bluuebunny/crossref_metadata_2025 huggingface dataset:
Data Supplement from Acquired Resistance to Endocrine Treatments Is Associated with Tumor-Specific Molecular Changes in Patient-Derived Luminal Breast Cancer Xenografts
Authors: Cottu Paul , Bièche Ivan , Assayag Franck , El Botty Rania , Chateau-Joubert Sophie , Thuleau Aurélie , Bagarre Thomas , Albaud Benoit , Rapinat Audrey , Gentien David , de la Grange Pierre , Sibut Vonick , Vacher Sophie , Hatem Rana , Servely Jean-Luc , Fontaine Jean-Jacques , Decaudin Didier , Pierga Jean-Yves , Roman-Roman Sergio , Marangoni Elisabetta
Published: April 2023

Supplementary Table S3. Genes differentially expressed between HBCx22 TamR and HBCx22 and associated gene ontology terms.
Supplementary Tables 1-3 from Genetics and Prognostication in Splenic Marginal Zone Lymphoma: Revelations from Deep Sequencing
Authors: Parry Marina , Rose-Zerilli Matthew J.J. , Ljungström Viktor , Gibson Jane , Wang Jun , Walewska Renata , Parker Helen , Parker Anton , Davis Zadie , Gardiner Anne , McIver-Brown Neil , Kalpadakis Christina , Xochelli Aliki , Anagnostopoulos Achilles , Fazi Claudia , Gonzalez de Castro David , Dearden Claire , Pratt Guy , Rosenquist Richard , Ashton-Key Margaret , Forconi Francesco , Collins Andrew , Ghia Paolo , Matutes Estella , Pangalis Gerassimos , Stamatopoulos Kostas , Oscier David , Strefford Jonathan C.
Published: April 2023

Supplementary Tables 1-3. Supplementary Table 1: Sequential samples and clonal evolution Supplementary Table 2: Haloplex gene list Supplementary Table 3: Primer sequences
Supplementary Table 6 from Genetics and Prognostication in Splenic Marginal Zone Lymphoma: Revelations from Deep Sequencing
Authors: Parry Marina , Rose-Zerilli Matthew J.J. , Ljungström Viktor , Gibson Jane , Wang Jun , Walewska Renata , Parker Helen , Parker Anton , Davis Zadie , Gardiner Anne , McIver-Brown Neil , Kalpadakis Christina , Xochelli Aliki , Anagnostopoulos Achilles , Fazi Claudia , Gonzalez de Castro David , Dearden Claire , Pratt Guy , Rosenquist Richard , Ashton-Key Margaret , Forconi Francesco , Collins Andrew , Ghia Paolo , Matutes Estella , Pangalis Gerassimos , Stamatopoulos Kostas , Oscier David , Strefford Jonathan C.
Published: April 2023

Supplementary Table 6. Somatic data from 14 matched patients
Supplementary Figure S2 from CMVpp65 Vaccine Enhances the Antitumor Efficacy of Adoptively Transferred CD19-Redirected CMV-Specific T Cells
Authors: Wang Xiuli , Wong ChingLam W. , Urak Ryan , Mardiros Armen , Budde Lihua E. , Chang Wen-Chung , Thomas Sandra H. , Brown Christine E. , La Rosa Corinna , Diamond Don J. , Jensen Michael C. , Nakamura Ryotaro , Zaia John A. , Forman Stephen J.
Published: April 2023

Supplementary Figure S2. Phenotypic characterization of different subsets in the T cell products
Supplementary Table 4 from Genetics and Prognostication in Splenic Marginal Zone Lymphoma: Revelations from Deep Sequencing
Authors: Parry Marina , Rose-Zerilli Matthew J.J. , Ljungström Viktor , Gibson Jane , Wang Jun , Walewska Renata , Parker Helen , Parker Anton , Davis Zadie , Gardiner Anne , McIver-Brown Neil , Kalpadakis Christina , Xochelli Aliki , Anagnostopoulos Achilles , Fazi Claudia , Gonzalez de Castro David , Dearden Claire , Pratt Guy , Rosenquist Richard , Ashton-Key Margaret , Forconi Francesco , Collins Andrew , Ghia Paolo , Matutes Estella , Pangalis Gerassimos , Stamatopoulos Kostas , Oscier David , Strefford Jonathan C.
Published: April 2023

