bluuebunny/crossref_metadata_2025 huggingface dataset:
Reconstruction of the Cretaceous continental arc–trench system of the Japanese Islands: a basis for Cretaceous palaeoenvironmental studies
Authors: Ando Hisao , Takahashi Masaki
Published: February 2024

Spatiotemporal distributions of Cretaceous rocks differ markedly between the SW and NE Japan arcs. However, four parallel zonal arrangements of rocks are recognized broadly throughout both arcs: mostly non-marine sedimentary rocks in back-arc/intra-arc basins; granitic and volcanic rocks in magmatic arcs; predominantly marine and subordinately fluvial sedimentary rocks in forearc basins; and sedimentary rocks of turbiditic and mélange facies in accretionary complexes. These zones constituted a palaeo-Japan continental arc–trench system during the Cretaceous. We describe and correlate 71 Cretaceous back-arc/intra-arc and forearc basinal successions from Kyushu (south) to Hokkaido (north) islands, including a southern Sakhalin and two Kuril Arc (eastern Hokkaido) successions.

Stratigraphic ranges and major sedimentary facies are generally similar between the SW and NE Japan arcs, except for the pre-Aptian Lower Cretaceous in Hokkaido of NE Japan, suggesting continuity throughout the two arcs during the Cretaceous. Although Cretaceous strata are sporadically exposed in northern Honshu, NE Japan, interpretation of seismic sections suggests that Cretaceous forearc sedimentary rock measuring several tens of kilometres laterally are developed offshore beneath the present Pacific forearc. In contrast, Cretaceous forearc strata in southern SW Japan are distributed along two narrow belts that may have been deformed by post-Early Miocene tectonism.
Second-Harmonic Nonlinear Electrochemical Impedance Spectroscopy: Part II. Model-Based Analysis of Lithium-Ion Battery Experiments
Authors: Ji Yuefan , Schwartz Daniel T.
Published: February 2024

Quantitative analysis of electrochemical impedance spectroscopy (EIS) and 2nd-harmonic nonlinear EIS (2nd-NLEIS) data from commercial Li-ion batteries is performed using the porous electrode half-cell models developed in Part I. Because EIS and 2nd-NLEIS signals have opposite parity, the full-cell EIS model relies on the sum of cathode and anode half-cells whereas the full-cell 2nd-NLEIS model requires subtraction of the anode half-cell from the cathode. The full-cell EIS model produces a low error fit to EIS measurements, but importing EIS best-fit parameters into the 2nd-NLEIS model fails to ensure robust model-data convergence. In contrast, simultaneously fitting opposite parity EIS and 2nd-NLEIS models to the corresponding magnitude-normalized experimental data provides a lower total error fit, more internally self-consistent parameters, and better assignment of parameters to individual electrodes than EIS analysis alone. Our results quantify the extent that mild aging of cells (<1% capacity loss) results in substantial increases in cathode charge transfer resistance, and for the first time, a breakdown in cathode charge transfer symmetry at 30% and lower state-of-charge (SoC). New avenues for model-based analysis are discussed for full-cell diagnostic and we identify several open questions.
Highly Efficient and Stable Overall Water Splitting Electrocatalyst α-Co(OH)2@PN/NF with Hierarchical and Mesoporous Structure
Authors: Liu Menghua , Li Shuang , Shi Yixiang , Cai Ningsheng
Published: February 2024

Exploiting efficient, stable, and cost-effective bifunctional water splitting catalysts is extremely challenging. Here, we developed three-dimensional hierarchical porous catalysts with heterogeneous interfaces, α-Co(OH)2@PN/NF, by a facile two-step electrodeposition approach. This bifunctional electrocatalyst exhibits excellent hydrogen and oxygen evolution performance as well as stability in alkaline aqueous environments. In 1 M KOH solution, small overpotential of 187 mV was needed to drive the hydrogen evolution reaction (HER) at 100 mA cm−2, while the overpotential for the oxygen evolution reaction (OER) was 324 mV at 100 mA cm−2 current density. In addition, the two-electrode electrolytic cell with α-Co(OH)2@PN/NF electrodes for HER and OER required only approximately 1.74 V at 100 mA cm−2 with over 75 h of stable operation. According to the physical-chemical characterization results and electrochemical tests, such excellent performance was attributed to the synergistic effect of the heterogeneous interface and the hierarchical porous structure between α-Co(OH)2 and the nickel oxide layer, as it facilitates the transfer of electrons and the diffusion of ions.
Supplementary Table S6 from Phase I Study of Elraglusib (9-ING-41), a Glycogen Synthase Kinase-3β Inhibitor, as Monotherapy or Combined with Chemotherapy in Patients with Advanced Malignancies
Authors: Carneiro Benedito A. , Cavalcante Ludimila , Mahalingam Devalingam , Saeed Anwaar , Safran Howard , Ma Wen Wee , Coveler Andrew L. , Powell Steven , Bastos Bruno , Davis Elizabeth , Sahai Vaibhav , Mikrut William , Longstreth James , Smith Sheri , Weisskittel Taylor , Li Hu , Borden Brittany A. , Harvey R. Donald , Sahebjam Solmaz , Cervantes Andrés , Koukol Austin , Mazar Andrew P. , Steeghs Neeltje , Kurzrock Razelle , Giles Francis J. , Munster Pamela
Published: February 2024

Elraglusib Dose Levels and Reasons for Study Discontinuation
Abstract A023: lncRNA-protein interactions that predict response to endocrine therapy in HR+ breast cancer
Authors: Waiters Kacie D , Quttina Maram , Khan Ashfia F , Karami Samaneh , Peidl Anthony , Babajide Funmi , Bawa-Khalfe Tasneem
Published: February 2024

