bluuebunny/crossref_metadata_2025 huggingface dataset:
Supplementary Figures S1 - S14, Tables S1 - S5 from Epithelial-to-Mesenchymal Transition Defines Feedback Activation of Receptor Tyrosine Kinase Signaling Induced by MEK Inhibition in KRAS-Mutant Lung Cancer
Authors: Kitai Hidenori , Ebi Hiromichi , Tomida Shuta , Floros Konstantinos V. , Kotani Hiroshi , Adachi Yuta , Oizumi Satoshi , Nishimura Masaharu , Faber Anthony C. , Yano Seiji
Published: April 2023

Supplementary Figure S1. Feedback activation of ERK signaling and upregulation of AKT signaling following MEK inhibitor treatment in KRAS mutant lung cancers. Supplementary Figure S2. Scattered plot analysis showing inverse relationship between ERBB3 and Vimentin and positive correlation between FGFR1 and Vimentin. p < 0.01, both by linear regression analysis. Supplementary Figure S3. MEK inhibition promotes activation of FRS2 in mesenchymal-like KRAS mutant lung cancer cells. Supplementary Figure S4. FGFR inhibition has minimal effect on downstream signaling in mesenchymal-like KRAS mutant cancer cell lines. Supplementary Figure S5. FGF modestly induces trametinib resistance in mesenchymal-like KRAS mutant lung cancer cell lines. Supplementary Figure S6. Results of microarray analysis showing strong suppression of DUSP6 and SPRY4 mRNA levels following trametinib treatment. Supplementary Figure S7. FGFR1-FRS2 pathway is involved in feedback activation of MAPK signaling in an EMT induced NCI-H358 epithelial-like KRAS mutant cancer cells. Supplementary Figure S8. Combination of MEK inhibition with FGFR inhibition leads to further ERK suppression and apoptosis in mesenchymal-like KRAS mutant lung cancer cell lines. Supplementary Figure S9. Magnitude of apoptosis induced by FGFR and MEK inhibition is related to that which is induced by PI3K and MEK inhibition in mesenchymal-like KRAS mutant lung cancer cell lines. Supplementary Figure S10. Suppression of both MAPK and PI3K signal is not enough to induce cell death in cells resistant to MEK inhibitor with FGFR inhibitor. Supplementary Figure S11. Combination of trametinib with NVP-BGJ398 was tolerable in a mouse xenograft model. Supplementary Figure S12. No relationship between sensitivity to combination of FGFR inhibitor with trametinib and mutations in p53 and/or LKB1 in mesenchymal-like KRAS mutant cancers. Supplementary Figure S13. No relationship between EMT and subgroups of KRAS mutant lung adenocarcinoma defined by a previous study. Supplementary Figure S14. No relationship between sensitivity to combination of FGFR inhibitor with trametinib and amino acid substitutions in KRAS in mesenchymal-like KRAS mutant cancers. Supplementary Table S1. Differentially expressed genes following EMT in the NCI-H358 cell line. Supplementary Table S2. No significant alterations in the expression of FGF ligands and receptors after trametinib treatment in NCI-H1792 cells. Supplementary Table S3. Differentially expressed genes by microarray analysis between control and trametinib-treated NCI-H1792 cells. Supplementary Table S4. Mutational status of cell lines used in this study. Supplementary Table S5. Details of the antibodies.
Supplementary Figure 2 from Chronic Myelogenous Leukemia– Initiating Cells Require Polycomb Group Protein EZH2
Authors: Xie Huafeng , Peng Cong , Huang Jialiang , Li Bin E. , Kim Woojin , Smith Elenoe C. , Fujiwara Yuko , Qi Jun , Cheloni Giulia , Das Partha P. , Nguyen Minh , Li Shaoguang , Bradner James E. , Orkin Stuart H.
Published: April 2023

Figure showing Ezh2 is required for initiation and development of CML in mouse.
Supplementary Figures S1 - S16 from Genomic Complexity Profiling Reveals That HORMAD1 Overexpression Contributes to Homologous Recombination Deficiency in Triple-Negative Breast Cancers
Authors: Watkins Johnathan , Weekes Daniel , Shah Vandna , Gazinska Patrycja , Joshi Shalaka , Sidhu Bhavna , Gillett Cheryl , Pinder Sarah , Vanoli Fabio , Jasin Maria , Mayrhofer Markus , Isaksson Anders , Cheang Maggie C.U. , Mirza Hasan , Frankum Jessica , Lord Christopher J. , Ashworth Alan , Vinayak Shaveta , Ford James M. , Telli Melinda L. , Grigoriadis Anita , Tutt Andrew N.J.
Published: April 2023

Supplementary Figure S1. Frequency of genomic aberrations in the KCL TNBC cohort. Supplementary Figure S2. Conceptual diagrams of Scores of Chromosomal Instability Scarring (SCINS). Supplementary Figure S3. Extent and location of SCINS in TNBC. Supplementary Figure S4. Chromosome-wise distribution of SCINS across four TNBC cohorts. Supplementary Figure S5. SCINS-defined tumour classes identify HORMAD1 to be among the top genes linked with Hi-AiCNA/Hi-CnLOH in PrECOG TNBCs. Supplementary Figure S6. Gene expression signatures and HORMAD1 expression. Supplementary Figure S7. Immunofluorescent localisation of HORMAD1 in cell lines. Supplementary Figure S8. Expression of HORMAD1 in breast cancer cell lines and tumour samples. Supplementary Figure S9. HORMAD1 inhibits activity of the DR-GFP HR reporter. Supplementary Figure S10. Effect of HORMAD1 overexpression and knockdown on cell growth and proliferation. Supplementary Figure S11. HORMAD1 promotes activity of the EJ5 NHEJ reporter. Supplementary Figure S12. Effect of HORMAD1 knockdown on 53BP1 and RAD51 foci in HCC1143. Supplementary Figure S13. BRCA1/2 mutation, platinum sensitivity and genomic scarring or HORMAD1 expression. Supplementary Figure S14. Effect of HORMAD1 knockdown on drug sensitivity in HCC1143. Supplementary Figure S15. ROC analysis of PrECOG TNBCs. Supplementary Figure S16. HORMAD1 expression in unselected and BRCA1/2 wildtype TNBCs.
Supplementary Figures S1 - S8, Tables S1 - S9 from Targeting p300 Addiction in CBP-Deficient Cancers Causes Synthetic Lethality by Apoptotic Cell Death due to Abrogation of MYC Expression
Authors: Ogiwara Hideaki , Sasaki Mariko , Mitachi Takafumi , Oike Takahiro , Higuchi Saito , Tominaga Yuichi , Kohno Takashi
Published: April 2023