Supplementary Table 4. Haloplex re-sequencing gene mutations
Supplementary material from The Expression Quantitative Trait Loci in Immune Pathways and their Effect on Cutaneous Melanoma Prognosis
Authors: Vogelsang Matjaz , Martinez Carlos N. , Rendleman Justin , Bapodra Anuj , Malecek Karolina , Romanchuk Artur , Kazlow Esther , Shapiro Richard L. , Berman Russell S. , Krogsgaard Michelle , Osman Iman , Kirchhoff Tomas
Published: April 2023

Supplementary Tables 1-4, Supplementary Figures 1-3 - Supplementary Table 1. List of Immunomodulatory genes selected for the study;Supplementary Table 2. Top 50 SNP-probe pairs selected for genotyping; Supplementary Table 3. Multivariate Cox model for association between overall survival and rs6673928 (IL19)-rs6695772 (BATF3) interaction; Supplementary Table 4. Survival analyses stratified by gender; Supplementary Figure 1. Sequence-based expression regulation of BATF3 and IL19 with variants rs6673928 and rs6695772; Supplementary Figure 2. Detailed representation of genomic region at 1q32.1 locus; Supplementary Figure 3. Correlations between BATF3 expression and expression level of IL4, IL10, IL17 and IL19.
Supplementary Figure S5 from Mithramycin Depletes Specificity Protein 1 and Activates p53 to Mediate Senescence and Apoptosis of Malignant Pleural Mesothelioma Cells
Authors: Rao Mahadev , Atay Scott M. , Shukla Vivek , Hong Young , Upham Trevor , Ripley R. Taylor , Hong Julie A. , Zhang Mary , Reardon Emily , Fetsch Patricia , Miettinen Markku , Li Xinmin , Peer Cody J. , Sissung Tristan , Figg William D. , De Rienzo Assunta , Bueno Raphael , Schrump David S.
Published: April 2023

Effect of p53 overexpression in SP1-depleted cells.
Supplementary Figure S3 from Mithramycin Depletes Specificity Protein 1 and Activates p53 to Mediate Senescence and Apoptosis of Malignant Pleural Mesothelioma Cells
Authors: Rao Mahadev , Atay Scott M. , Shukla Vivek , Hong Young , Upham Trevor , Ripley R. Taylor , Hong Julie A. , Zhang Mary , Reardon Emily , Fetsch Patricia , Miettinen Markku , Li Xinmin , Peer Cody J. , Sissung Tristan , Figg William D. , De Rienzo Assunta , Bueno Raphael , Schrump David S.
Published: April 2023

Effect of mithramycin on DNA damage.
Supplemental Tables 1-3 from A Multicenter, Phase II, Randomized, Noncomparative Clinical Trial of Radiation and Temozolomide with or without Vandetanib in Newly Diagnosed Glioblastoma Patients
Authors: Lee Eudocia Q. , Kaley Thomas J. , Duda Dan G. , Schiff David , Lassman Andrew B. , Wong Eric T. , Mikkelsen Tom , Purow Benjamin W. , Muzikansky Alona , Ancukiewicz Marek , Huse Jason T. , Ramkissoon Shakti , Drappatz Jan , Norden Andrew D. , Beroukhim Rameen , Weiss Stephanie E. , Alexander Brian M. , McCluskey Christine S. , Gerard Mary , Smith Katrina H. , Jain Rakesh K. , Batchelor Tracy T. , Ligon Keith L. , Wen Patrick Y.
Published: April 2023

