bluuebunny/crossref_metadata_2025 huggingface dataset:
Early-Grade Reading: The Challenges That Affect Teachers’ Practice of Phonological Awareness: The Case of Koorete Language
Authors: Haile Samuel Zinabu , Mendisu Binyam Sisay
Published: May 2023

This study aimed to identify the challenges affecting teacher practice of phonological awareness (PA) in the first-grade classrooms of the teaching of the Koorete language. The study adopted the descriptive research design using the survey method and exploratory case study technique, and it was conducted in selected schools in Amaro in the Southern part of Ethiopia. The qualitative method was used to observe and interview the selected participating teachers, and questionnaires were used with the thirty native-language teachers selected. Thirty participating schools were selected through stratified sampling, and 30 native-language teachers were selected through targeted sampling from the selected schools based on their qualifications, experience, and recommendations for merit. Classroom observations, in-depth semistructured interviews, and questionnaires were used to collect data. The recorded data was then transcribed, translated, analyzed, and then it was thematically discussed. The results of the study showed that a lack of subject content and pedagogical knowledge, inadequate teaching materials, inadequate teacher-training programs, a lack of an enabling, literacy-rich environment, and a lack of in-service training in the first grades pose major challenges. The study recommends that teachers need to be adequately equipped with content and pedagogical awareness, to be provided with phonological awareness resources, and they require support by way of in-service training to enhance the teaching of native-language reading skills in early grades. Finally, all stakeholders need to work on the access and quality of textbooks and supplementary reading materials, adopt explicit and systematic teaching practices, organize in-service training, and create a literacy-rich environment for the teacher education program.
Microwave-Assisted Digestion of Polyurethane Foam as an Alternative to Elution: Solid Phase Extraction of Cd(II) and Pb(II) for Their Determination in Swimming Pool Waters
Authors: de Sousa Juliana Menezes , Baptista Cruz Graziela Fregonez , dos Santos Luiza Gomes , Cassella Ricardo J.
Published: May 2023

In this work, a separation/preconcentration method is proposed for the determination of Cd(II) and Pb(II) in swimming pool waters, using ammonium pyrrolidine dithiocarbamate (APDC) as a complexing agent and unloaded polyurethane foam (PUF) as a sorbent. The proposed method was optimized, and the defined optimal conditions were a pH of 7, 30 min of shaking time, 400 mg of PUF, and 0.5% (m/v) of the APDC solution. The release of Cd(II) and Pb(II) from the solid phase was achieved through the total digestion of PUF using a microwave-assisted acid approach with a 10.5 mol·L−1 HNO3 solution. The methodology was applied to four samples of swimming pool water for the determination of Cd(II) and Pb(II) using graphite furnace atomic absorption spectrometry (GF AAS). The limits of detection and quantification obtained were 0.02 and 0.06 μg·L−1 for Cd(II) and 0.5 e 1.8 μg·L−1 for Pb(II), respectively. We analyzed four samples of swimming pool waters, finding Cd concentrations between 0.22 and 1.37 μg·L−1. On the other hand, only one sample presented Pb concentration above the limit of quantification (11.4 μg·L−1). Recovery tests were performed by spiking the samples with known concentrations of the analytes, and recovery percentages between 82% and 105% were obtained.
Supplementary Table 2 from Medical Financial Hardship and Food Security among Cancer Survivors in the United States
Authors: Hallgren Emily , Narcisse Marie-Rachelle , Andersen Jennifer A. , Willis Don E. , Thompson Tess , Bryant-Smith Gwendolyn , McElfish Pearl A.
Published: May 2023

Supplementary Table 2 shows the results of the analysis exploring the moderating effect of a cancer history on the relationship between medical financial hardship and food security among cancer survivors and individuals without a cancer history.
Supplementary Table S1 from Dying To Find Out: The Cost of Time at the Dawn of the Multicancer Early Detection Era
Authors: Klein Eric A. , Madhavan Sarina , Beer Tomasz M. , Bettegowda Chetan , Liu Minetta C. , Hartman Anne-Renee , Hackshaw Allan
Published: May 2023

Cancer types detected incidentally by NIPT
Supplementary Table S6 from Associations of Race and Ethnicity with Hepatocellular Carcinoma, Decompensation, and Mortality in US Veterans with Cirrhosis
Authors: VoPham Trang , Cravero Anne , Feld Lauren D. , Green Pamela , Feng Ziding , Berry Kristin , Kim Nicole J. , Vutien Philip , Mendoza Jason A. , Ioannou George N.
Published: May 2023

Supplementary Table S6. Association between race/ethnicity and risk of all-cause mortality in patients with cirrhosis overall and by cirrhosis etiology: follow-up from cirrhosis diagnosis (2001-2014) to 2020
Supplementary Table S5 from Associations of Race and Ethnicity with Hepatocellular Carcinoma, Decompensation, and Mortality in US Veterans with Cirrhosis
Authors: VoPham Trang , Cravero Anne , Feld Lauren D. , Green Pamela , Feng Ziding , Berry Kristin , Kim Nicole J. , Vutien Philip , Mendoza Jason A. , Ioannou George N.
Published: May 2023

Supplementary Table S5. Association between race/ethnicity and risk of cirrhosis decompensation in patients with cirrhosis overall and by cirrhosis etiology: follow-up from cirrhosis diagnosis (2001-2014) to 2020
Supplementary Table S4 from Associations of Race and Ethnicity with Hepatocellular Carcinoma, Decompensation, and Mortality in US Veterans with Cirrhosis
Authors: VoPham Trang , Cravero Anne , Feld Lauren D. , Green Pamela , Feng Ziding , Berry Kristin , Kim Nicole J. , Vutien Philip , Mendoza Jason A. , Ioannou George N.
Published: May 2023