Supplementary Figure S1. Identification of the p300 gene as a synthetic lethal hit. Supplementary Figure S2. Identification of MYC as a key factor in determining cancer cell survival under p300 depletion in CBP-KO cells or CBP depletion in p300-KO cells. Supplementary Figure S3. MYC transcriptional initiation is inactivated by suppression of histone H3K18/K27 acetylation upon p300 depletion in CBP-deficient cancer cells. Supplementary Figure S4. p300 depletion is lethal in cancer cells harboring loss-offunction mutations in CBP. Supplementary Figure S5. Response of CBP-deficient lung cancer cells to the p300 HAT inhibitor C646. Supplementary Figure S6. Depletion or inhibition of p300 suppresses growth of hematopoietic cancers with loss-of-function mutation of CBP. Supplementary Figure S7. Effect to BRD4 localization in the MYC locus in p300 depletion in CBP-deficient cancer cells. Supplementary Figure S8. CBP/CREBBP and p300/EP300 aberrations and known druggable aberrations of FGFR1 or ERBB2 amplification in lung squamous cell carcinomas and stomach adenocarcinomas. Supplementary Table S1. Raw data of survival fraction in siRNA screen. Supplementary Table S2. The top13 statistically significant pathways obtained from WikiPathways analysis. Supplementary Table S3. Genes commonly involved in the 13 functional pathways. Supplementary Table S4. CBP and p300 mutations in a variety of cancers. Supplementary Table S5. Gene status of tumor cell lines. Supplementary Table S6. siRNAs used in this study. Supplementary Table S7. Antibody for immunoblotting used in this study. Supplementary Table S8. TaqMan® Gene Expression Assays used in this study. Supplementary Table S9. Primer used in this study.
Supplementary Tables 1 - 9 from Convergence of Acquired Mutations and Alternative Splicing of CD19 Enables Resistance to CART-19 Immunotherapy
Authors: Sotillo Elena , Barrett David M. , Black Kathryn L. , Bagashev Asen , Oldridge Derek , Wu Glendon , Sussman Robyn , Lanauze Claudia , Ruella Marco , Gazzara Matthew R. , Martinez Nicole M. , Harrington Colleen T. , Chung Elaine Y. , Perazzelli Jessica , Hofmann Ted J. , Maude Shannon L. , Raman Pichai , Barrera Alejandro , Gill Saar , Lacey Simon F. , Melenhorst Jan J. , Allman David , Jacoby Elad , Fry Terry , Mackall Crystal , Barash Yoseph , Lynch Kristen W. , Maris John M. , Grupp Stephan A. , Thomas-Tikhonenko Andrei
Published: April 2023

Supplementary Table 1. DNA fragments synthesized and inserted into MSCV-CD19-IRES-DsRedFP via EcoRI/BglII or BglII/XhoI digestion, and later moved into pMX-IRES-Blast via EcoRI/XhoI cloning. Supplementary Table 2. Sets of primers used for PCR amplification and Sanger sequencing of CD19 gene and the upstream -1.2Kb enhancer and promoter regions. Supplementary Table 3. Sets of primers for the analysis of CpG-Methylation status after bisulfite modification of genomic DNA. Supplementary Table 4. Sets of primers used for radioactive semiquantitative PCR analysis of CD19 mRNA isoforms. Supplementary Table 5. Sequence of the mini-gene expanding exon2 and 220nt of its flanking introns that was synthesized (Genewiz) and inserted into pBSKii+ via XhoI/NotI cloning. Supplementary Table 6. Antibodies used for pull down assays for the identification of splicing factors that bind to the CD19-int1-exon2-int2 mini-gene. Supplementary Table 7. Primary and secondary antibodies used for immunoblotting and immunoprecipitations after protein separation by SDS-PAGE and transference to PVDF membrane (N/A, not applicable). Supplementary Table 8. Pairs of oligos for semiquantitative PCR amplification of CD19 cDNA followed by visualization in agarose gel. Same primers were used for sequencing after gel purification of specific bands. Supplementary Table 9. Pairs of oligos used for Real Time-qPCR amplification of cDNA.
Supplementary Tables 1 - 4, Figures 1 - 6 from Dissection of the Major Hematopoietic Quantitative Trait Locus in Chromosome 6q23.3 Identifies miR-3662 as a Player in Hematopoiesis and Acute Myeloid Leukemia
Authors: Maharry Sophia E. , Walker Christopher J. , Liyanarachchi Sandya , Mehta Sujay , Patel Mitra , Bainazar Maryam A. , Huang Xiaomeng , Lankenau Malori A. , Hoag Kevin W. , Ranganathan Parvathi , Garzon Ramiro , Blachly James S. , Guttridge Denis C. , Bloomfield Clara D. , de la Chapelle Albert , Eisfeld Ann-Kathrin
Published: April 2023