Supplemental Tables 1-3. Supplementary Table 1: Correlations in the vandetanib/RT/TMZ arm between best radiographic responses with pre-treatment and on-treatment changes in blood biomarkers. Supplementary Table 2: Correlations in the vandetanib/RT/TMZ arm between overall survival with pre-treatment and on-treatment changes in blood biomarkers. Supplementary Table 3: Comparison of PFS or OS by log-rank p-value based on tissue biomarker analysis
CONSORT from A Phase II, Randomized, Study of Weekly APG101+Reirradiation versus Reirradiation in Progressive Glioblastoma
Authors: Wick Wolfgang , Fricke Harald , Junge Klaus , Kobyakov Grigory , Martens Tobias , Heese Oliver , Wiestler Benedikt , Schliesser Maximilian G. , von Deimling Andreas , Pichler Josef , Vetlova Elena , Harting Inga , Debus Jürgen , Hartmann Christian , Kunz Claudia , Platten Michael , Bendszus Martin , Combs Stephanie E.
Published: April 2023

CONSORT Statement
Supplementary materials from Characterization of Biomarkers of Tumorigenic and Chemoresistant Cancer Stem Cells in Human Gastric Carcinoma
Authors: Nguyen Phu Hung , Giraud Julie , Chambonnier Lucie , Dubus Pierre , Wittkop Linda , Belleannée Geneviève , Collet Denis , Soubeyran Isabelle , Evrard Serge , Rousseau Benoit , Senant-Dugot Nathalie , Mégraud Francis , Mazurier Frédéric , Varon Christine
Published: April 2023

Supplementary experimental procedures,figure legends and references
Supplementary Figure 2 from Characterization of Biomarkers of Tumorigenic and Chemoresistant Cancer Stem Cells in Human Gastric Carcinoma
Authors: Nguyen Phu Hung , Giraud Julie , Chambonnier Lucie , Dubus Pierre , Wittkop Linda , Belleannée Geneviève , Collet Denis , Soubeyran Isabelle , Evrard Serge , Rousseau Benoit , Senant-Dugot Nathalie , Mégraud Francis , Mazurier Frédéric , Varon Christine
Published: April 2023

Detection of ALDH+ population with SP protocol and with ALDEFLUOR protocol.
Supplementary Figure 1 from Characterization of Biomarkers of Tumorigenic and Chemoresistant Cancer Stem Cells in Human Gastric Carcinoma
Authors: Nguyen Phu Hung , Giraud Julie , Chambonnier Lucie , Dubus Pierre , Wittkop Linda , Belleannée Geneviève , Collet Denis , Soubeyran Isabelle , Evrard Serge , Rousseau Benoit , Senant-Dugot Nathalie , Mégraud Francis , Mazurier Frédéric , Varon Christine
Published: April 2023

Detection of cells expressing CD44 and ALDH activity in gastric tumorspheres in vitro.
Supplementary Figure legends from miR-663 Suppresses Oncogenic Function of CXCR4 in Glioblastoma
Authors: Shi Yu , Chen Cong , Yu Shi-Zhu , Liu Qing , Rao Jun , Zhang Hua-Rong , Xiao Hua-Liang , Fu Ti-Wei , Long Hua , He Zhi-Cheng , Zhou Kai , Yao Xiao-Hong , Cui You-Hong , Zhang Xia , Ping Yi-Fang , Bian Xiu-Wu
Published: April 2023

Supplementary Figure legends. Supplementary Figure legends for Fig. S1-S4.
Supplementary Figure 2 from Vaccination with Melanoma Helper Peptides Induces Antibody Responses Associated with Improved Overall Survival
Authors: Reed Caroline M. , Cresce Nicole D. , Mauldin Ileana S. , Slingluff Craig L. , Olson Walter C.
Published: April 2023

Supplementary Figure 2. Increased Ab responses over time to 3 of the 4 peptides assessed.
Supplementary Figure 5 from A Novel Epigenetic Signature for Early Diagnosis in Lung Cancer
Authors: Diaz-Lagares Angel , Mendez-Gonzalez Jesus , Hervas David , Saigi Maria , Pajares Maria J. , Garcia Diana , Crujerias Ana B. , Pio Ruben , Montuenga Luis M. , Zulueta Javier , Nadal Ernest , Rosell Antoni , Esteller Manel , Sandoval Juan
Published: April 2023