Supplementary Table S4. Competing risks proportional hazards regression for the associations between race/ethnicity and risk of HCC, decompensated cirrhosis, and death in patients with cirrhosis overall and by cirrhosis etiology
Supplementary Table S1 from Associations of Race and Ethnicity with Hepatocellular Carcinoma, Decompensation, and Mortality in US Veterans with Cirrhosis
Authors: VoPham Trang , Cravero Anne , Feld Lauren D. , Green Pamela , Feng Ziding , Berry Kristin , Kim Nicole J. , Vutien Philip , Mendoza Jason A. , Ioannou George N.
Published: May 2023

Supplementary Table S1. ICD-9 and ICD-10 codes for cirrhosis, decompensated cirrhosis, liver transplantation, and hepatocellular carcinoma
Data from Medical Financial Hardship and Food Security among Cancer Survivors in the
United States
Authors: Hallgren Emily , Narcisse Marie-Rachelle , Andersen Jennifer A. , Willis Don E. , Thompson Tess , Bryant-Smith Gwendolyn , McElfish Pearl A.
Published: May 2023

Abstract
Background: Some cancer survivors experience medical financial hardship, which may reduce their food security. The purpose of this study was to explore whether medical financial hardship is related to food security among cancer survivors.
Methods: The study was based on cross-sectional data from the 2020 National Health Interview Survey. We used ordinal logistic regression to examine the relationship between material, psychological, and behavioral medical financial hardship and household food security (i.e., high, marginal, low, or very low) among individuals aged ≥ 18 years who reported a cancer diagnosis from a health professional (N=4,130).
Results: The majority of the sample reported high household food security (88.5%), with 4.8% reporting marginal, 3.6% reporting low, and 3.1% reporting very low household food security. In the adjusted model, the odds of being in a lower food security category were higher for cancer survivors who had problems paying or were unable to pay their medical bills compared to those who did not (OR=1.73, 95% CI, 1.06-2.82, p=0.027), who were very worried about paying their medical bills compared to those who were not at all worried (OR=2.88, 95% CI, 1.64-5.07, p<0.001), and who delayed medical care due to cost compared to those who did not (OR=2.56, 95% CI, 1.29-5.09, p=0.007).
Conclusions: Food insecurity is rare among cancer survivors. However, medical financial hardship is associated with an increased risk of lower household food security among cancer survivors.
Impact: A minority of cancer survivors experience medical financial hardship and food insecurity; social needs screenings should be conducted.
Data from Medical Financial Hardship and Food Security among Cancer Survivors in the United States
Authors: Hallgren Emily , Narcisse Marie-Rachelle , Andersen Jennifer A. , Willis Don E. , Thompson Tess , Bryant-Smith Gwendolyn , McElfish Pearl A.
Published: May 2023

AbstractBackground:
Some cancer survivors experience medical financial hardship, which may reduce their food security. The purpose of this study was to explore whether medical financial hardship is related to food security among cancer survivors.
Methods:
The study was based on cross-sectional data from the 2020 National Health Interview Survey. We used ordinal logistic regression to examine the relationship between material, psychological, and behavioral medical financial hardships and household food security (i.e., high, marginal, low, or very low) among individuals ages ≥18 years who reported a cancer diagnosis from a health professional (N = 4,130).
Results:
The majority of the sample reported high household food security (88.5%), with 4.8% reporting marginal, 3.6% reporting low, and 3.1% reporting very low household food security. In the adjusted model, the odds of being in a lower food security category were higher for cancer survivors who had problems paying or were unable to pay their medical bills compared with those who did not [OR, 1.73; 95% confidence interval (CI), 1.06–2.82, P = 0.027], who were very worried about paying their medical bills compared with those who were not at all worried (OR, 2.88; 95% CI, 1.64–5.07; P < 0.001), and who delayed medical care due to cost compared with those who did not (OR, 2.56; 95% CI, 1.29–5.09; P = 0.007).
Conclusions:
Food insecurity is rare among cancer survivors. However, medical financial hardship is associated with an increased risk of lower household food security among cancer survivors.
Impact:
A minority of cancer survivors experience medical financial hardship and food insecurity; social needs screenings should be conducted.
Data from Dying to Find Out: The Cost of Time at the Dawn of the Multicancer Early Detection Era
Authors: Klein Eric A. , Madhavan Sarina , Beer Tomasz M. , Bettegowda Chetan , Liu Minetta C. , Hartman Anne-Renee , Hackshaw Allan
Published: May 2023

Abstract
Cancer is a significant burden worldwide that adversely impacts life expectancy, quality of life, health care costs and workforce productivity. While currently recommended screening tests for individual cancers reduce mortality, they detect only a minority of all cancers and sacrifice specificity for high sensitivity, resulting in a high cumulative rate of false positives. Blood-based multicancer early detection tests (MCEDs) based on next generation sequencing and other technologies hold promise for broadening the number of cancer types detected in screened populations and hope for reducing cancer mortality. The promise of this new technology to improve cancer detection rates and make screening more efficient at the population level demands the development of novel trial designs that accelerate clinical adoption. Carefully designed clinical trials are needed to address these issues.
Supplementary Figure S8 from Overlaid Transcriptional and Proteome Analyses Identify Mitotic Kinesins as Important Targets of Arylsulfonamide-Mediated RBM39 Degradation
Authors: Coomar Seemon , Mota Pedro , Penson Alexander , Schwaller Jürg , Abdel-Wahab Omar , Gillingham Dennis
Published: May 2023

Supplementary Figure S8
Supplementary Figure S6 from Overlaid Transcriptional and Proteome Analyses Identify Mitotic Kinesins as Important Targets of Arylsulfonamide-Mediated RBM39 Degradation
Authors: Coomar Seemon , Mota Pedro , Penson Alexander , Schwaller Jürg , Abdel-Wahab Omar , Gillingham Dennis
Published: May 2023

Supplementary Figure S6
Supplementary Figure S3 from Overlaid Transcriptional and Proteome Analyses Identify Mitotic Kinesins as Important Targets of Arylsulfonamide-Mediated RBM39 Degradation
Authors: Coomar Seemon , Mota Pedro , Penson Alexander , Schwaller Jürg , Abdel-Wahab Omar , Gillingham Dennis
Published: May 2023