Supplementary Table 1. Linkage disequilibrium patterns of the tag-SNPs used for genotyping the 6q23.3 locus. Supplementary Table 2. Cytogenetic and molecular information on AML patients used for functional studies (n=12). Supplementary Table 3. French-American-British (FAB) classification35 and molecular information on AML patients used to determine miR-3662's abundance (n=8). Supplementary Table 4. Canonical pathway analysis of the miR-3662-associated gene expression signature. Supplementary Figure 1. Transcription factor binding according to the transcription factor chip data from ENCODE. Supplementary Figure 2. Electrophoretic mobility shift assay comparing the binding affinity of the alleles of rs66650371 and rs9483788. Supplementary Figure 3. Endogenous miR-3662 expression levels of hematopoietic progenitor (HP) cells during differentiation, total bone marrow aspirate of three non-leukemic donors (total BM 1-3), different populations of differentiated peripheral blood cells, and three AML cell lines. Supplementary Figure 4. Top panel, Macroscopic pictures of the spleens of three mice of the scramble and miR-3662-infected groups (organs harvested post-mortem). All mice had a massive splenomegaly compared to the un-injected, sacrificed control mouse. Bottom panel, images of spleen histologies (40x enlargement). Slides were stained for CD45 to proof MV4-11 origin of the leukemia. Supplementary Figure 5. Endogenous abundance of miR-3662 and IKBKB in patient samples and cell lines. Supplementary Figure 6. Comparison of the relative miR-3662 abundance of AML patient blasts and AML cell lines before (black) and after (red) forced miR-3662 expression with the lentiviral expression construct.
Figure S1-7 from Accelerating Discovery of Functional Mutant Alleles in Cancer
Authors: Chang Matthew T. , Bhattarai Tripti Shrestha , Schram Alison M. , Bielski Craig M. , Donoghue Mark T.A. , Jonsson Philip , Chakravarty Debyani , Phillips Sarah , Kandoth Cyriac , Penson Alexander , Gorelick Alexander , Shamu Tambudzai , Patel Swati , Harris Christopher , Gao JianJiong , Sumer Selcuk Onur , Kundra Ritika , Razavi Pedram , Li Bob T. , Reales Dalicia N. , Socci Nicholas D. , Jayakumaran Gowtham , Zehir Ahmet , Benayed Ryma , Arcila Maria E. , Chandarlapaty Sarat , Ladanyi Marc , Schultz Nikolaus , Baselga José , Berger Michael F. , Rosen Neal , Solit David B. , Hyman David M. , Taylor Barry S.
Published: April 2023

Supplementary Figures 1-7
Supplementary Figure S1 from Adaptive Reprogramming of De Novo Pyrimidine Synthesis Is a Metabolic Vulnerability in Triple-Negative Breast Cancer
Authors: Brown Kristin K. , Spinelli Jessica B. , Asara John M. , Toker Alex
Published: April 2023

Supplementary Figure S1. Chemotherapy exposure stimulates an increase in pyrimidine nucleotides in TNBC cells.
Supplemental Figures 1 through 10 from PAX3–FOXO1 Establishes Myogenic Super Enhancers and Confers BET Bromodomain Vulnerability
Authors: Gryder Berkley E. , Yohe Marielle E. , Chou Hsien-Chao , Zhang Xiaohu , Marques Joana , Wachtel Marco , Schaefer Beat , Sen Nirmalya , Song Young , Gualtieri Alberto , Pomella Silvia , Rota Rossella , Cleveland Abigail , Wen Xinyu , Sindiri Sivasish , Wei Jun S. , Barr Frederic G. , Das Sudipto , Andresson Thorkell , Guha Rajarshi , Lal-Nag Madhu , Ferrer Marc , Shern Jack F. , Zhao Keji , Thomas Craig J. , Khan Javed
Published: April 2023

Supplemental Figure 1. PAX3 Fusion in enhancer chromatin states. Supplemental Figure 2. Integration of Topological Domain Boundaries and RNA Expression Datasets Enable Discovery of Novel PAX3-FOXO1 Target Genes. Supplemental Figure 3. MYC and MYCN Expression, Enhancers and Super Enhancers in RMS Cell Lines and Primary Tumors, compared to Normal Skeletal Muscle and Myogenic Samples. Supplemental Figure 4. Genome-wide binding of PAX3-FOXO1, MYOD, MYOG and MYCN and their Functional Interdependence. Supplemental Figure 5. BRD4 at PAX3-FOXO1 Enhancers Predicts Presence of Looping Machinery and Increased Gene Expression. Supplemental Figure 6. Molecular Sensitivity Landscape of PAX3-FOXO1 RMS cells. Supplemental Figure 7. JQ1 potency across RMS cell lines and xenograft cultures. Supplemental Figure 8. Depletion of BET bromodomains in FP-RMS. Supplemental Figure 9. Impact of JQ1 on PAX3-FOXO1 target genes and PAX3-FOXO1 stability. Supplemental Figure 10. Validation of PAX3-FOXO1 Driven ALK SE Luciferase Contruct and In Vivo Efficacy of JQ1.
Supplementary Data from Longitudinal Liquid Biopsy and Mathematical Modeling of Clonal Evolution Forecast Time to Treatment Failure in the PROSPECT-C Phase II Colorectal Cancer Clinical Trial
Authors: Khan Khurum H. , Cunningham David , Werner Benjamin , Vlachogiannis Georgios , Spiteri Inmaculada , Heide Timon , Mateos Javier Fernandez , Vatsiou Alexandra , Lampis Andrea , Damavandi Mahnaz Darvish , Lote Hazel , Huntingford Ian Said , Hedayat Somaieh , Chau Ian , Tunariu Nina , Mentrasti Giulia , Trevisani Francesco , Rao Sheela , Anandappa Gayathri , Watkins David , Starling Naureen , Thomas Janet , Peckitt Clare , Khan Nasir , Rugge Massimo , Begum Ruwaida , Hezelova Blanka , Bryant Annette , Jones Thomas , Proszek Paula , Fassan Matteo , Hahne Jens C. , Hubank Michael , Braconi Chiara , Sottoriva Andrea , Valeri Nicola
Published: April 2023

Supplementary methods and Figures S1-S17
Supplementary Figure Legends from High-Throughput Genomics and Clinical Outcome in Hard-to-Treat Advanced Cancers: Results of the MOSCATO 01 Trial
Authors: Massard Christophe , Michiels Stefan , Ferté Charles , Le Deley Marie-Cécile , Lacroix Ludovic , Hollebecque Antoine , Verlingue Loic , Ileana Ecaterina , Rosellini Silvia , Ammari Samy , Ngo-Camus Maud , Bahleda Rastislav , Gazzah Anas , Varga Andrea , Postel-Vinay Sophie , Loriot Yohann , Even Caroline , Breuskin Ingrid , Auger Nathalie , Job Bastien , De Baere Thierry , Deschamps Frederic , Vielh Philippe , Scoazec Jean-Yves , Lazar Vladimir , Richon Catherine , Ribrag Vincent , Deutsch Eric , Angevin Eric , Vassal Gilles , Eggermont Alexander , André Fabrice , Soria Jean-Charles
Published: April 2023

Supplementary Figure Legends
Supplementary Table 2 from Defining Key Signaling Nodes and Therapeutic Biomarkers in NF1-Mutant Cancers
Authors: Malone Clare F. , Fromm Jody A. , Maertens Ophélia , DeRaedt Thomas , Ingraham Rachel , Cichowski Karen
Published: April 2023