Hormone receptor positive (HR+) breast cancer (BCa) is the most frequently diagnosed BCa type accounting for 70% of all breast cancer cases. A large population of HR+ BCa patients (30-40%) are resistant to mainstay endocrine therapy and develop incurable metastatic disease. Hence, it is imperative to identify viable biomarkers that stratify patients as drug responders or non-responders. Emerging scientific literature highlights the essential role of long non-coding RNAs (lncRNA), a class of RNAs over 200 nucleotides in length that do not encode protein, in cancer drug resistance and metastatic transformation. Major biological functions of lncRNA rely on association with select protein interactors. As lncRNA equally bind proteins with and without canonical RNA-binding motifs, it is unclear what facilitates this lncRNA-protein interaction. Our recent studies show that SUMO post-translational modification (or SUMOylation) of target proteins potentiates binding with lncRNA, particularly at the chromatin. SUMOylation of heterochromatin protein 1 α (HP1α) drives interaction with multiple chromatin-associated lncRNA both within and outside canonical heterochromatin foci. Interaction with lncRNA supports SUMOylated HP1α’s unconventional function as a transcriptional repressor at select euchromatic loci. We now report an inverse relationship in which SUMOylated HP1α directs the stability of its lncRNA binding partner. Specifically, SUMO-modified HP1α directs cell-cycle dependent recruitment of the RNA degradation machinery to the chromatin and facilitates clearance of chromatin-bound lncRNA. This dynamic lncRNA degradation process is disturbed with cancer onset and instead favors aberrant cancer cell transformation. Consistently, restoring lncRNA degradation homeostasis decreases metastatic properties of HR+ BCa cells and increases sensitivity to targeted therapeutics currently in clinical trials. Our studies define a fundamental mechanism that dictates lncRNA stability and/or degradation in BCa cells. In addition, we present viable biomarkers that predict sensitivity to ET and alternative targeted therapies.

Citation Format: Kacie D Waiters, Maram Quttina, Ashfia F Khan, Samaneh Karami, Anthony Peidl, Funmi Babajide, Tasneem Bawa-Khalfe. lncRNA-protein interactions that predict response to endocrine therapy in HR+ breast cancer [abstract]. In: Proceedings of the AACR Special Conference in Cancer Research: Advances in Breast Cancer Research; 2023 Oct 19-22; San Diego, California. Philadelphia (PA): AACR; Cancer Res 2024;84(3 Suppl_1):Abstract nr A023.
Abstract A031: The role of nuclear epidermal growth factor receptor in cell migration and wound healing
Authors: DiFranco Danielle M , Schroeder Joyce
Published: February 2024

In breast cancer cells, epidermal growth factor receptor (EGFR) can retrotranslocate to the nucleus where it acts as a transcription cofactor and activates pro-oncogenic pathways such as stemness and migration. This retrotranslocation can occur through interaction with the BAR domain-containing protein Sorting Nexin 1 (SNX1). Upon retrotranslocation, EGFR is removed from the membrane via the Sec61 translocon, where the now soluble EGFR can interact with heat shock proteins and nuclear importins via its conserved nuclear localization sequence (NLS). Presence of the NLS in all wildtype EGFR indicates nuclear EGFR (nEGFR) also plays a role in non-cancerous tissue. EGFR is a known contributor to wound-healing, migration, and mammary gland development but the role of nEGFR in these processes has yet to be elucidated. Our lab has created cSNX1.3, a peptide-based therapeutic that recapitulates the BAR domain of Sorting Nexin 1. CSNX1.3 competitively binds to EGFR to prevent nuclear trafficking, and this treatment is effective at killing cancer cells that express EGFR, while leaving non-cancerous cells alive. In addition, cSNX1.3 is a potent inhibitor of EGF-dependent cell migration in Triple Negative Breast Cancer cell lines. Based on this data, we hypothesize that, in response to a wound, nEGFR activates cell migration pathways to promote wound healing. To better understand the role of nEGFR in wound healing and migration of non-cancer cell types, we have utilized CRISPR/Cas9 to insert mScarlet or mVenus, improved fluorescent proteins, onto the C-terminus of endogenous EGFR in immortalized MCF10A cells. Using a live cell imaging platform, we discovered that cells on the leading edge of a wound have increased levels of nEGFR. Furthermore, treatment with cSNX1.3 inhibits the migration of MCF10As and reduces levels of nEGFR. This data implies a role for nEGFR in the migration of MCF10As during wound healing. Future studies will delve deeper into the triggers of EGFR retrotranslocation to the nucleus and investigate the specific proteins nEGFR interacts with to affect cell migration. By elucidating the intrinsic role of nuclear EGFR in non-cancerous tissue types, we can better understand how cancer takes advantage of these molecular pathways and possibly its role in the cell migration essential to metastatic progression.

Citation Format: Danielle M DiFranco, Joyce Schroeder. The role of nuclear epidermal growth factor receptor in cell migration and wound healing [abstract]. In: Proceedings of the AACR Special Conference in Cancer Research: Advances in Breast Cancer Research; 2023 Oct 19-22; San Diego, California. Philadelphia (PA): AACR; Cancer Res 2024;84(3 Suppl_1):Abstract nr A031.
Abstract B003: Investigating PHLDA2 as a Genetic Driver of Breast Cancer Metastasis
Authors: Halas Paige , Savage Hannah , Ma Dennis , Insua-Rodriguez Jacob , Mallya Sharmila , Chan Connie , Domadia Radhika , Lev Tatyana , Lawson Devon
Published: February 2024

Metastasis is cancer’s lethal driver. Metastatic cancer cells leave the primary tumor and travel through the blood stream to distal sites. These cancer cells are aggressive, highly recurring and pose challenges for clinical treatment. There is a critical need to define drivers of metastasis in order to identify novel drug targets and improve patient prognosis. Our previous work identified a potential breast cancer metastasis promoting gene known as PHLDA2. By single cell RNA sequencing, PHLDA2 gene expression was elevated in metastatic lesions compared to primary breast tumor tissue. This gene has not previously been linked to cancer metastasis; therefore, the objective of the current study is to confirm PHLDA2 as a driver of breast cancer metastasis and define the mechanisms by which it exerts its pro-metastatic function. We manipulated multiple breast cancer models to have elevated or reduced PHLDA2 levels to investigate its role in metastasis. We have additionally explored the mechanism of PHLDA2 in metastasis at the RNA level by qPCR, the protein level by western blot analysis, and the organ level using immunofluorescence staining and bulk sequencing. We confirmed using our breast cancer models of elevated or reduced PHLDA2 expression that PHLDA2 has a pro-metastatic function. Bulk RNA sequencing data revealed that PHLDA2 promotes extracellular matrix (ECM) remodeling. This finding is significant as ECM remodeling plays a critical role in cancer progression and metastasis. Investigation of PHLDA2’s pro-metastatic function is necessary to gain deeper insights into the mechanisms of cancer cell spread and reveal novel drug targets to improve patient survival.