Supplementary Figure S3
Supplementary Figures 1-8 from ZEB1 is Regulated by K811 Acetylation to Promote Stability, NuRD Complex Interactions, EMT, and NSCLC Metastasis
Authors: Perez-Oquendo Mabel , Manshouri Roxsan , Tian Yanhua , Fradette Jared J. , Rodriguez B. Leticia , Kundu Samrat T. , Gibbons Don L.
Published: May 2023

S1. K811 acetylation is integral to ZEB1 molecular weight. S2. &tilde225 kDa ZEB1 band regulates protein stability. S3. K811 acetylation facilitates ZEB1/NuRD interaction. S4. K811 acetylation directs the ZEB1/NuRD complex to bind at genomic promoters. S5. K811 acetylation decreased epithelial expression levels. S6. RNA-seq reveals K811 acetylation downregulates the expression of epithelial genes. S7. K811 acetylation in ZEB1 KO cells promotes lung adenocarcinoma migration and invasion. S8. K811 acetylation enhances metastatic potential of murine NSCLC cells.
Supplementary Figure S2 from Overlaid Transcriptional and Proteome Analyses Identify Mitotic Kinesins as Important Targets of Arylsulfonamide-Mediated RBM39 Degradation
Authors: Coomar Seemon , Mota Pedro , Penson Alexander , Schwaller Jürg , Abdel-Wahab Omar , Gillingham Dennis
Published: May 2023

Supplementary Figure S2
Supplementary Figure S1 from Overlaid Transcriptional and Proteome Analyses Identify Mitotic Kinesins as Important Targets of Arylsulfonamide-Mediated RBM39 Degradation
Authors: Coomar Seemon , Mota Pedro , Penson Alexander , Schwaller Jürg , Abdel-Wahab Omar , Gillingham Dennis
Published: May 2023

Supplementary Figure S1
Figure S7 from A Comparative Study of Neuroendocrine Heterogeneity in Small Cell Lung Cancer and Neuroblastoma
Authors: Cai Ling , DeBerardinis Ralph J. , Xie Yang , Minna John D. , Xiao Guanghua
Published: May 2023

Comparing NE score-associated features between SCLC and other cancer types.
Supplementary Data from Overlaid Transcriptional and Proteome Analyses Identify Mitotic Kinesins as Important Targets of Arylsulfonamide-Mediated RBM39 Degradation
Authors: Coomar Seemon , Mota Pedro , Penson Alexander , Schwaller Jürg , Abdel-Wahab Omar , Gillingham Dennis
Published: May 2023

TMT Proteomics Datasets
Figure S6 from A Comparative Study of Neuroendocrine Heterogeneity in Small Cell Lung Cancer and Neuroblastoma
Authors: Cai Ling , DeBerardinis Ralph J. , Xie Yang , Minna John D. , Xiao Guanghua
Published: May 2023

Examples of different and similar compound sensitivity dynamic ranges in SCLC and NBL.
Figure S5 from A Comparative Study of Neuroendocrine Heterogeneity in Small Cell Lung Cancer and Neuroblastoma
Authors: Cai Ling , DeBerardinis Ralph J. , Xie Yang , Minna John D. , Xiao Guanghua
Published: May 2023

A meta-analysis example that summarizes the association between MEK inhibitor resistance and NE scores.
Supplementary Data Table 2 from Overlaid Transcriptional and Proteome Analyses Identify Mitotic Kinesins as Important Targets of Arylsulfonamide-Mediated RBM39 Degradation
Authors: Coomar Seemon , Mota Pedro , Penson Alexander , Schwaller Jürg , Abdel-Wahab Omar , Gillingham Dennis
Published: May 2023

Supplementary Data Table 2
Figure S3 from A Comparative Study of Neuroendocrine Heterogeneity in Small Cell Lung Cancer and Neuroblastoma
Authors: Cai Ling , DeBerardinis Ralph J. , Xie Yang , Minna John D. , Xiao Guanghua
Published: May 2023

Controlling for MYCN amplification status increases the statistical significance of NE score vs. MYCN expression association.
Figure S1 from A Comparative Study of Neuroendocrine Heterogeneity in Small Cell Lung Cancer and Neuroblastoma
Authors: Cai Ling , DeBerardinis Ralph J. , Xie Yang , Minna John D. , Xiao Guanghua
Published: May 2023

Intratumoral NE heterogeneity in SCLC patient tumors and intra-cell line NE heterogeneity in SCLC and NBL cell lines.
Data from Overlaid Transcriptional and Proteome Analyses Identify Mitotic Kinesins as Important Targets of Arylsulfonamide-Mediated RBM39 Degradation
Authors: Coomar Seemon , Mota Pedro , Penson Alexander , Schwaller Jürg , Abdel-Wahab Omar , Gillingham Dennis
Published: May 2023

Abstract
Certain arylsulfonamides (ArSulf) induce an interaction between the E3 ligase substrate adaptor DCAF15 and the critical splicing factor RBM39, ultimately causing its degradation. However, degradation of a splicing factor introduces complex pleiotropic effects that are difficult to untangle, since, aside from direct protein degradation, downstream transcriptional effects also influence the proteome. By overlaying transcriptional data and proteome datasets, we distinguish transcriptional from direct degradation effects, pinpointing those proteins most impacted by splicing changes. Using our workflow, we identify and validate the upregulation of the arginine-and-serine rich protein (RSRP1) and the downregulation of the key kinesin motor proteins KIF20A and KIF20B due to altered splicing in the absence of RBM39. We further show that kinesin downregulation is connected to the multinucleation phenotype observed upon RBM39 depletion by ArSulfs. Our approach should be helpful in the assessment of potential cancer drug candidates which target splicing factors.
Implications:
Our approach provides a workflow for identifying and studying the most strongly modulated proteins when splicing is altered. The work also uncovers a splicing-based approach toward pharmacologic targeting of mitotic kinesins.
Data from ZEB1 is Regulated by K811 Acetylation to Promote Stability, NuRD Complex Interactions, EMT, and NSCLC Metastasis
Authors: Perez-Oquendo Mabel , Manshouri Roxsan , Tian Yanhua , Fradette Jared J. , Rodriguez B. Leticia , Kundu Samrat T. , Gibbons Don L.
Published: May 2023