PDF file - 107KB, Two class comparison between combination treated samples and controls for the other GLUT proteins and hexokinses. The log2 of fold (combination/control) expression for each gene in the GLUT and hexokinase family are shown, such that negative values indicate a decrease in the combination relative to control, and positive values represent an increase. The p-value for the difference in expression between classes is shown.
Supplementary Figure Legends from Defining Key Signaling Nodes and Therapeutic Biomarkers in NF1-Mutant Cancers
Authors: Malone Clare F. , Fromm Jody A. , Maertens Ophélia , DeRaedt Thomas , Ingraham Rachel , Cichowski Karen
Published: April 2023

PDF file - 58KB
Supplementary Figure 1 from Defining Key Signaling Nodes and Therapeutic Biomarkers in NF1-Mutant Cancers
Authors: Malone Clare F. , Fromm Jody A. , Maertens Ophélia , DeRaedt Thomas , Ingraham Rachel , Cichowski Karen
Published: April 2023

PDF file - 47KB, Supplementary Figure 1 shows that AKT inhibition does not slow proliferation in a human MPNST cell line.
Supplementary Movie 10 from Remodeling of the Collagen Matrix in Aging Skin Promotes Melanoma Metastasis and Affects Immune Cell Motility
Authors: Kaur Amanpreet , Ecker Brett L. , Douglass Stephen M. , Kugel Curtis H. , Webster Marie R. , Almeida Filipe V. , Somasundaram Rajasekharan , Hayden James , Ban Ehsan , Ahmadzadeh Hossein , Franco-Barraza Janusz , Shah Neelima , Mellis Ian A. , Keeney Frederick , Kossenkov Andrew , Tang Hsin-Yao , Yin Xiangfan , Liu Qin , Xu Xiaowei , Fane Mitchell , Brafford Patricia , Herlyn Meenhard , Speicher David W. , Wargo Jennifer A. , Tetzlaff Michael T. , Haydu Lauren E. , Raj Arjun , Shenoy Vivek , Cukierman Edna , Weeraratna Ashani T.
Published: April 2023

Supplementary Movie10
Figure S6 from Exploiting Drug Addiction Mechanisms to Select against MAPKi-Resistant Melanoma
Authors: Hong Aayoung , Moriceau Gatien , Sun Lu , Lomeli Shirley , Piva Marco , Damoiseaux Robert , Holmen Sheri L. , Sharpless Norman E. , Hugo Willy , Lo Roger S.
Published: April 2023

Supplementary Figure S6. AIF knockdown did not affect the slow-cycling predominant MAPKi-addiction phenotype
Figure S2 from MYC Instructs and Maintains Pancreatic Adenocarcinoma Phenotype
Authors: Sodir Nicole M. , Kortlever Roderik M. , Barthet Valentin J.A. , Campos Tania , Pellegrinet Luca , Kupczak Steven , Anastasiou Panayiotis , Swigart Lamorna Brown , Soucek Laura , Arends Mark J. , Littlewood Trevor D. , Evan Gerard I.
Published: April 2023

Myc drives progression from PanIN to pancreatic adenocarcinoma in KMp48 mice
Supplementary Table 2 from Targeting HER2 with Trastuzumab Deruxtecan: A Dose-Expansion, Phase I Study in Multiple Advanced Solid Tumors
Authors: Tsurutani Junji , Iwata Hiroji , Krop Ian , Jänne Pasi A. , Doi Toshihiko , Takahashi Shunji , Park Haeseong , Redfern Charles , Tamura Kenji , Wise-Draper Trisha M. , Saito Kaku , Sugihara Masahiro , Singh Jasmeet , Jikoh Takahiro , Gallant Gilles , Li Bob T.
Published: April 2023

Treatment-emergent adverse events (safety analysis set)
Figure S10 from MYC Instructs and Maintains Pancreatic Adenocarcinoma Phenotype
Authors: Sodir Nicole M. , Kortlever Roderik M. , Barthet Valentin J.A. , Campos Tania , Pellegrinet Luca , Kupczak Steven , Anastasiou Panayiotis , Swigart Lamorna Brown , Soucek Laura , Arends Mark J. , Littlewood Trevor D. , Evan Gerard I.
Published: April 2023

Myc activation reversibly induces acinar-to-ductal metaplasia (ADM) in KMp48 pancreata in vivo and in isolated KMpdx1 pancreas cancer cells in vitro
Supplementary Data Table 1 from Case Fatality Rate of Cancer Patients with COVID-19 in a New York Hospital System
Authors: Mehta Vikas , Goel Sanjay , Kabarriti Rafi , Cole Daniel , Goldfinger Mendel , Acuna-Villaorduna Ana , Pradhan Kith , Thota Raja , Reissman Stan , Sparano Joseph A. , Gartrell Benjamin A. , Smith Richard V. , Ohri Nitin , Garg Madhur , Racine Andrew D. , Kalnicki Shalom , Perez-Soler Roman , Halmos Balazs , Verma Amit
Published: April 2023

Multivariate analysis of factors associated with case-fatality in patients with cancer and covid-19. For lab value variables, the odds ratio shows increase for each 1 unit.
Supplementary Figures 1-7 from Donor Lymphocyte–Derived Natural Killer Cells Control MHC Class I–Negative Melanoma
Authors: Dang Nana , Lin Yuan , Waer Mark , Sprangers Ben
Published: April 2023

Figure S1. Evaluation of immune cells in host mice. Figure S2. Evaluation of donor T and NK cells reconstitution. Figure S3. Melanoma-bearing host mice are protected from lethal GVHD after DLI. Figure S4. Evaluation of MHC-I expression on different B16 cells. Figure S5. Evaluation of donor NK cells before transfer. Figure S6. Maturation of host NK cells after DLI. Figure S7. Donor DCs maturation.
Movie S1 from Self-Maintaining CD103+ Cancer-Specific T Cells Are Highly Energetic with Rapid Cytotoxic and Effector Responses
Authors: Abd Hamid Megat , Colin-York Huw , Khalid-Alham Nasullah , Browne Molly , Cerundolo Lucia , Chen Ji-Li , Yao Xuan , Rosendo-Machado Samara , Waugh Craig , Maldonado-Perez David , Bowes Emma , Verrill Clare , Cerundolo Vincenzo , Conlon Christopher P. , Fritzsche Marco , Peng Yanchun , Dong Tao
Published: April 2023