Citation Format: Paige Halas, Hannah Savage, Dennis Ma, Jacob Insua-Rodriguez, Sharmila Mallya, Connie Chan, Radhika Domadia, Tatyana Lev, Devon Lawson. Investigating PHLDA2 as a Genetic Driver of Breast Cancer Metastasis [abstract]. In: Proceedings of the AACR Special Conference in Cancer Research: Advances in Breast Cancer Research; 2023 Oct 19-22; San Diego, California. Philadelphia (PA): AACR; Cancer Res 2024;84(3 Suppl_1):Abstract nr B003.
Abstract A020: An early determination of patients eligibility for a bladder cancer immunotherapy using a data science approach
Authors: Olumoyin Kayode D. , Aydin Ahmet M. , Bunch Brittany L , Pilon-Thomas Shari , Poch Michael , Rejniak Katarzyna A.
Published: February 2024

Advanced bladder cancer patients have limited treatment options and, in most cases, limited overall survival. The first clinical trial with adoptive T cell therapy (ACT) that uses bladder cancer patients’ autologous tumor-infiltrating T lymphocytes (TILs) has been recently opened at Moffitt. To help identify which patients could benefit from ACT-TIL we are developing a machine learning predictor that takes advantage of tumor evolution data, such as tumor stages and grades routinely collected in clinic. The first phase of ACT-TIL involves resection of the primary tumor and the growth of TILs followed by a rapid expansion protocol of the reactive T cells. It may take up to 4-5 weeks before bladder cancer patients can get their own expanded TILs. Our predictor aims to determine whether the tumor isolated from a patient will grow TILs. In this work, we present a machine learning predictor of expansion of tumor infiltrating lymphocytes (ML-PETIL) that uses retrospectively collected patient tumor data with either demographic, clinical, or biological sample-related features. The proposed method consists of a suite of algorithms to identify a robust set of predictive features (feature selection algorithms) that are used to discriminate the dataset into two classes-that with successful TIL expansion or with no TIL growth (classification algorithms). Our predictor includes metrics which are used to address data imbalance and handle small to medium-sized datasets that contain features of varying datatypes and magnitudes. The ML-PETIL protocol offers an early determination of patients who would be eligible for ACT-TIL therapy.

Citation Format: Kayode D. Olumoyin, Ahmet M. Aydin, Brittany L Bunch, Shari Pilon-Thomas, Michael Poch, Katarzyna A. Rejniak. An early determination of patients eligibility for a bladder cancer immunotherapy using a data science approach [abstract]. In: Proceedings of the AACR Special Conference in Cancer Research: Translating Cancer Evolution and Data Science: The Next Frontier; 2023 Dec 3-6; Boston, Massachusetts. Philadelphia (PA): AACR; Cancer Res 2024;84(3 Suppl_2):Abstract nr A020.
Supplementary Table S8 from High-Fat Diet Promotes Acute Promyelocytic Leukemia through PPARδ-Enhanced Self-renewal of Preleukemic Progenitors
Authors: Mazzarella Luca , Falvo Paolo , Adinolfi Marta , Tini Giulia , Gatti Elena , Piccioni Rossana , Bonetti Emanuele , Gavilán Elena , Valli Debora , Gruszka Alicja , Bodini Margherita , Gallo Barbara , Orecchioni Stefania , de Michele Giulia , Migliaccio Enrica , Duso Bruno A. , Roerink Sophie , Stratton Mike , Bertolini Francesco , Alcalay Myriam , Dellino Gaetano Ivan , Pelicci Pier Giuseppe
Published: February 2024

Supplementary Table S8: pathways enriched in PPARD targets
Supplementary Table S7 from High-Fat Diet Promotes Acute Promyelocytic Leukemia through PPARδ-Enhanced Self-renewal of Preleukemic Progenitors
Authors: Mazzarella Luca , Falvo Paolo , Adinolfi Marta , Tini Giulia , Gatti Elena , Piccioni Rossana , Bonetti Emanuele , Gavilán Elena , Valli Debora , Gruszka Alicja , Bodini Margherita , Gallo Barbara , Orecchioni Stefania , de Michele Giulia , Migliaccio Enrica , Duso Bruno A. , Roerink Sophie , Stratton Mike , Bertolini Francesco , Alcalay Myriam , Dellino Gaetano Ivan , Pelicci Pier Giuseppe
Published: February 2024

Supplementary Table S7: PPARd peaks in ChIPseq
Supplementary Table S4 from High-Fat Diet Promotes Acute Promyelocytic Leukemia through PPARδ-Enhanced Self-renewal of Preleukemic Progenitors
Authors: Mazzarella Luca , Falvo Paolo , Adinolfi Marta , Tini Giulia , Gatti Elena , Piccioni Rossana , Bonetti Emanuele , Gavilán Elena , Valli Debora , Gruszka Alicja , Bodini Margherita , Gallo Barbara , Orecchioni Stefania , de Michele Giulia , Migliaccio Enrica , Duso Bruno A. , Roerink Sophie , Stratton Mike , Bertolini Francesco , Alcalay Myriam , Dellino Gaetano Ivan , Pelicci Pier Giuseppe
Published: February 2024

Supplementary Table S4: differentially expressed genes upon LINO vs BSA treatment in NB4 RNAseq
Supplementary Table S1 from High-Fat Diet Promotes Acute Promyelocytic Leukemia through PPARδ-Enhanced Self-renewal of Preleukemic Progenitors
Authors: Mazzarella Luca , Falvo Paolo , Adinolfi Marta , Tini Giulia , Gatti Elena , Piccioni Rossana , Bonetti Emanuele , Gavilán Elena , Valli Debora , Gruszka Alicja , Bodini Margherita , Gallo Barbara , Orecchioni Stefania , de Michele Giulia , Migliaccio Enrica , Duso Bruno A. , Roerink Sophie , Stratton Mike , Bertolini Francesco , Alcalay Myriam , Dellino Gaetano Ivan , Pelicci Pier Giuseppe
Published: February 2024