Abstract
Epithelial-to-mesenchymal transition results in loss of specialized epithelial cell contacts and acquisition of mesenchymal invasive capacity. The transcription repressor zinc finger E-box-binding homeobox 1 (ZEB1) binds to E-boxes of gene promoter regions to suppress the expression of epithelial genes. ZEB1 has inconsistent molecular weights, which have been attributed to posttranslational modifications (PTM). We performed mass spectrometry and identified K811 acetylation as a novel PTM in ZEB1. To define the role of ZEB1 acetylation in regulating function, we generated ZEB1 acetyl-mimetic (K811Q) and acetyl-deficient (K811R) mutant-expressing non–small cell lung cancer cell lines (NSCLC). We demonstrate that the K811R ZEB1 (125 kDa) has a shorter protein half-life than wild-type (WT) ZEB1 and K811Q ZEB1 (∼225 kDa), suggesting that lack of ZEB1 acetylation in the lower molecular weight form affects protein stability. Further, the acetylated form of ZEB1 recruits the nucleosome remodeling and deacetylase (NuRD) complex to bind the promoter of its target genes mir200c-141 and SEMA3F. RNA-sequencing revealed that WT ZEB1 and K811Q ZEB1 downregulate the expression of epithelial genes to promote lung adenocarcinoma invasion and metastasis, whereas the K811R ZEB1 does not. Our findings establish that the K811 acetylation promotes ZEB1 protein stability, interaction with other protein complexes, and subsequent invasion/metastasis of lung adenocarcinoma via epithelial-to-mesenchymal transition.
Implications:
The molecular mechanisms by which ZEB1 is regulated by K811 acetylation to promote protein stability, NuRD complex and promoter interactions, and function are relevant to the development of treatment strategies to prevent and treat metastasis in patients with NSCLC.
Data from A Comparative Study of Neuroendocrine Heterogeneity in Small Cell Lung Cancer and Neuroblastoma
Authors: Cai Ling , DeBerardinis Ralph J. , Xie Yang , Minna John D. , Xiao Guanghua
Published: May 2023

Abstract
Lineage plasticity has long been documented in both small cell lung cancer (SCLC) and neuroblastoma, two clinically distinct neuroendocrine (NE) cancers. In this study, we quantified the NE features of cancer as NE scores and performed a systematic comparison of SCLC and neuroblastoma. We found neuroblastoma and SCLC cell lines have highly similar molecular profiles and shared therapeutic sensitivity. In addition, NE heterogeneity was observed at both the inter- and intra-cell line levels. Surprisingly, we did not find a significant association between NE scores and overall survival in SCLC or neuroblastoma. We described many shared and unique NE score–associated features between SCLC and neuroblastoma, including dysregulation of Myc oncogenes, alterations in protein expression, metabolism, drug resistance, and selective gene dependencies.
Implications:
Our work establishes a reference for molecular changes and vulnerabilities associated with NE to non-NE transdifferentiation through mutual validation of SCLC and neuroblastoma samples.
Preclinical Evidence of an Allogeneic Dual CD20xCD22 CAR to Target a Broad Spectrum of Patients with B-cell Malignancies
Authors: Aranda-Orgilles Beatriz , Chion-Sotinel Isabelle , Skinner Jordan , Grudman Steven , Mumford Ben , Dixon Chantel , Postigo Fernandez Jorge , Erler Piril , Duchateau Phillipe , Gouble Agnes , Galetto Roman , Poirot Laurent
Published: May 2023

Despite the remarkable success of autologous chimeric antigen receptor (CAR) T cells, some patients relapse due to tumor antigen escape and low or uneven antigen expression, among other mechanisms. Therapeutic options after relapse are limited, emphasizing the need to optimize current approaches. In addition, there is a need to develop allogeneic “off-the-shelf” therapies from healthy donors that are readily available at the time of treatment decision and can overcome limitations of current autologous approaches. To address both challenges simultaneously, we generated a CD20xCD22 dual allogeneic CAR T cell. Herein, we demonstrate that allogeneic CD20x22 CAR T cells display robust, sustained and dose-dependent activity in vitro and in vivo, while efficiently targeting primary B-cell non–Hodgkin lymphoma (B-NHL) samples with heterogeneous levels of CD22 and CD20. Altogether, we provide preclinical proof-of-concept data for an allogeneic dual CAR T cell to overcome current mechanisms of resistance to CAR T-cell therapies in B-NHL, while providing a potential alternative to CD19 targeting.
FIGURE 1 from Targeting CHAF1B Enhances IFN Activity against Myeloproliferative Neoplasm Cells
Authors: Saleiro Diana , Kosciuczuk Ewa M. , Fischietti Mariafausta , Perez Ricardo E. , Yang G. Sohae , Eckerdt Frank , Beauchamp Elspeth M. , Hou Ye , Wang Qixuan , Weinberg Rona Singer , Fish Eleanor N. , Yue Feng , Hoffman Ronald , Platanias Leonidas C.
Published: May 2023