Movie S1 shows CD103+ T cell killing HCT116 cancer cell, in brighfield imaging.
Supplementary Figure from The Fibronectin–ILT3 Interaction Functions as a Stromal Checkpoint that Suppresses Myeloid Cells
Authors: Paavola Kevin J. , Roda Julie M. , Lin Vicky Y. , Chen Peirong , O'Hollaren Kyle P. , Ventura Richard , Crawley Suzanne C. , Li Betty , Chen Hung-I H. , Malmersjö Seth , Sharkov Nikolai A. , Horner Geoffrey , Guo Wei , Kutach Alan K. , Mondal Kalyani , Zhang Zhen , Lichtman Joshua S. , Song Christina , Rivera Lee B. , Liu Wenhui , Luo Jian , Wang Yan , Solloway Mark J. , Allan Bernard B. , Kekatpure Avantika , Starck Shelley R. , Haldankar Raj , Fan Bin , Chu Chun , Tang Jie , Molgora Martina , Colonna Marco , Kaplan Daniel D. , Hsu Jer-Yuan
Published: April 2023

Supplementary Figure from The Fibronectin–ILT3 Interaction Functions as a Stromal Checkpoint that Suppresses Myeloid Cells
Supplementary Table from Amplified EPOR/JAK2 Genes Define a Unique Subtype of Acute Erythroid Leukemia
Authors: Takeda June , Yoshida Kenichi , Nakagawa Masahiro M. , Nannya Yasuhito , Yoda Akinori , Saiki Ryunosuke , Ochi Yotaro , Zhao Lanying , Okuda Rurika , Qi Xingxing , Mori Takuto , Kon Ayana , Chiba Kenichi , Tanaka Hiroko , Shiraishi Yuichi , Kuo Ming-Chung , Kerr Cassandra M. , Nagata Yasunobu , Morishita Daisuke , Hiramoto Nobuhiro , Hangaishi Akira , Nakazawa Hideyuki , Ishiyama Ken , Miyano Satoru , Chiba Shigeru , Miyazaki Yasushi , Kitano Toshiyuki , Usuki Kensuke , Sezaki Nobuo , Tsurumi Hisashi , Miyawaki Shuichi , Maciejewski Jaroslaw P. , Ishikawa Takayuki , Ohyashiki Kazuma , Ganser Arnold , Heuser Michael , Thol Felicitas , Shih Lee-Yung , Takaori-Kondo Akifumi , Makishima Hideki , Ogawa Seishi
Published: April 2023

Supplementary Table from Amplified EPOR/JAK2 Genes Define a Unique Subtype of Acute Erythroid Leukemia
Supplementary Data from Pharmacogenomic Profiling of Pediatric Acute Myeloid Leukemia to Identify Therapeutic Vulnerabilities and Inform Functional Precision Medicine
Authors: Wang Han , Chan Kathy Yuen Yee , Cheng Chi Keung , Ng Margaret H.L. , Lee Po Yi , Cheng Frankie Wai Tsoi , Lam Grace Kee See , Chow Tin Wai , Ha Shau Yin , Chiang Alan K.S. , Leung Wing Hang , Leung Anskar Y.H. , Wang Chi Chiu , Zhang Tao , Zhang Xiao-Bing , So Chi Chiu , Yuen Yuet Ping , Sun Qiwei , Zhang Chi , Xu Yaqun , Cheung John Tak Kit , Ng Wing Hei , Tang Patrick Ming-Kuen , Kang Wei , To Ka-Fai , Lee Wayne Yuk Wai , Wong Raymond S.M. , Poon Ellen Ngar Yun , Zhao Qi , Huang Junbin , Chen Chun , Yuen Patrick Man Pan , Li Chi-kong , Leung Alex Wing Kwan , Leung Kam Tong
Published: April 2023

Supplementary Data from Pharmacogenomic Profiling of Pediatric Acute Myeloid Leukemia to Identify Therapeutic Vulnerabilities and Inform Functional Precision Medicine
Supplementary Table 6 from ETV6 Deficiency Unlocks ERG-Dependent Microsatellite Enhancers to Drive Aberrant Gene Activation in B-Lymphoblastic Leukemia
Authors: Kodgule Rohan , Goldman Joshua W. , Monovich Alexander C. , Saari Travis , Aguilar Athalee R. , Hall Cody N. , Rajesh Niharika , Gupta Juhi , Chu Shih-Chun A. , Ye Li , Gurumurthy Aishwarya , Iyer Ashwin , Brown Noah A. , Chiang Mark Y. , Cieslik Marcin P. , Ryan Russell J.H.
Published: April 2023

Supplementary Table 6 details GGAA repeat overlap analysis of new and previously published ETS factor datasets.
Supplementary Figure S8 from Tumor Cell–Autonomous SHP2 Contributes to Immune Suppression in Metastatic Breast Cancer
Authors: Chen Hao , Cresswell Gregory M. , Libring Sarah , Ayers Mitchell G. , Miao Jinmin , Zhang Zhong-Yin , Solorio Luis , Ratliff Timothy L. , Wendt Michael K.
Published: April 2023

T cell composition analysis in mice bearing SHP2 manipulated 4T1 metastases and representative dot plots for data shown in figure 4A.
Figure S2 from Boosting of Waned Humoral and Cellular Responses to SARS-CoV-2 Variants of Concern Among Patients with Cancer
Authors: McKenzie Duncan R. , Graham Rosalind , Lechmere Thomas , Domingo-Vila Clara , Alaguthurai Thanussuyah , Arman Celeste , Pollock Emily , Gousis Charalampos , Kakkassery Helen , Carpenter Esme , Kurshan Ashwini , Vidler Jennifer , Kulasekararaj Austin , Patten Piers , North Bernard V. , Tree Timothy , Doores Katie J. , Hayday Adrian C. , Irshad Sheeba
Published: April 2023

S2. T cell responses prior to SARS-CoV-2 vaccination dose 3.
Supplementary Figure FS2 from Circulating Tumor DNA Monitoring Reveals Molecular Progression before Radiologic Progression in a Real-life Cohort of Patients with Advanced Non–small Cell Lung Cancer
Authors: Frank Malene S. , Andersen Christina S.A. , Ahlborn Lise B. , Pallisgaard Niels , Bodtger Uffe , Gehl Julie
Published: April 2023

