the accolade of university title, becoming Scotland’s newest university. Modelled on a federal, collegiate university based on a number of existing and geographically dispersed Further Education (FE) colleges and research institutions, the UHI has clearly abandoned the more conventional model of a single campus university in a single location. This study focuses on structural and cultural developments within the UHI arrangement. In particular, it explores the policy drive to foster such a research culture, focusing on the period from 2003 to 2009. The study identified two different types of performativity discourses that proved to be central in shaping the policy aspiration, namely a ‘RAE performativity discourse’ and a ‘Further Education (FE) performativity discourse’. Both discourses can be seen to have influenced the trajectory of research expansionist policy within the UHI by setting up a normative space privileging certain identities, subjectivities and associated actions at the expense of others. The study aims to contribute to wider debates on institutional policies for building research capacity in a dual sector/hybrid institutional setting.

Note: This article is based on research findings from a Doctor of Education thesis completed by the author in 2011. The full research can be viewed at University of Stirling School of Education digital repository STORRE eTheses: http://hdl.handle.net/1893/3031)