Mass spectrometry identification of cytosolic and nuclear putative binding partners of ULK1. A and B, Endogenous ULK1–protein complexes were immunoprecipitated (IP) using an anti-ULK1 antibody from cytosolic and nuclear fractions isolated from untreated (UT) or IFNα-treated [4 hours (4h)] HEL cells and analyzed by nLC/MS-MS. As negative control, IP with normal rabbit IgG was used instead of anti-ULK1 antibody and proteins bound to rabbit IgG were excluded from the analyses. A, Venn diagrams show the number of putative ULK1 binding partners identified only in untreated cells (blue), only in IFNα-treated cells (red), or both treated and untreated cells (black). CHAF1B was detected in both cell compartments by mass spectrometry. B, Venn diagram shows the overlap for the putative ULK1 binding partners identified under both untreated and IFNα-treated cells in the cytosolic and nuclear fractions. List of the putative ULK1 binding proteins found under these conditions on both cytosolic and nuclear compartments is shown. C, Gene ontology analyses of the 72 putative nuclear ULK1-interacting proteins identified under both untreated and IFNα-treated conditions are shown. Underlined and in bold are the biological events in which CHAF1B is involved.
Supplementary Table S1 from Maternal embryonic leucine zipper kinase is associated with metastasis in triple-negative breast cancer
Authors: Xie Xuemei , Chauhan Gaurav B , Edupuganti Ramakrishna , Kogawa Takahiro , Park Jihyun , Tacam Moises J , Tan Alex W , Mughees Mohd , Vidhu Fnu , Liu Diane D , Taliaferro Juliana M. , Pitner Mary K , Browning Luke Samuel , Lee Ju-Hyeon , Shen Yu , Wang Jian , Ueno Naoto T. , Krishnamurthy Savitri , Hortobagyi Gabriel N. , Tripathy Debu , Van Laere Steven , Bartholomeusz Geoffrey , Dalby Kevin N. , Bartholomeusz Chandra
Published: May 2023

Supplementary Table S1. Full list of candidate regulators that were significantly enriched for 60 Reactome and WikiPathways, as identified by Affymetrix Genechip microarray analysis.
Supplementary Figure S3 from Maternal embryonic leucine zipper kinase is associated with metastasis in triple-negative breast cancer
Authors: Xie Xuemei , Chauhan Gaurav B , Edupuganti Ramakrishna , Kogawa Takahiro , Park Jihyun , Tacam Moises J , Tan Alex W , Mughees Mohd , Vidhu Fnu , Liu Diane D , Taliaferro Juliana M. , Pitner Mary K , Browning Luke Samuel , Lee Ju-Hyeon , Shen Yu , Wang Jian , Ueno Naoto T. , Krishnamurthy Savitri , Hortobagyi Gabriel N. , Tripathy Debu , Van Laere Steven , Bartholomeusz Geoffrey , Dalby Kevin N. , Bartholomeusz Chandra
Published: May 2023

Supplementary Figure S3. Top 20 master regulators that were differentially expressed in Cas9-p15 control and MELK knockout (KO) MDA-NB-231 cells.
Supplementary Table S4 from Desmoplastic reaction associates with prognosis and adjuvant chemotherapy response in colorectal cancer: a multicenter retrospective study
Authors: Hu Qingru , Wang Yiting , Yao Su , Mao Yun , Liu Liu , Li Zhenhui , Chen Yonghe , Zhang Shenyan , Li Qian , Zhao Yingnan , Fan Xinjuan , Cui Yanfen , Zhao Ke , Liu Zaiyi
Published: May 2023

Uni- and multivariate analyses in stage II CRC patients
Supplementary Table S2 from Desmoplastic reaction associates with prognosis and adjuvant chemotherapy response in colorectal cancer: a multicenter retrospective study
Authors: Hu Qingru , Wang Yiting , Yao Su , Mao Yun , Liu Liu , Li Zhenhui , Chen Yonghe , Zhang Shenyan , Li Qian , Zhao Yingnan , Fan Xinjuan , Cui Yanfen , Zhao Ke , Liu Zaiyi
Published: May 2023

Interobserver Agreement for DR
Supplementary Table S1 from Desmoplastic reaction associates with prognosis and adjuvant chemotherapy response in colorectal cancer: a multicenter retrospective study
Authors: Hu Qingru , Wang Yiting , Yao Su , Mao Yun , Liu Liu , Li Zhenhui , Chen Yonghe , Zhang Shenyan , Li Qian , Zhao Yingnan , Fan Xinjuan , Cui Yanfen , Zhao Ke , Liu Zaiyi
Published: May 2023

Clinicopathological associations with desmoplastic reaction
Supplementary Figure S9 from Desmoplastic reaction associates with prognosis and adjuvant chemotherapy response in colorectal cancer: a multicenter retrospective study
Authors: Hu Qingru , Wang Yiting , Yao Su , Mao Yun , Liu Liu , Li Zhenhui , Chen Yonghe , Zhang Shenyan , Li Qian , Zhao Yingnan , Fan Xinjuan , Cui Yanfen , Zhao Ke , Liu Zaiyi
Published: May 2023

Nomogram for OS and boxplots of C-indices in primary and validation cohorts
Supplementary Figure S7 from Desmoplastic reaction associates with prognosis and adjuvant chemotherapy response in colorectal cancer: a multicenter retrospective study
Authors: Hu Qingru , Wang Yiting , Yao Su , Mao Yun , Liu Liu , Li Zhenhui , Chen Yonghe , Zhang Shenyan , Li Qian , Zhao Yingnan , Fan Xinjuan , Cui Yanfen , Zhao Ke , Liu Zaiyi
Published: May 2023

Predictive significance of other TB on the ACT of stage II CRC
Mandalas, curvas clássicas e visualização com R.
Authors:   Academia da Força Aérea, Pirassununga, SP, Alcoforado Luciane Ferreira , Santos João Paulo Martins dos ,   Academia da Força Aérea, Pirassununga, SP, Lima Marcus Vinícius de Araújo ,   Academia da Força Aérea, Pirassununga, SP, Jesus Alessandro Firmiano de ,   Academia da Força Aérea, Pirassununga, SP, Linares Juan López ,   Universidade de São Paulo. Faculdade de Zootecnia e Engenharia de Alimentos
Published: May 2023