OS and PFS – detectable/non-detectable
Supplementary Fig. S1 from Avian Paramyxovirus 4 Antitumor Activity Leads to Complete Remissions and Long-term Protective Memory in Preclinical Melanoma and Colon Carcinoma Models
Authors: Javaheri Aryana , Bykov Yonina , Mena Ignacio , García-Sastre Adolfo , Cuadrado-Castano Sara
Published: April 2023

Antiviral response to APMV-4 and rAPMV-4 in normal cells.
Supp Table test from Distinct Predictive Immunogenomic Profiles of Response to Immune Checkpoint Inhibitors and IL2: A Real-world Evidence Study of Patients with Advanced Renal Cancer
Authors: Eisner Joel R. , Beebe Kirk D. , Mayhew Gregory M. , Shibata Yoichiro , Guo Yuelong , Farhangfar Carol , Farhangfar Farhang , Uronis Joshua M. , Mooney Jill , Milburn Michael V. , Foureau David , White Richard L. , Amin Asim , Milla Marcos E.
Published: April 2023

this is a test
Supplementary Data from Bcl-xL Inhibition Radiosensitizes PIK3CA/PTEN Wild-type Triple-negative Breast Cancers with Low Mcl-1 Expression
Authors: Pesch Andrea M. , Chandler Benjamin C. , Michmerhuizen Anna R. , Carter Hannah M. , Hirsh Nicole H. , Wilder-Romans Kari , Liu Meilan , Ward Tanner , Ritter Cassandra L. , Nino Charles A. , Jungles Kassidy M. , Pierce Lori J. , Rae James M. , Speers Corey W.
Published: April 2023

Supplemental Figures (8) and Tables
Figure S7 from CD47-blocking Antibody ZL-1201 Promotes Tumor-associated Macrophage Phagocytic Activity and Enhances the Efficacy of the Therapeutic Antibodies and Chemotherapy
Authors: Cao Anthony , Yi Jiaqing , Tang Xinyan , Szeto Christopher W. , Wu Renyi , Wan Bing , Fang Xu , Li Shou , Wang Lei , Wang Lina , Li Jing , Ye Qiuping , Huang Tom , Hsu Karl , Kabbarah Omar , Zhou Haiying
Published: April 2023

Individual tumor volumes
Vaccinium jiuwanshanense (Ericaceae), a new species from Guangxi, China
Authors: QIN YING , HUANG YU SONG , TAN FEI , LIU YAN , TONG YI HUA
Published: April 2023

Vaccinium jiuwanshanense, a new species from Jiuwanshan National Nature Reserve, Guangxi, China, is described and illustrated. It is similar to V. subfalcatum, but can be easily distinguished from the latter by its smaller habit, smaller and dense leaves, shorter and pubescent inflorescence rachis, bracteoles inserted near apex of pedicel, corolla with small teeth at middle of longitudinal ridges and stamens with very small downward spurs on the back of anther tubules. Detailed morphological descriptions, colour photographs, distribution, and some other information of this new species are also provided.
Annual Cycle in Upper-Ocean Heat Content and the Global Energy Budget
Authors: Pan Yuying , Cheng Lijing , von Schuckmann Karina , Trenberth Kevin E. , Li Guancheng , Abraham John , Liu Yuanxin , Gouretski Viktor , Yu Yongqiang , Liu Hailong , Liu Chunlei
Published: April 2023

As a major component of Earth’s energy budget, ocean heat content (OHC) plays a vital role in buffering climate change. The annual cycle is the most prominent change in OHC but has always been removed to study variations and changes in Earth’s energy budget. Here, we investigate the annual cycle of the upper-2000-m OHC at regional to global scales and assess the robustness of the signals using the spread of multiple observational products. The potential drivers are also investigated by comparing the annual OHC signal with the corresponding change in top-of-atmosphere radiation, surface heat flux, ocean heat divergence, and meridional heat transport. Results show that the robust signal of annual OHC change is significant down to a 1000-m depth globally and can reach down to 1500 m in some areas such as the tropical ocean. The global OHC (0–1500 m) changes from positive anomalies within September–February to negative anomalies within March–August, mainly because of the larger ocean area in the Southern Hemisphere and the seasonal migration of solar irradiance. Owing to the huge ocean heat capacity, the annual cycle of OHC dominates that of the global energy budget. The difference among the OHC annual cycles in the three major ocean basins is mainly attributed to ocean heat transport, especially in the tropics. In the upper 1500 m at mid- and high latitudes and in the upper 50 m of the tropics, the net sea surface heat flux dominates the OHC annual cycle, while in the tropics below 50 m, wind-driven Ekman heat transport associated with the geostrophic flow is the main driver.
Otolaryngologic Presentations to Emergency Departments During the COVID-19 Pandemic: A Systematic Review and Meta-Analysis
Authors: Munhall Christopher C. , Shah Sunny , Nguyen Shaun A. , Meyer Ted A. , Schlosser Rodney J. , White David R.
Published: April 2023

Objectives:

To perform a systematic review of otolaryngologic presentation rates to emergency department settings before and after lockdown due to the COVID-19 pandemic.

Sources:

PubMed, Scopus, and CINAHL.

Methods:

A systematic search was conducted following PRISMA guidelines (Preferred Reporting Items for Systematic Reviews and Meta-analyses) for studies describing otolaryngologic presentations to emergency department and rapid access clinic settings both in the before-lockdown and after-lockdown periods. The start of after-lockdown period varied based on initiation of lockdown, ranging from March 1st to June 1st of 2020 across general emergency department studies.

Results:

A total of 14 studies were included in this review. About 10 were general emergency departments, 3 were specifically pediatric emergency departments, and 1 study focused on the geriatric population (>65 years). A total of 13 790 patients were included, with 9446 in the before-lockdown period (68.5%) and 4344 in the after-lockdown period (31.5%). Meta-analysis of proportions for otolaryngologic presentations across general emergency departments was performed. Comparison of weighted proportions found significant differences between before-lockdown and after-lockdown presentation rates for infectious etiologies, tonsillitis specifically, foreign bodies, non-infectious airway issues, and epistaxis among these studies.