Supplementary Table S1: Results of BRASS analysis on colonies WGS
Supplementary Figure S2 from High-Fat Diet Promotes Acute Promyelocytic Leukemia through PPARδ-Enhanced Self-renewal of Preleukemic Progenitors
Authors: Mazzarella Luca , Falvo Paolo , Adinolfi Marta , Tini Giulia , Gatti Elena , Piccioni Rossana , Bonetti Emanuele , Gavilán Elena , Valli Debora , Gruszka Alicja , Bodini Margherita , Gallo Barbara , Orecchioni Stefania , de Michele Giulia , Migliaccio Enrica , Duso Bruno A. , Roerink Sophie , Stratton Mike , Bertolini Francesco , Alcalay Myriam , Dellino Gaetano Ivan , Pelicci Pier Giuseppe
Published: February 2024

Supplementary Figure S2: extension of RNAseq and PPARd ChIPseq analysis, related to figure 6
Data from Breast Cancer Polygenic-Risk Score Influence on Risk-Reducing Endocrine Therapy Use: Genetic Risk Estimate (GENRE) Trial 1-Year and 2-Year Follow-Up
Authors: Stan Daniela L. , Kim Julian O. , Schaid Daniel J. , Carlson Erin E. , Kim Christina A. , Sinnwell Jason P. , Couch Fergus J. , Vachon Celine M. , Cooke Andrew L. , Goldenberg Benjamin A. , Pruthi Sandhya
Published: February 2024

Abstract
Refinement of breast cancer risk estimates with a polygenic-risk score (PRS) may improve uptake of risk-reducing endocrine therapy (ET). A previous clinical trial assessed the influence of adding a PRS to traditional risk estimates on ET use. We stratified participants according to PRS-refined breast cancer risk and evaluated ET use and ET-related quality of life (QOL) at 1-year (previously reported) and 2-year follow-ups. Of 151 participants, 58 (38.4%) initiated ET, and 22 (14.6%) discontinued ET by 2 years; 42 (27.8%) and 36 (23.8%) participants were using ET at 1- and 2-year follow-ups, respectively. At the 2-year follow-up, 39% of participants with a lifetime breast cancer risk of 40.1% to 100.0%, 18% with a 20.1% to 40.0% risk, and 16% with a 0.0% to 20.0% risk were taking ET (overall P = 0.01). Moreover, 40% of participants whose breast cancer risk increased by 10% or greater with addition of the PRS to a traditional breast cancer-risk model were taking ET versus 0% whose risk decreased by 10% or greater (P = 0.004). QOL was similar for participants taking or not taking ET at 1- and 2-year follow-ups, although most who discontinued ET did so because of adverse effects. However, these QOL results may have been skewed by the long interval between QOL surveys and lack of baseline QOL data. PRS-informed breast cancer prevention counseling has a lasting, but waning, effect over time. Additional follow-up studies are needed to address the effect of PRS on ET adherence, ET-related QOL, supplemental breast cancer screening, and other risk-reducing behaviors.
Prevention Relevance:
Risk-reducing medications for breast cancer are considerably underused. Informing women at risk with precise and individualized risk assessment tools may substantially affect the incidence of breast cancer. In our study, a risk assessment tool (IBIS-polygenic-risk score) yielded promising results, with 39% of women at highest risk starting preventive medication.
Supplementary table 1 from Single-Cell Transcriptomics Reveals the Heterogeneity of the Immune Landscape of IDH–Wild-Type High-Grade Gliomas
Authors: Ran Xiaojuan , Zheng Jian , Chen Linchao , Xia Zhen , Wang Yin , Sun Chengfang , Guo Chen , Lin Peng , Liu Fuyi , Wang Chun , Zhou Jianguo , Sun Chongran , Liu Qichang , Ma Jianzhu , Qin Zhiyong , Zhu Xiangdong , Xie Qi
Published: February 2024

Supplementary table 1
Supplementary Figure 5 from Single-Cell Transcriptomics Reveals the Heterogeneity of the Immune Landscape of IDH–Wild-Type High-Grade Gliomas
Authors: Ran Xiaojuan , Zheng Jian , Chen Linchao , Xia Zhen , Wang Yin , Sun Chengfang , Guo Chen , Lin Peng , Liu Fuyi , Wang Chun , Zhou Jianguo , Sun Chongran , Liu Qichang , Ma Jianzhu , Qin Zhiyong , Zhu Xiangdong , Xie Qi
Published: February 2024

Supplementary Figure 5
Supplementary Figure S5 from RALDH1 Inhibition Shows Immunotherapeutic Efficacy in Hepatocellular Carcinoma
Authors: Yu Pengfei , Cao Shuwen , Yang Shyh-Ming , Rai Ganesha , Martinez Natalia J. , Yasgar Adam , Zakharov Alexey V. , Simeonov Anton , Molina Arocho William A. , Lobel Graham P. , Mohei Hesham , Scott Alexis L. , Zhai Li , Furth Emma E. , Simon M. Celeste , Haldar Malay
Published: February 2024

Supplementary Figure
Supplementary Figure S4 from RALDH1 Inhibition Shows Immunotherapeutic Efficacy in Hepatocellular Carcinoma
Authors: Yu Pengfei , Cao Shuwen , Yang Shyh-Ming , Rai Ganesha , Martinez Natalia J. , Yasgar Adam , Zakharov Alexey V. , Simeonov Anton , Molina Arocho William A. , Lobel Graham P. , Mohei Hesham , Scott Alexis L. , Zhai Li , Furth Emma E. , Simon M. Celeste , Haldar Malay
Published: February 2024