Este material é fruto da palestra de mesmo título "Mandalas, Curvas Clássicas e Visualização com R", apresentada no VI Seminário Internacional de Estatística com R (SER), ocorrido em 2022 em modo online. Com foco na multidisciplinaridade, o evento SER possui foco na utilização da linguagem R em diferentes contextos, tais como Estatística, Ciências Sociais, Economia e Finanças, Computação, Matemática, Biologia, entre outras. Nesse contexto da diversidade, o material expande a utilização da linguagem R e mostra que sua capacidade computacional pode ser aproveitada em outras áreas e utilizada até em contextos do Ensino Fundamental e Médio. O material traz uma apresentação detalhada para a construção de Mandalas por meio do software R. Isso possibilita englobar a diversidade de utilização da linguagem R em um único elemento, pois engloba as construções gráficas, transformações matemáticas e a programação computacional. As construções, inicialmente, são focadas na apresentação de alguns detalhes matemáticos e detalhes históricos; em seguida estão mostrados os códigos completos e diretos para a construção das mandalas utilizando variáveis cartesianas; as coordenadas polares são utilizadas logo em seguida. Em cada caso, os códigos completos são apresentados para facilitar a reprodução com consequente análise e entendimento. A discussão é organizada em sete capítulos: introdução; R, RStudio/Posit e pacotes tible e ggplot2; conceitos de Matemática e Programação; Transformações; Mandalas; Cores em R e Referências. O foco são as construções geométricas detalhadas com a apresentações passo a passo e o compartilhamento dos códigos para que o leitor possa acompanhar e explorar o processo descrito.
Probabilidades: um curso básico de reoferecimento
Authors:   Universidade de São Paulo. Instituto de Matemática e Estatística, Kawano Alexandre , Paiva José Luis de ,   Universidade de São Paulo. Escola Politécnica
Published: May 2023

Esta obra apresenta a disciplina de probabilidades em um status especial entre as demais em um curso de engenharia. Sua posição pode ser compreendida quando contemplamos o desenvolvimento das ciências aplicadas ao longo da história. Todas essas mudanças estão ligadas à mudança de paradigmas que ocorreu na transição entre os séculos 19 e 20, período rico também em convulsões sociais, entre elas a formação de vários estados modernos e várias revoluções. Basta mencionar o da Alemanha, Itália, a Revolução Meiji, a independência de nosso país e de outros, a revolução russa e a Primeira Guerra. Um curso de probabilidades para engenharia marca essa transição histórica e oferece uma visão de mundo diferente, em que se coloca uma ordem no caos.
Outcomes After Development of Ventricular Arrhythmias in Single Ventricular Heart Disease Patients With Fontan Palliation
Authors: Giacone Heather M. , Chubb Henry , Dubin Anne M. , Motonaga Kara S. , Ceresnak Scott R. , Goodyer William R. , Hanisch Debra , Trela Anthony V. , Boramanand Nicole , Lencioni Erin , Boothroyd Derek , Graber-Naidich Anna , Wright Gail , Haeffele Christiane , Hollander Seth A. , McElhinney Doff B. , Ma Michael , Hanley Frank L. , Chen Sharon
Published: May 2023

Background:

With the advent of more intensive rhythm monitoring strategies, ventricular arrhythmias (VAs) are increasingly detected in Fontan patients. However, the prognostic implications of VA are poorly understood. We assessed the incidence of VA in Fontan patients and the implications on transplant-free survival.

Methods:

Medical records of Fontan patients seen at a single center between 2002 and 2019 were reviewed to identify post-Fontan VA (nonsustained ventricular tachycardia >4 beats or sustained >30 seconds). Patients with preFontan VA were excluded. Hemodynamically unstable VA was defined as malignant VA. The primary outcome was death and heart transplantation. Death with censoring at transplant was a secondary outcome.

Results:

Of 431 Fontan patients, transplant-free survival was 82% at 15 years post-Fontan with 64 (15%) meeting primary outcome of either death (n=16, 3.7%), at a median 4.6 (0.4–10.2) years post-Fontan, or transplant (n=48, 11%), at a median of 11.1 (5.9–16.2) years post-Fontan. Forty-eight (11%) patients were diagnosed with VA (90% nonsustained ventricular tachycardia, 10% sustained ventricular tachycardia). Malignant VA (n=9, 2.0%) was associated with younger age, worse systolic function, and valvular regurgitation. Risk for VA increased with time from Fontan, 2.4% at 10 years to 19% at 20 years. History of Stage 1 surgery with right ventricular to pulmonary artery conduit and older age at Fontan were significant risk factors for VA. VA was strongly associated with an increased risk of transplant or death (HR, 9.2 [95% CI, 4.5–18.7];
P
<0.001), with a transplant-free survival of 48% at 5-year post-VA diagnosis.

Conclusions:

Ventricular arrhythmias occurred in 11% of Fontan patients and was highly associated with transplant or death, with a transplant-free survival of <50% at 5-year post-VA diagnosis. Risk factors for VA included older age at Fontan and history of right ventricular to pulmonary artery conduit. A diagnosis of VA in Fontan patients should prompt increased clinical surveillance.
Status of Maternal Cardiovascular Health in American Indian and Alaska Native Individuals: A Scientific Statement From the American Heart Association
Authors: Sharma Garima , Kelliher Allison , Deen Jason , Parker Tassy , Hagerty Tracy , Choi Eunjung Esther , DeFilippis Ersilia M. , Harn Kimberly , Dempsey Robert J. , Lloyd-Jones Donald M. ,   on behalf of the American Heart Association Cardiovascular Disease and Stroke in Women and Underrepresented Populations Committee of the Council on Clinical Cardiology,   Council on Hypertension,   Council on Cardiovascular and Stroke Nursing,   Council on Arteriosclerosis,   Thrombosis and Vascular Biology,   Council on Quality of Care and Outcomes Research
Published: May 2023