Conclusions:

The increased proportions of various non-infectious presentations (eg, epistaxis, foreign bodies, and airway issues) following lockdown might be associated with proportional decreases in infectious pathologies, given decreased social contact to prevent SARS-CoV-2 transmission. Overall, it is important for otolaryngologists to recognize what presentations might more commonly be seen and require evaluation and potential intervention in light of a global pandemic.
Evaluation of the two-point calibration bromocresol green method, showing reduced deviation from the bromocresol purple method in sera from patients with hypoalbuminemia
Authors: Iwasaki Tatsuya , Nakajima Kazuki , Hirowatari Yuji , Matsushita Makoto
Published: April 2023

Background

The bromocresol green (BCG) and bromocresol purple (BCP) methods are widely used for albumin measurements in routine testing, but the BCG method is known to react with globulin fractions and to have low specificity for albumin. We evaluated a calibration method using different concentrations of human serum albumin standards (two-point calibration BCG method) with the aim of reducing the effect of globulin fractions on the BCG method in patients with hypoalbuminemia.

Method

In the two-point calibration BCG method, two concentrations of standard solutions and their calibration values are set based on the difference in albumin concentrations measured by the BCG method (BCG-HSA method) and the modified BCP (modified BCP-HSA method) calibrated with human serum albumin standard solution (HSA). Albumin concentrations were measured in 136 patient serum samples (healthy group: 52, hypoalbuminemic group: 84) by the two-point calibrated BCG method and compared with those obtained using the modified BCP-HSA method.

Results

The mean albumin concentrations obtained using the two-point calibrated BCG and modified BCP-HSA methods were 39.18 ± 3.42 g/L and 39.37 ± 3.14 g/L (healthy group) and 26.20 ± 6.23 g/L and 26.23 ± 5.67 g/L (hypoalbuminemia group), respectively. The results of the two-point calibration BCG method were in a close agreement over the entire concentration range tested compared to the modified BCP-HSA method.

Conclusions

Based on these results, this calibration method reduces the influence of the globulin fraction on the BCG method. In the hypoalbuminemic group, the calibration method was shown to provide results consistent with the BCP method, which is highly specific for albumin.
Are the Steps on Likert Scales Equidistant? Responses on Visual Analog Scales Allow Estimating Their Distances
Authors: García-Pérez Miguel A.
Published: April 2023

A recurring question regarding Likert items is whether the discrete steps that this response format allows represent constant increments along the underlying continuum. This question appears unsolvable because Likert responses carry no direct information to this effect. Yet, any item administered in Likert format can identically be administered with a continuous response format such as a visual analog scale (VAS) in which respondents mark a position along a continuous line. Then, the operating characteristics of the item would manifest under both VAS and Likert formats, although perhaps differently as captured by the continuous response model (CRM) and the graded response model (GRM) in item response theory. This article shows that CRM and GRM item parameters hold a formal relation that is mediated by the form in which the continuous dimension is partitioned into intervals to render the discrete Likert responses. Then, CRM and GRM characterizations of the items in a test administered with VAS and Likert formats allow estimating the boundaries of the partition that renders Likert responses for each item and, thus, the distance between consecutive steps. The validity of this approach is first documented via simulation studies. Subsequently, the same approach is used on public data from three personality scales with 12, eight, and six items, respectively. The results indicate the expected correspondence between VAS and Likert responses and reveal unequal distances between successive pairs of Likert steps that also vary greatly across items. Implications for the scoring of Likert items are discussed.
Pathways to Legitimacy for Black and White Authorities: Impressions of Competence and Warmth
Authors: Hawks Kate , Hegtvedt Karen A. , Gibson Ryan , Johnson Cathryn , Zion Jamica
Published: April 2023

Legitimacy is crucial for the effectiveness of leaders in the workplace. We investigate pathways by which authorities in the workplace gain legitimacy and how they differ by authority race. In addition to leaders’ behaviors, subordinates’ impressions of leaders’ competence and warmth, stemming from those behaviors, impact their views of leader legitimacy. We further assess how the role of mediating impressions depends on the race of the authority enacting the behaviors. In an experimental vignette study, we manipulate the authority’s actions (use of fair procedures and power benevolently) and race (Black/white) and measure perceived competence, warmth, and legitimacy. Results indicate that the effects of leader behaviors on legitimacy operate through impressions of competence and warmth. Moreover, authority race alters this pathway; behaviors operate through competence impressions for white managers and through warmth impressions for Black managers. Our study illuminates how leaders gain legitimacy at work and how this process is racialized.
Response to intervention services for preschool children with developmental language disorder: Opinions of school and health care service professionals and managers
Authors: Ross-Lévesque Élody , Careau Emmanuelle , Desmarais Chantal
Published: April 2023

Background. Children with developmental language disorder (DLD) are less prepared for school than typically developing children and are therefore at risk for academic, social, and behavioral difficulties when they enter school. To support these children, early family-centered intervention is recommended. However, access to effective care remains an issue. Researchers have therefore suggested to reconsider the place of individual specialized intervention within a broader systemic response to intervention (RTI) framework. The aim of this study is to explore the opinions of professionals and managers working with children aged 0–5 with language difficulties on strategies to better support their school readiness. Specifically, it explores the facilitators and barriers to school readiness in children with DLD as well as strategies to better prepare them for school. Finally, it examines how an RTI model can provide a framework for services to preschool children with DLD. Methods. Two focus groups were conducted with 15 professionals and managers in the health care and school systems in the province of Quebec (Canada). The interviews were analyzed using an analytical questioning strategy. Results. Five key elements in service delivery were deemed essential in supporting school readiness of children with language difficulties: (1) maximizing community initiatives, (2) training and supporting partners, (3) supporting change in practice, (4) offering flexible services adapted to children's needs, and (5) implementing mechanisms to ensure service continuity and information transfer between agencies. These key elements are conceptualized within the RTI model. Conclusion. The five key elements identified in this study should be part of an intervention model in order to optimize service organization and better support school readiness for children with DLD.
Efficacy of Undisturbed Vegetated Buffers in Capturing Suspended Sediment
Authors: Roche Brian , Perez Michael A. , Donald Wesley N. , Whitman J. Blake
Published: April 2023