Supplementary Figure
Supplementary Figure S3 from RALDH1 Inhibition Shows Immunotherapeutic Efficacy in Hepatocellular Carcinoma
Authors: Yu Pengfei , Cao Shuwen , Yang Shyh-Ming , Rai Ganesha , Martinez Natalia J. , Yasgar Adam , Zakharov Alexey V. , Simeonov Anton , Molina Arocho William A. , Lobel Graham P. , Mohei Hesham , Scott Alexis L. , Zhai Li , Furth Emma E. , Simon M. Celeste , Haldar Malay
Published: February 2024

Supplementary Figure
Figure S12 from M9657 Is a Bispecific Tumor-Targeted Anti-CD137 Agonist That Induces MSLN-Dependent Antitumor Immunity without Liver Inflammation
Authors: Xu Chunxiao , Zhou Xueyuan , Webb Lindsay , Yalavarthi Sireesha , Zheng Wenxin , Saha Somdutta , Schweickhardt Rene , Soloviev Maria , Jenkins Molly H. , Brandstetter Susanne , Belousova Natalya , Alimzhanov Marat , Rabinovich Brian , Deshpande Amit M. , Brewis Neil , Helming Laura
Published: February 2024

Depletion of CD4+ T cells, CD8+ T cells, or NK cells partially abrogates FS122m antitumor activity and FS122m treatment elicits a distinct immunophenotypic signature and pharmacodynamic response in CT26-KSA tumor model
Supplement figure 7 from Tumor-Derived RAB21+ABHD12+ sEVs Drive the Premetastatic Microenvironment in the Lung
Authors: Wu Kun , Li Yan , Ji Yikang , Liu Chun , Wang Xiaoning , Guo Haiyan , Zhang Jianjun , He Yue
Published: February 2024

Supplementary Figure 7. For preparing pre-metastatic niche formation with conditional (sEVsNC, sEVsNC + anti-PD-1, sEVsRAB21-KD + anti-PD-1, sEVsABHD12-KD + anti-PD-1, sEVsNC + FTY720 and sEVsNC + anti-PD-1+ FTY720) every 3 day for 3 weeks, followed with tail vein injection of SCC7GFP for performing lung metastasis vivo experiments. (a) Flow cytometry analysis for percentage of CD4+ T cells; (b) Flow cytometry analysis for percentage of Tregs.
Supplement figure 5 from Tumor-Derived RAB21+ABHD12+ sEVs Drive the Premetastatic Microenvironment in the Lung
Authors: Wu Kun , Li Yan , Ji Yikang , Liu Chun , Wang Xiaoning , Guo Haiyan , Zhang Jianjun , He Yue
Published: February 2024

Supplementary Figure 5. (a) The normal saline (Control) and sEVs derived from SCC7 (50μg, sEVsNC and sEVsABHD12-KD) were injected into tail vein. After 2 h, immunofluorescence staining of ABHD12 distribution (Red) and different immune-associated cell types (Green), including macrophages (CD68+) in lung tissue. (b-d) For preparing pre-metastatic niche formation with conditional sEVs (sEVsNC, sEVsABHD12-KD, sEVsABHD12-OE and sEVsRAB21-KD) injection via tail vein every 3 day for 3 weeks, followed with tail vein injection of SCC7GFP for performing lung metastasis vivo experiment. (b) Flow cytometry analysis for Granzyme B level of CD8 T cells; (c) Flow cytometry analysis for CD44 level of CD8 T cells. (d) Flow cytometry analysis for percentage of CD4+ T cells; (e) Flow cytometry analysis for percentage of Tregs.
Supplementary Table S2 from Immune Modulation of Innate and Adaptive Responses Restores Immune Surveillance and Establishes Antitumor Immunologic Memory
Authors: Alvero Ayesha B. , Fox Alexandra , Madina Bhaskara Reddy , Krady Marie M. , Gogoi Radhika , Chehade Hussein , Nakaar Valerian , Almassian Bijan , Yarovinsky Timur O. , Rutherford Thomas , Mor Gil
Published: February 2024

Primers used for qPCR reactions
Supplementary Table S1 from Immune Modulation of Innate and Adaptive Responses Restores Immune Surveillance and Establishes Antitumor Immunologic Memory
Authors: Alvero Ayesha B. , Fox Alexandra , Madina Bhaskara Reddy , Krady Marie M. , Gogoi Radhika , Chehade Hussein , Nakaar Valerian , Almassian Bijan , Yarovinsky Timur O. , Rutherford Thomas , Mor Gil
Published: February 2024

Primers used to clone CARG-2020, VLV-12 and VLV-GFP
Supplementary Figure 7 from Immune Modulation of Innate and Adaptive Responses Restores Immune Surveillance and Establishes Antitumor Immunologic Memory
Authors: Alvero Ayesha B. , Fox Alexandra , Madina Bhaskara Reddy , Krady Marie M. , Gogoi Radhika , Chehade Hussein , Nakaar Valerian , Almassian Bijan , Yarovinsky Timur O. , Rutherford Thomas , Mor Gil
Published: February 2024

A. Mean tumor burden over time of nude mice bearing OCSC1-F2 human ovarian tumors. mCherry fluorescent ROI was used to provide a measure of tumor burden. Data are presented as mean ± SEM. Treatments began on day 6 and continued through to day 12.
B. Survival analysis using Kaplan-Meier.
 
Supplementary Figure 5 from Immune Modulation of Innate and Adaptive Responses Restores Immune Surveillance and Establishes Antitumor Immunologic Memory
Authors: Alvero Ayesha B. , Fox Alexandra , Madina Bhaskara Reddy , Krady Marie M. , Gogoi Radhika , Chehade Hussein , Nakaar Valerian , Almassian Bijan , Yarovinsky Timur O. , Rutherford Thomas , Mor Gil
Published: February 2024

A. Cytolytic effect of VLV-GFP in cancer cells is mediated by the induction of pro-apoptotic genes. Treatment of cancer cells with VLV-GFP is associated with a significant increase on TRAIL and FAS mRNA expression. *=p>0.005; **= p>0.001
B. In vivo induction of pro-apoptotic genes. Mice bearing mCherry-TKO tumors were treated 2X with VLV-GFP. The expression of TRAIL and FAS was determined 24h after the last treatment. Note the significant increase on TRAIL and FAS mRNA expression following VLV-GFP treatment. ***= p>0.0001
Supplementary Table S2 from Engagement of CD99 Activates Distinct Programs in Ewing Sarcoma and Macrophages
Authors: Manara Maria Cristina , Manferdini Cristina , Cristalli Camilla , Carrabotta Marianna , Santi Spartaco , De Feo Alessandra , Caldoni Giulia , Pasello Michela , Landuzzi Lorena , Lollini Pier-Luigi , Salamanna Francesca , Dominici Sabrina , Fiori Valentina , Magnani Mauro , Lisignoli Gina , Scotlandi Katia
Published: February 2024