Heatmap representing the patients' methylation profile for the four genes involved in the prediction model and Nomogram for prediction of cancer risk, constructed using the coefficients of our combined logistic regression model as weights.
Supplementary Table 2 from PRAME as an Independent Biomarker for Metastasis in Uveal Melanoma
Authors: Field Matthew G. , Decatur Christina L. , Kurtenbach Stefan , Gezgin Gülçin , van der Velden Pieter A. , Jager Martine J. , Kozak Kaleigh N. , Harbour J. William
Published: April 2023

Comparison of features between uveal melanoma subgroups.
The list of universally elevated genes in LPACï½“ of all cell lines using microarray analysis. from Cancer Stem-like Properties in Colorectal Cancer Cells with Low Proteasome Activity
Authors: Munakata Koji , Uemura Mamoru , Tanaka Shinji , Kawai Kenji , Kitahara Tomohiro , Miyo Masaaki , Kano Yoshihiro , Nishikawa Shinpei , Fukusumi Takahito , Takahashi Yusuke , Hata Taishi , Nishimura Junichi , Takemasa Ichiro , Mizushima Tsunekazu , Ikenaga Masakazu , Kato Takeshi , Murata Kohei , Carethers John M. , Yamamoto Hirofumi , Doki Yuichiro , Mori Masaki
Published: April 2023

Several cancer-related gene candidates were identified using microarray data from the four cell lines (HCT116, SW480, DLD1, KM12SM)
Relationship between EID3 expression and clinicopathological factors in patients with colorectal cancer from Cancer Stem-like Properties in Colorectal Cancer Cells with Low Proteasome Activity
Authors: Munakata Koji , Uemura Mamoru , Tanaka Shinji , Kawai Kenji , Kitahara Tomohiro , Miyo Masaaki , Kano Yoshihiro , Nishikawa Shinpei , Fukusumi Takahito , Takahashi Yusuke , Hata Taishi , Nishimura Junichi , Takemasa Ichiro , Mizushima Tsunekazu , Ikenaga Masakazu , Kato Takeshi , Murata Kohei , Carethers John M. , Yamamoto Hirofumi , Doki Yuichiro , Mori Masaki
Published: April 2023

No significant differences were found between the two groups regarding clinicopathological factors, such as age, gender, tumor location, depth of tumor invasion, lymph node metastasis, histological grade, Dukes' stage, and vessel invasion.
Supplemental Table S5 from Whole Exome Sequencing Reveals the Order of Genetic Changes during Malignant Transformation and Metastasis in a Single Patient with NF1-plexiform Neurofibroma
Authors: Hirbe Angela C. , Dahiya Sonika , Miller Christopher A. , Li Tiandao , Fulton Robert S. , Zhang Xiaochun , McDonald Sandra , DeSchryver Katherine , Duncavage Eric J. , Walrath Jessica , Reilly Karlyne M. , Abel Haley J. , Pekmezci Melike , Perry Arie , Ley Timothy J. , Gutmann David H.
Published: April 2023

Supplemental Table S5. Mutations Identified in the Validation Set
Supplementary Table 2 from Expression and Function of Phosphodiesterase Type 5 in Human Breast Cancer Cell Lines and Tissues: Implications for Targeted Therapy
Authors: Catalano Stefania , Campana Antonella , Giordano Cinzia , Győrffy Balázs , Tarallo Roberta , Rinaldi Antonio , Bruno Giuseppina , Ferraro Aurora , Romeo Francesco , Lanzino Marilena , Naro Fabio , Bonofiglio Daniela , Andò Sebastiano , Barone Ines
Published: April 2023

Differentially expressed genes identified by RNA sequencing in PDE5-overexpressing MCF-7 cells compared to empty-vector transfected cells.
Supplementary Materials and Methods from Expression and Function of Phosphodiesterase Type 5 in Human Breast Cancer Cell Lines and Tissues: Implications for Targeted Therapy
Authors: Catalano Stefania , Campana Antonella , Giordano Cinzia , Győrffy Balázs , Tarallo Roberta , Rinaldi Antonio , Bruno Giuseppina , Ferraro Aurora , Romeo Francesco , Lanzino Marilena , Naro Fabio , Bonofiglio Daniela , Andò Sebastiano , Barone Ines
Published: April 2023