The U.S. Environmental Protection Agency’s Construction General Permit requires a 50 ft (15 m) undisturbed vegetated buffer to be maintained when construction activities are adjacent to a water body. However, maintaining a buffer is not always feasible, especially in highway construction activities; therefore, a contractor may use alternatives that capture sediment at an efficiency equivalent to an undisturbed buffer. However, little research has been conducted on the sediment removal efficacy of an undisturbed vegetated buffer. Several factors influence the sediment capture efficiency of a natural vegetated buffer, including climate, soils, topography, and vegetation characteristics. This research aimed to explore the sediment removal capabilities of various vegetated buffers with factors common to Nebraska roadway construction projects using the Revised Universal Soil Loss Equation 2 Model. A multiple linear regression model was developed to analyze relationships between 7,776 model iterations. Statistical analysis indicated that decreasing the slope of the buffer and the clay and silt content in the soil increased the sediment removal efficiency of the buffer; this finding matched the conclusions of past research on vegetated filter strips and vegetated buffers. Sediment removal ranged between 77% and 99%, with an average efficiency of 94%—comparable to the efficacy of manufactured sediment barrier practices commonly used on construction sites.
The Effect of Vitamin C and N-Acetylcysteine on Tendon-to-Bone Healing in a Rodent Model of Rotator Cuff Repair
Authors: Uehara Hirohisa , Itoigawa Yoshiaki , Morikawa Daichi , Koga Akihisa , Tsurukami Hironori , Maruyama Yuichiro , Ishijima Muneaki
Published: April 2023

Background:

Oxidative stress inhibits tendon-to-bone healing after rotator cuff repair. Regulation of oxidative stress has the potential to accelerate this healing, but its mechanism remains unclear.

Purpose:

To investigate the effects of reducing oxidative stress by applying antioxidants, such as N-acetylcysteine (NAC) and vitamin C (VC), on rotator cuff repair in a rat rotator cuff repair model.

Study design:

Controlled laboratory study.

Methods:

A total of 48 Sprague Dawley rats underwent bilateral surgery to repair the infraspinatus tendon to its insertion site 1 week after detachment. Rats were assigned to either the NAC group, the VC group, or a control group. Histological evaluation was performed via hematoxylin-eosin or toluidine blue staining, and oxidative stress was assessed via dihydroethidium intensity and protein carbonyl concentration at 3 and 6 weeks. Superoxide dismutase 1 (SOD1), SOD2, SOD3, peroxiredoxin 5, collagen type I (COL1), COL3, matrix metalloproteinase 1 (MMP-1), MMP-3, and MMP-13 expression and SOD activity were determined at 3 and 6 weeks. Biomechanical tests were performed at 6 and 12 weeks.

Results:

Histological evaluation showed that the number of chondrocytes in the NAC group at 6 weeks and in the VC group at 3 and 6 weeks, the area of fibrocartilage at 6 weeks in the VC group, and collagen fibers at 6 weeks in the NAC and VC groups were significantly increased compared with those in the control group. Dihydroethidium intensity at 3 and 6 weeks and protein carbonyls at 6 weeks in the NAC and VC groups were significantly decreased. SOD1 expression and SOD activity at 3 weeks in the VC group and peroxiredoxin 5 expression at 6 weeks in the NAC group were significantly upregulated compared with that in the control group. COL3 expression was significantly upregulated at 6 weeks in the VC group, and MMP-13 expression was significantly decreased at 6 weeks in the NAC and VC groups. The biomechanical strength showed no significant difference.

Conclusion:

Antioxidant treatment, via NAC or VC administration, reduced oxidative stress in the rotator cuff repair site and accelerated healing.

Clinical Relevance:

These findings provide essential indications to develop clinical strategies for improved healing after rotator cuff surgical repair in patients.
Impact of a Publicly-Funded Pharmacare Program on Prescription Stimulant use Among Children and Youth: A Population-Based Observational Natural Experiment
Authors: Antoniou Tony , McCormack Daniel , Kitchen Sophie , Pajer Kathleen , Gardner William , Lunsky Yona , Penner Melanie , Tadrous Mina , Mamdani Muhammad , Juurlink David N. , Gomes Tara
Published: April 2023

Objective

Stimulants are first-line pharmacotherapy for individuals with attention-deficit hyperactivity disorder. However, disparities in drug coverage may contribute to inequitable treatment access. In January 2018, the government of Ontario, Canada, implemented a publicly-funded program (OHIP+) providing universal access to medications at no cost to children and youth between the ages of 0 and 24. In April 2019, the program was amended to cover only children and youth without private insurance. We studied whether these policy changes were associated with changes in prescription stimulant dispensing to Ontario children and youth.

Methods

We conducted a population-based observational natural experiment study of stimulant dispensing to children and youth in Ontario between January 2013 and March 2020. We used interventional autoregressive integrated moving average models to estimate the association between OHIP+ and its subsequent modification with stimulant dispensing trends.

Results

The implementation of OHIP+ was associated with a significant immediate increase in the monthly rate of stimulant dispensing of 53.6 individuals per 100,000 population (95% confidence interval [CI], 36.8 to 70.5 per 100,000) and a 14.2% (95% CI, 12.8% to 15.6%) relative percent increase in stimulant dispensing rates between December 2017 and March 2019 (1198.6 vs. 1368.7 per 100,000 population). The April 2019 OHIP+ program amendment was associated with an increase in monthly stimulant dispensing trends of 10.2 individuals per 100,000 population (95% CI, 5.0 to 15.5), with rates increasing 7.5% (95% CI, 6.2% to 8.7%) between March 2019 and March 2020 (1368.7 vs. 1470.8 per 100,000 population). These associations were most pronounced among males, children and youth living in the highest income neighbourhoods and individuals aged 20 to 24.

Conclusion

A publicly-funded pharmacare program was associated with more children and youth being dispensed stimulants.
Impact of Teaching a Neuro-Computerized Course Through VLE to Develop Computational Thinking Among Mathematics Pre-service Teachers
Authors: Abouelenein Yousri Attia Mohamed , Nagy Elmaadaway Mohamed Ali
Published: April 2023

The current study aims to determine the effect of teaching a mechanic neuro-computerized course through virtual learning environments (VLE) to develop computational thinking among mathematics pre-service teachers. The neuro-computerized virtual learning environments (NCVLE) model was designed to be used to teach the mechanics course to third-year students of the mathematics department. To achieve the targeted learning outcomes, the study recruited (102) third-year students of the Faculty of Education and classified them into a control group of (50) students and an experimental group of (52) students. The experiment lasted for 14 weeks during one semester of the 2021-2022 academic year. The results agreed with most of what has been found from relevant literature and studies. Also, the results indicated that the NCVLE model played a vital role in the purposeful teaching, learning, and assessment processes and enhanced the learning of computational thinking.