Gene expression analysis and cytokine release of M0 and M2 like macrophages co-cultured with TC-EGFP cells treated with anti-CD99 mAbs.
Supplementary Figure S4 from Aberrant Upregulation of RUNX3 Activates Developmental Genes to Drive Metastasis in Gastric Cancer
Authors: Suda Kazuto , Okabe Atsushi , Matsuo Junichi , Chuang Linda Shyue Huey , Li Ying , Jangphattananont Nawaphat , Mon Naing Naing , Myint Khine Nyein , Yamamura Akihiro , So Jimmy Bok-Yan , Voon Dominic Chih-Cheng , Yang Henry , Yeoh Khay Guan , Kaneda Atsushi , Ito Yoshiaki
Published: February 2024

Chromatin status relative to RUNX3 peaks at the WNT5A promoter Enlarged image of the ChIPseq analysis of WNT5A locus in Fig. 4.
FIGURE 5 from Aberrant Upregulation of RUNX3 Activates Developmental Genes to Drive Metastasis in Gastric Cancer
Authors: Suda Kazuto , Okabe Atsushi , Matsuo Junichi , Chuang Linda Shyue Huey , Li Ying , Jangphattananont Nawaphat , Mon Naing Naing , Myint Khine Nyein , Yamamura Akihiro , So Jimmy Bok-Yan , Voon Dominic Chih-Cheng , Yang Henry , Yeoh Khay Guan , Kaneda Atsushi , Ito Yoshiaki
Published: February 2024

WNT5A plays a pivotal role in RUNX3-mediated metastasis in gastric cancer cells. A, immunoblot for WNT5A in HGC-27 after RUNX3 KO, LMSU after RUNX3 KD, and GAS24 after RUNX3 OE is shown. B, Immunoblot for WNT5A in HGC-27 and LMSU after siWNT5A, and in GAS24 after WNT5A recombinant treatment (0.1 mg/mL). C, Invasion and migration analysis for HGC-27 and LMSU after siRNA mediated WNT5A KD, and in GAS24 after WNT5A recombinant treatment (0.1 mg/mL). Experiments were repeated three times. Typical images from one experiment are shown (top). Cell invasion and migration were counted and quantified from 5 different high-power fields in each experiment (bottom); ***, P < 0.001 and **, P < 0.01 by a two-tailed Student t test. D, Invasion and migration analysis for HGC-27 KO and KO after WNT5A recombinant treatment (0.1 mg/mL). Experiments were repeated three times. Typical images from one experiment are shown (left). Cell invasion and migration were counted and quantified from 5 different high-power fields in each experiment (right); **, P < 0.01 and *, P < 0.05 by a two-tailed Student t test.
FIGURE 1 from Aberrant Upregulation of RUNX3 Activates Developmental Genes to Drive Metastasis in Gastric Cancer
Authors: Suda Kazuto , Okabe Atsushi , Matsuo Junichi , Chuang Linda Shyue Huey , Li Ying , Jangphattananont Nawaphat , Mon Naing Naing , Myint Khine Nyein , Yamamura Akihiro , So Jimmy Bok-Yan , Voon Dominic Chih-Cheng , Yang Henry , Yeoh Khay Guan , Kaneda Atsushi , Ito Yoshiaki
Published: February 2024

RUNX3 promotes cancer cell migration and invasion. A, The efficiency of siRUNX3 KD in HGC-27 and LMSU and RUNX3 OE in GAS24 were validated by immunoblot. B, Invasion and migration analysis for siRUNX3 in HGC-27 and LMSU and also RUNX3 OE in GAS24. Experiments were repeated three times. Typical images from one experiment are shown. C, Cell invasion and migration were counted and quantified from 5 different high-power fields in each experiment; ***, P < 0.001; **, P < 0.01; and *, P < 0.05 by a two-tailed Student t test.
Thyroid Ethanol and Radiofrequency Ablation: A Call for Patient-Friendly Online Resources
Authors: Xing Monica H. , Shaari Ariana L. , Beute John E. , Yun Jun , Chai Raymond L.
Published: February 2024

Introduction: The multiple treatment options available to patients with thyroid nodules can generate uncertainty and confusion. Radiofrequency ablation (RFA) and ethanol ablation (EA) are two alternative modalities to manage thyroid nodules. As patients more frequently utilize online resources to guide their decision-making, the quality of such resources must be evaluated. The goal of this study was to assess the quality of online patient materials relating to RFA and EA compared to standard thyroidectomy. Methods: The terms “thyroidectomy,” “thyroid radiofrequency ablation,” and “thyroid ethanol ablation” were searched on Google. Flesch Reading Ease (FRE), Flesch-Kincaid Grade Level (FKGL), Simple Measure of Gobbledygook (SMOG), and Patient Education Materials Assessment Tool (PEMAT) understandability and actionability were calculated for each website. Statistical analysis was conducted on SPSS Statistics. Google trends were used to determine search interest for each term (May 2016 – May 2021). Results: Of the 77 websites that met our inclusion criteria (30 thyroidectomy sites, 30 RFA sites, and 17 EA sites), the average FRE, FKGL, and SMOG scores of the RFA websites were significantly worse than those of the thyroidectomy websites (p < 0.05). The FKGL and SMOG scores of the EA websites were significantly worse than those of the thyroidectomy websites (p < 0.05). The average understandability and actionability scores for thyroidectomy websites were significantly higher than those of RFA and EA websites (p < 0.05). Conclusion: Ablation websites have lower search interest, readability, validity, understandability, and actionability scores in comparison to traditional thyroidectomy websites. Our findings emphasize the need to consider readability and PEMAT scores when developing online educational resources for ablative alternatives to thyroidectomy to allow for greater patient accessibility.
Benchmarking Large Language Models for News Summarization
Authors: Zhang Tianyi , Ladhak Faisal , Durmus Esin , Liang Percy , McKeown Kathleen , Hashimoto Tatsunori B.
Published: February 2024