Cardiovascular disease is the leading cause of pregnancy-related death in the United States. American Indian and Alaska Native individuals have some of the highest maternal death and morbidity rates. Data on the causes of cardiovascular disease–related death in American Indian and Alaska Native individuals are limited, and there are several challenges and opportunities to improve maternal cardiovascular health in this population. This scientific statement provides an overview of the current status of cardiovascular health among American Indian and Alaska Native birthing individuals and causes of maternal death and morbidity and describes a stepwise multidisciplinary framework for addressing cardiovascular disease and cerebrovascular disease during the preconception, pregnancy, and postpartum time frame. This scientific statement highlights the American Heart Association’s factors for cardiovascular health assessment known collectively as Life’s Essential 8 as they pertain to American Indian and Alaska Native birthing individuals. It summarizes the impact of substance use, adverse mental health conditions, and lifestyle and cardiovascular disease risk factors, as well as the cascading effects of institutional and structural racism and the historical trauma faced by American Indian and Alaska Native individuals. It recognizes the possible impact of systematic acts of colonization and dominance on their social determinants of health, ultimately translating into worse health care outcomes. It focuses on the underreporting of American Indian and Alaska Native disaggregated data in pregnancy and postpartum outcomes and the importance of engaging key stakeholders, designing culturally appropriate care, building trust among communities and health care professionals, and expanding the American Indian and Alaska Native workforce in biomedical research and health care settings to optimize the cardiovascular health of American Indian and Alaska Native birthing individuals.
Subclinical Cardiovascular Disease in US Adults With and Without Diabetes
Authors: Fang Michael , Wang Dan , Tang Olive , McEvoy John William , Echouffo‐Tcheugui Justin B. , Christenson Robert H. , Selvin Elizabeth
Published: May 2023

Background

We characterized the burden and prognostic value of subclinical cardiovascular disease (CVD) assessed by cardiac biomarkers among adults with and without diabetes in the general US population.

Methods and Results

We measured hs‐cTnT (high‐sensitivity cardiac troponin T) and NT‐proBNP (N‐terminal pro‐B‐type natriuretic peptide) in stored serum samples from the 1999 to 2004 National Health and Nutrition Examination Survey. Among US adults without a history of CVD (n=10 304), we estimated the prevalence of elevated hs‐cTnT (≥14 ng/L) and NT‐proBNP (≥125 pg/mL) in those with and without diabetes. We examined the associations between elevated hs‐cTnT and NT‐proBNP with all‐cause and CVD mortality after adjustment for demographics and traditional CVD risk factors. The crude prevalence of subclinical CVD (elevated hs‐cTnT or NT‐proBNP) was ≈2 times higher in adults with (versus without) diabetes (33.4% versus 16.1%). After age adjustment, elevated hs‐cTnT, but not elevated NT‐proBNP, was more common in those with diabetes, overall and across age, sex, race and ethnicity, and weight status. The prevalence of elevated hs‐cTnT was significantly higher in those with longer diabetes duration and worse glycemic control. In persons with diabetes, elevated hs‐cTnT and NT‐proBNP were independently associated with all‐cause mortality (adjusted hazard ratio [HR], 1.77 [95% CI, 1.33–2.34] and HR, 1.78 [95% CI, 1.26–2.51]) and CVD mortality (adjusted HR, 1.54 [95% CI, 0.83–2.85] and HR, 2.46 [95% CI, 1.31–4.60]).

Conclusions

Subclinical CVD affects ≈1 in 3 US adults with diabetes and confers substantial risk for mortality. Routine testing of cardiac biomarkers may be useful for assessing and monitoring risk in persons with diabetes.
Morphological and molecular identification of three new resupinate species of Hyphoderma (Hyphodermataceae, Agaricomycetes) from East Asia
Authors: DUAN ZIYAN , GUAN QIANXIN , LUO KAIYUE , ZHAO CHANGLIN
Published: May 2023

The genus Hyphoderma is one of the most important corticioid fungi worldwide, which causes white rot in wood and plays an important role in forest ecosystems and carbon cycle. In this study, three new wood-inhabiting fungal species, H. marginatum, H. tropicum and H. yunnanense are proposed based on a combination of the morphological and molecular evidence. Hyphoderma marginatum is characterized by the cracking, hard fragile basidiomata having smooth hymenial surface with the upwarping margin, a monomitic hyphal system with clamped generative hyphae, and cylindrical basidiospores. Hyphoderma tropicum is characterized by the resupinate basidiomata with tuberculate hymenial surface, presence of the moniliform cystidia, and ellipsoid to cylindrical basidiospores (6.5–7.5 × 3–4 µm), Hyphoderma yunnanense is characterized by the corneus basidiomata, presence of clamped septate cystidia, and ellipsoid to cylindrical basidiospores. Sequences of ITS and nLSU rRNA genes were used for phylogenetic analyses using maximum likelihood, maximum parsimony, and Bayesian inference methods. The three new species of Hyphoderma inferred from ITS sequences and form separate lineages within the genus.
Neomassaria khayae sp. nov., a novel pleosporalean species on Khaya senegalensis from Guangdong Province, China
Authors: YANG YUNHUI , LIAO CHUNFANG , MANAWASINGHE ISHARA S. , ROBERTO GOMES DE FARIAS ANTONIO , DONG ZHANGYONG
Published: May 2023

Khaya senegalensis is a tropical plant native to Africa and grown as an ornamental plant in Southern China. During our sample collection in Guangdong Province, China, a saprobic Dothideomycetes was collected from a dead stem of K. senegalensis. The collection was identified as a neomassaria-like species based on the morphology. For further identification of the species, multigene phylogenetic analyses were conducted using large subunit nrDNA (LSU), small subunit nrDNA (SSU), RNA polymerase II second largest subunit gene (rpb2) and translation elongation factor 1-alpha (tef1-α). Based on morphology and phylogeny we identified our collection as a new species and introduced it as Neomassaria khayae. Morphologically, N. khayae distinguishes from other closely related species in terms of larger ascomata, asci and ascospore. In addition, this is the first report of Neomassaria species on K. senegalensis in China. This study will add to the biodiversity of saprobic fungi associated with Meliaceae hosts in Southern China.
Fulvifomes aurantiacus sp. nov. (Basidiomycota; Hymenochaetaceae) from Pakistan
Authors: FATIMA MAHAM , USMAN MUHAMMAD , KHALID ABDUL NASIR
Published: May 2023