RNA library preparation and sequencing. Classification of molecular subtypes. Immunohistochemical analysis.
Supplementary figure legend from Inhibition of CD47 Effectively Targets Pancreatic Cancer Stem Cells via Dual Mechanisms
Authors: Cioffi Michele , Trabulo Sara , Hidalgo Manuel , Costello Eithne , Greenhalf William , Erkan Mert , Kleeff Joerg , Sainz Bruno , Heeschen Christopher
Published: April 2023

Supplementary figure legend
Supplementary Figure 2 from Antiproliferative Effect of Lapatinib in HER2-Positive and HER2-Negative/HER3-High Breast Cancer: Results of the Presurgical Randomized MAPLE Trial (CRUK E/06/039)
Authors: Leary Alexandra , Evans Abigail , Johnston Stephen R.D. , A'Hern Roger , Bliss Judith M. , Sahoo Rashmita , Detre Simone , Haynes Benjamin P. , Hills Margaret , Harper-Wynne Catherine , Bundred Nigel , Coombes Gill , Smith Ian , Dowsett Mitch
Published: April 2023

Supplementary Figure 2. Change in Ki67 with Lapatinib in HER2-ve group according to HER2 mRNA and HER3 mRNA expression
Supplemental Material from Toward Personalized Lymphoma Immunotherapy: Identification of Common Driver Mutations Recognized by Patient CD8+ T Cells
Authors: Nielsen Julie S. , Sedgwick Colin G. , Shahid Aniqa , Zong Zusheng , Brumme Zabrina L. , Yu Stephen , Liu Lewis , Kroeger David R. , Treon Steven P. , Connors Joseph M. , Gascoyne Randy D. , Berry Brian R. , Marra Marco A. , Morin Ryan D. , Macpherson Nicol , Nelson Brad H.
Published: April 2023

Supplemental Methods. Table S1. Frequency of hematopoietic subsets in PBMC at all time points for patient samples used for in vitro immunogenicity experiments Table S2: Clinical characteristics of follicular lymphoma cohorts Table S3. Amino acid changes encoded by somatic mutations identified in candidate genes in follicular lymphoma cohort Table S4. Patient HLA class I alleles for in vitro immunogenicity cohort Figure S1. The number of mutant peptides predicted to bind patient-specific HLA class I molecules in the sequencing cohort. Figure S2. Clinical timeline for 13-patient cohort selected for in vitro immunogenicity studies. Figure S3. CD8 status of mutant peptide-reactive T cells.
Supplementary Figure 1 from Antiproliferative Effect of Lapatinib in HER2-Positive and HER2-Negative/HER3-High Breast Cancer: Results of the Presurgical Randomized MAPLE Trial (CRUK E/06/039)
Authors: Leary Alexandra , Evans Abigail , Johnston Stephen R.D. , A'Hern Roger , Bliss Judith M. , Sahoo Rashmita , Detre Simone , Haynes Benjamin P. , Hills Margaret , Harper-Wynne Catherine , Bundred Nigel , Coombes Gill , Smith Ian , Dowsett Mitch
Published: April 2023

Supplementary Figure 1. Correlations between expression levels of ER, PgR, HER2 or EGFR and Ki67 in baseline tumor samples
Supplementary Materials and Methods from LIM and SH3 Protein 1 Induces TGFβ-Mediated Epithelial–Mesenchymal Transition in Human Colorectal Cancer by Regulating S100A4 Expression
Authors: Wang Hui , Shi Jiaolong , Luo Yuhao , Liao Qing , Niu Ya , Zhang Feifei , Shao Ziyun , Ding Yanqing , Zhao Liang
Published: April 2023

Supplementary Materials and Methods
Supplemental data S1 - S3 from Identification of Differentially Expressed Long Noncoding RNAs in Bladder Cancer
Authors: Peter Stefan , Borkowska Edyta , Drayton Ross M. , Rakhit Callum P. , Noon Aidan , Chen Wei , Catto James WF
Published: April 2023