Large language models (LLMs) have shown promise for automatic summarization but the reasons behind their successes are poorly understood. By conducting a human evaluation on ten LLMs across different pretraining methods, prompts, and model scales, we make two important observations. First, we find instruction tuning, not model size, is the key to the LLM’s zero-shot summarization capability. Second, existing studies have been limited by low-quality references, leading to underestimates of human performance and lower few-shot and finetuning performance. To better evaluate LLMs, we perform human evaluation over high-quality summaries we collect from freelance writers. Despite major stylistic differences such as the amount of paraphrasing, we find that LLM summaries are judged to be on par with human written summaries.
Differential Treatment and Temporary Protection Arrangements: Discrimination or Legitimate Distinctions?
Authors: Kienast Julia , Vedsted-Hansen Jens
Published: February 2024

This article analyses the differential treatment among refugees inherent to temporary protection arrangements. What was particularly remarkable in the EU’s response to displacement from Ukraine, for instance, was the free access for Ukrainians to EU territory and even free choice to seek protection in any Member State. Thus, the persons under this arrangement are better off initially, and this may seem preferable to the deterrence measures taken in response to other cases of ‘mass influx’ which restricted, rather than facilitated, access to protection. As it may in the longer term be better for some refugees to undergo the ordinary asylum procedure and eventually receive refugee or subsidiary protection status, temporary protection raises complex questions of differential treatment. At the same time, within the ordinary asylum procedure some EU Member States have introduced distinctions resulting in differential treatment of certain refugee categories whose need for protection is perceived to be temporary. This article positions the implementation of the various temporary protection arrangements within the general norms of non-discrimination by analysing key aspects of differential treatment and attempting to identify the boundary between lawful and unlawful distinctions.
The More Favourable Provision Clause in EU Migration Law: Expanding Fundamental Rights through National Discretion?
Authors: Romano Andrea
Published: February 2024

Interaction between different levels of fundamental rights protection is a widely debated topic in EU scholarship, which has long dealt with situations in which national legislation lowered legal standards in the EU. Less explored, however, is the opposite case: when Member State regulations set standards higher than those enshrined at EU level. This can occur through application of the more favourable provision (MFP) clause – commonly enshrined in EU directives dealing with (but not limited to) immigration and asylum. Under it, Member States can apply more favourable standards insofar as they comply with EU legislation. Though seldom discussed in existing literature, the MFP clause is a critical issue of EU migration law and illustrative of challenges facing the EU constitutional order, for it highlights the relationship between fundamental rights protection in the multi-layered EU system and general principles of EU law. Against this backdrop, this paper will investigate the features of the MFP clause in EU migration law and analyse the CJEU’s adjudication in immigration and asylum cases, exploring its reasoning in testing application of MFP clause against EU law.
Mechanical properties of a carbon fiber reinforced epoxy resin composite improved by integrating multi-walled carbon nanotubes and graphene nanoplatelets
Authors: Yuksel Esranur , Eksik Osman , Haykiri-Acma Hanzade , Yaman Serdar
Published: February 2024

The pairs of nanofillers prepared by graphene nanoplatelets (GNPs) and multi-walled carbon nanotubes (MWCNTs) were added to the epoxy matrix in various ratios to produce hybrid epoxy nanocomposites. The effects of the presence of these nanofillers at 0.1–0.4 wt.% on the mechanical and thermal properties were tested. Likewise, carbon fiber reinforced MWCNT/GNP modified epoxy nanocomposite laminates were also manufactured and tested. The dispersion of nanofiller in the polymer matrix was evaluated by Scanning Electron Microscopy (SEM). It was determined that the hybrid composite consisting of a MWCNT:GNP ratio of 1:3 and a nanofiller ratio of 0.3 wt.% showed the best mechanical properties with a tensile strength of 75.1 MPa. The presence of GNPs and MWCNT nanofillers in epoxy/carbon fiber laminates influenced positively the tensile strength and strain but negatively the elastic modulus. Glass transition temperature of epoxy increased from 87.25°C to 114.67°C for MWCNT:GNP ratio of 1:1 (0.3 wt.%).
Effect of stable-structural 3D woven preform on tensile and flexural properties of carbon fiber/epoxy composites
Authors: Ma Zhenyu , Man Ruidong , Yin Zhenhua , Chen Heyi , Yin Dongdong , Jiang Yongliang , Wensuo Ma  , Jia Chenhui
Published: February 2024

The geometry of yarns effect the structural stability of 3D woven preform, which influence the mechanical properties of carbon fiber/epoxy composites. To investigate the effect of stable-structural preform on the elastic properties of 3D woven composites, the factors that caused the unstable structure of preform were discussed, and comparative study was conducted. The geometric models of yarn cross-section and preform were established to discuss the stability. The results showed that increasing the opening angle of warp yarns and the elongation of yarn outer contour can improve the stability of preform. The tensile and bending tests of 3DLAC and 3DBAC with stable and unstable structural preform were conducted. The results showed that the tensile and flexural elastic moduli were inversely proportional to the curvature of load-bearing yarns, and the elastic modulus of composites with stable-structural preform can increase by 9%–13%. The redistribution of internal stress in composites was macroscopically manifested as stable changes in experimental process. 3D woven composites with stable-structural preform showed the regular fracture cross-section, and fiber fracture and interface adhesion effect were the main failure mode in tensile tests, and fiber fracture on the compression surface and matrix cracking were the main failure modes in bending tests.
Developing a proof-of-concept curriculum foundation model for industry 5.0: A primary data survey of built environment academics
Authors: Posillico John J , Edwards David J
Published: February 2024