The present study is the first report dealing with Pakistani Fulvifomes species. A new species, Fulvifomes aurantiacus, is identified on the basis of morpho-anatomical and phylogenetic analyses from Lahore, Pakistan. The species is characterized by pileate to sub-stipitate, basidiocarps having orange-brown pileal surface with yellow ocher wide zones and velutinous poroid hymenophore; 4–5 pores per millimeter, the presence of duplex context, dimitic hyphal system, absence of hymenial setae and the presence of contextual gleoplerous hyphae and highly pigmented ovoid to sub-globose basidiospores, 4.4–6.7 × 3.75–5.8 μm. Phylogenetically, our species formed a distinct clade with other Fulvifomes species, indicating its distinct position in the genus.
Toward Operational Real-Time Identification of Frontal Boundaries Using Machine Learning
Authors: Justin Andrew D. , Willingham Colin , McGovern Amy , Allen John T.
Published: May 2023

We present and evaluate a deep learning first-guess front-identification system that identifies cold, warm, stationary, and occluded fronts. Frontal boundaries play a key role in the daily weather around the world. Human-drawn fronts provided by the National Weather Service’s Weather Prediction Center, Ocean Prediction Center, Tropical Analysis and Forecast Branch, and Honolulu Forecast Office are treated as ground-truth labels for training the deep learning models. The models are trained using ERA5 data with variables known to be important for distinguishing frontal boundaries, including temperature, equivalent potential temperature, and wind velocity and direction at multiple heights. Using a 250-km neighborhood over the contiguous U.S. domain, our best models achieve critical success index scores of 0.60 for cold fronts, 0.43 for warm fronts, 0.48 for stationary fronts, 0.45 for occluded fronts, and 0.71 using a binary classification system (front/no front), whereas scores over the full unified surface analysis domain were lower. For cold and warm fronts and binary classification, these scores significantly outperform prior baseline methods that utilize 250-km neighborhoods. These first-guess deep learning algorithms can be used by forecasters to locate frontal boundaries more effectively and expedite the frontal analysis process.

Significance Statement

Fronts are boundaries that affect the weather that people experience daily. Currently, forecasters must identify these boundaries through manual analysis. We have developed an automated machine learning method for detecting cold, warm, stationary, and occluded fronts. Our automated method provides forecasters with an additional tool to expedite the frontal analysis process.
Making the Case for High-Resolution Regional Ocean Reanalyses: An Example with the Red Sea
Authors: Sanikommu Sivareddy , Langodan Sabique , Dasari Hari Prasad , Zhan Peng , Krokos George , Abualnaja Yasser O. , Asfahani Khaled , Hoteit Ibrahim
Published: May 2023

Coastal oceans host 40% of the world population and amount to $1.5 trillion of the global economy. Studying, managing, and developing the coastal regions require decades-long information about their environment. Long-term ocean measurements are, however, lacking for most coastal regions and often global reanalyses are used instead. These are, however, coarse in nature and tuned for the global circulations. The Red Sea (RS) is a narrow basin connected to the Indian Ocean through the Bab-al-Mandab Strait. Despite being the busiest commercial crossroad and hosting the world’s third largest coral reef system, the RS lacks long-term observations. A recent increase in population and an unprecedented acceleration in governmental and industrial developments further emphasized the need for long-term datasets to support its development and the sustainability of its habitats, and to understand its response to a changing climate. Toward this end, we have generated a 20-yr high-resolution reanalysis for the RS (RSRA) using a state-of-the-art ensemble data assimilation system incorporating available observations. Compared to global reanalyses, RSRA provides a markedly better description of the RS general and mesoscale circulation features, their variability, and trends. In particular, RSRA accurately captures the three-layer summer transport through the Bab-al-Mandab, simulated as two-layer transport by some global reanalyses. It further reproduces the seasonal anomalies, whereas global reanalyses misidentify some seasons as anomalous. Global reanalyses further overestimate the interannual variations in salinity, misrepresent the trend in temperature, and underestimate the trend in sea level. Our study clearly emphasizes the importance of generating dedicated high-resolution regional ocean reanalyses.
Seasonal Predictability of North American Surface Temperature Arises from SST Propagation over the Western Pacific
Authors: Wei Tian , Sun Cheng , Li Jianping
Published: May 2023

The predictability of temperatures in North America is of great importance for local agriculture and human health. In autumn (SON), the temperature in North America is correlated with ENSO, but its predictive skill is limited. Here, we show that spring (MAM) sea surface temperature (SST) anomalies in the southwest Pacific (SWP) exhibit a higher correlation with autumn temperature in North America (r = 0.73) than ENSO. This cross-seasonal and cross-hemispheric relationship is established via the western tropical Pacific (WTP) region. The spring SWP SST anomalies show a cross-hemispheric propagation embedded in the southerly monsoonal flow through the wind–evaporation–SST feedback, which sustains the progression of SST anomalies toward the WTP in autumn. The AGCM simulations from multimodels show that active convection in the WTP caused by SST warming stimulate a Rossby wave train propagating downward to North America, where it is governed by an anomalous high with increased atmospheric thickness and tropospheric temperature. Consequently, the longwave radiative heating over North America is enhanced, raising the surface air temperature. These results indicate that the SWP SST is a useful predictor of North American temperature 6 months in advance through the cross-hemispheric influence. A model based on the spring SWP SST and preceding winter ENSO (Niño-3.4) shows a high predictive skill for the autumn temperature anomalies in North America.

Significance Statement

Seasonal predictions of surface temperature are important for agricultural decision-making, disaster prevention, and mitigation. Over the western Pacific, associated with the seasonal evolution of ITCZ, there is a strong northward progression of SST anomaly signals generated in the southwest Pacific. This study finds that this cross-hemispheric SST propagation can significantly impact the autumn surface temperature over central North America through the atmospheric bridge. A statistical model incorporating southwest Pacific SST for spring is constructed to predict the North American autumn surface temperature and exhibits high consistency with observations. This improves our understanding of the interhemispheric interactions at seasonal time scales and the seasonal predictability of the North American climate.