Purpose: Higher education curriculum development in the construction industry has historically received scant academic attention and often, courses/programmes are largely developed using the tacit knowledge of individual tutors. This research investigates the core interpersonal and technical skills and competencies required of a contemporary construction management graduate. Specifically, the work culminates in the development of a proof-of-concept model that could be incorporated into higher education curriculum development. Methodology: A mixed philosophical stance is implemented using both postpositivism and interpretivism together with inductive and abductive reasoning to examine built environment academics’ perceptions of the phenomena under investigation. Descriptive and inferential statistics (i.e., weighted average, relative importance index, one sample t test, Chi-square test and Kruskal-Wallis test) are utilised to formulate a foundational set of core interpersonal skills for construction management curricula. Such knowledge provides a strong foundation for building an optimised course curriculum. Findings: Research findings demonstrate that, whilst technical skills are relatively important for the construction manager’s role, they significantly pale in comparison to interpersonal skills. Furthermore, an aggregate ranking of skills and competencies suggests that a substantial number of interpersonal skills and competencies out-rank numerous technical skills and competencies. Surprisingly, digital-esque themes rank towards the bottom of the table, with ‘traditional’ skills competencies (i.e., workflow, budgeting and costing) ranking higher. Originality: This research constitutes the first attempt to: understand the core interpersonal and technical skills and competencies required of a contemporary construction manager; and premised upon this, generate a construction management education curriculum foundation model. Nascent findings pinpoint the core interpersonal skills and competencies that serve as the curriculum’s foundation and expose the inadequacies of digital technical skills in core construction management teaching.
The podcast in the consumption agenda of Colombian digital users
Authors: Barrios-Rubio Andrés , Reyes Espitia Juan Felipe
Published: February 2024

The proliferation of smartphones as the hub of consumption through screen devices has created a fresh path for accessing information, entertainment, and musical content. The digital ecosystem is revitalizing sound, and users are venturing into narratives and alternative formats that grab their attention and shape a content regimen that defines their sonosphere. This study centers on assessing audience indicators in digital repositories via surveys and systematized focus groups that characterize podcast listeners in Colombia. The main objective is to evaluate the podcast’s reach, thematic interests and developmental structures. In order to identify gaps for the effective expansion and integration of sound in devices and channels where audio content is widely used, this study examines the impact of podcasts on the sound culture of Colombians. In order to identify gaps for the effective expansion and integration of sound in devices and channels where audio content is widely used, this study examines the impact of podcasts on the sound culture of Colombians. The study also profiles Colombian sound consumers through display devices in the current radio landscape. The podcast serves as a means of linking novel audiences with auditory communication, a triangulation of radio content, music, and podcasts which syncs with digital consumption trends and deviates from the simultaneous and drawn-out consumption of radio broadcasts.
Epidemiology of Concussive Injuries in Collegiate Recreational Athletes
Authors: Flowers Maddison , Morogiello Jenna , Hunt Tamerah , Siekirk Nicholas J. , Wilson Samuel
Published: February 2024

Concussion rates are commonly reported in high school and National Collegiate Athletics Association (NCAA) sports. Given that participation in collegiate recreation is on the rise, institutions should examine concussion rates within their recreational programs. We, therefore, retrospectively examined a recreational department's injury reports establishing concussion rates across ( n = 16) club and ( n = 10) intramural sports at a public university in the southeastern United States from 2016 to 2019. One hundred and thirty-five concussions (club n = 56; intramural n = 79) were identified and constituted 12.4% of documented injuries ( n = 1,088). The intramural concussion rate was 0.57 per 1,000 athletic exposures (AEs) and AE was greatest in outdoor soccer (0.99 per 1,000 AE). Therefore, our data suggests an increased incidence of concussions in intramurals compared to published rates in NCAA and high school sports. Collegiate recreational departments should consider these concussion rates when formulating risk management strategies.
Establishing the Minimally Important Difference for the KOOS–Joint Replacement and PROMIS Global–10 in Patients After Total Knee Arthroplasty
Authors: Spiering Tyler J. , Firth Andrew D. , Mousoulis Christos , Hallstrom Brian R. , Gagnier Joel J.
Published: February 2024

Background:

Despite the overall prevalence and success of total knee arthroplasty (TKA), a significant portion of patients are dissatisfied with their outcomes.

Purpose:

To assess the responsiveness and determine the minimally important difference (MID) of 2 patient-reported outcome measures (PROMs)—the Knee injury and Osteoarthritis Outcome Score–Joint Replacement (KOOS-JR) and the Patient-Reported Outcomes Measurement Information System Global–10 (PROMIS 10)—in patients after TKA.

Study Design:

Cohort study (diagnosis); Level of evidence, 3.

Methods:

Included were patients who underwent TKA from August 2015 through August 2019 and completed baseline and postoperative KOOS-JR and PROMIS 10 surveys. The PROMIS 10 consists of 2 domains: physical health and mental health. Estimates for the reliable change index (RCI) and MID, using anchor-based and distribution-based methods, were calculated for each PROM. Regression modeling was used to determine whether patient and clinical factors predicted MID thresholds or MID achievement.

Results:

A total of 1315 patients were included. Distribution-based MIDs, calculated using various methods from baseline scores, ranged from 19.3 to 31 for the KOOS-JR, and the RCI was 4.38. Of these patients, 293 (22.3%) demonstrated small or moderate improvement, and this cohort was included in the calculation of anchor-based MIDs. The anchor-based MIDs were 16.9 and 24.3 at 3-month and 1-year follow-up, respectively, and 66% of patients achieved the MID at 12 months. Higher preoperative PROM score, male sex, non-White race, and current smoker status were predictive of failing to achieve the anchor-based MID for KOOS-JR at 1 year postoperatively ( P < .05). Higher preoperative PROM score and any 90-day adverse event predicted lower thresholds of important change in anchor-based MIDs. Higher baseline PROM scores, younger age, male sex, non-White ethnicity, higher American Society of Anesthesiologists classification, preoperative narcotics use, not smoking, and longer hospital stay were all associated with lower odds of achieving the MID on the KOOS-JR or either of the PROMIS 10 subscales.

Conclusion:

The study results demonstrated relevant values for interpretation of the KOOS-JR and PROMIS 10. While patient demographics did not accurately predict which patients would achieve the MID, some potential factors predicting successful patient-reported outcomes after TKA were identified.