Supplemental data S1 - S3. Interactive pathways analysis linking EMP1 and SND1
Supplemental Figure S1 from The Renin–Angiotensin System Mediates EGF Receptor–Vitamin D Receptor Cross-Talk in Colitis-Associated Colon Cancer
Authors: Dougherty Urszula , Mustafi Reba , Sadiq Farhana , Almoghrabi Anas , Mustafi Devkumar , Kreisheh Maggi , Sundaramurthy Sumana , Liu Weicheng , Konda Vani J. , Pekow Joel , Khare Sharad , Hart John , Joseph Loren , Wyrwicz Alice , Karczmar Gregory S. , Li Yan Chun , Bissonnette Marc
Published: April 2023

Supplemental Figure S1. Tarceva, an EGFR inhibitor, blocks Ang II induced HT29 cell proliferation. Cells (5,000) were plated on 96 well plates and allowed to adhere overnight. Cells were then treated with Tarceva (10 ÂµM), or vehicle for 2 hrs followed by Ang II (50 nM) or vehicle for 24 hrs. Cell proliferation was determined by Wst1 assay as described in the "Materials and Methods" (*,â€ p<0.05, compared to control; n=2 independent platings).
Supplementary Figure 1 from Dual mTORC1/2 Blockade Inhibits Glioblastoma Brain Tumor Initiating Cells In Vitro and In Vivo and Synergizes with Temozolomide to Increase Orthotopic Xenograft Survival
Authors: Luchman H. Artee , Stechishin Owen D.M. , Nguyen Stephanie A. , Lun Xueqing Q. , Cairncross J. Gregory , Weiss Samuel
Published: April 2023

Molecular and genetic analysis of BTICs identifies subgroups with endogenous mutations in EGFR and PTEN.
Supplementary Figure 4 from Combined Antitumor Therapy with Metronomic Topotecan and Hypoxia-Activated Prodrug, Evofosfamide, in Neuroblastoma and Rhabdomyosarcoma Preclinical Models
Authors: Zhang Libo , Marrano Paula , Wu Bing , Kumar Sushil , Thorner Paul , Baruchel Sylvain
Published: April 2023

Topotecan enhanced intracellular ROS in rhabdomyosarcoma cells under hypoxia. Tumor cells were exposed different concentrations of evofosfamide overnight with or without the presence of topotecan (20nM). DCFDA assay was performed as described above. The results are expressed as the percentage of DCF fluorescence intensity with respect to controls cells under normoxia. Data are means {plus minus} SEM of three independent experiments. *P<0.01 (t test).
Supplementary Table S1 from Functional Analyses of Mutations in Receptor Tyrosine Kinase Genes in Non–Small Cell Lung Cancer: Double-Edged Sword of DDR2
Authors: Terashima Masato , Togashi Yosuke , Sato Katsuaki , Mizuuchi Hiroshi , Sakai Kazuko , Suda Kenichi , Nakamura Yu , Banno Eri , Hayashi Hidetoshi , De Velasco Marco A. , Fujita Yoshihiko , Tomida Shuta , Mitsudomi Tetsuya , Nishio Kazuto
Published: April 2023

List of target genes included in Ion AmpliSeq Colon and Lung Cancer Research Panel
Supplementary Figure 2 from Characterization of PD-L1 Expression and Associated T-cell Infiltrates in Metastatic Melanoma Samples from Variable Anatomic Sites
Authors: Kluger Harriet M. , Zito Christopher R. , Barr Meaghan L. , Baine Marina K. , Chiang Veronica L.S. , Sznol Mario , Rimm David L. , Chen Lieping , Jilaveanu Lucia B.
Published: April 2023

Supplementary Figure 2. Association between PD-L1 expression and TIL density. Two-sample t test of continuous PD-L1 intensity scores showed that high PD-L1 expression was associated with high TIL densities (dichotomized by the median density) for all T cells and the CD4 and CD8 subsets.
Supplementary Figure S4 from Functional Analyses of Mutations in Receptor Tyrosine Kinase Genes in Non–Small Cell Lung Cancer: Double-Edged Sword of DDR2
Authors: Terashima Masato , Togashi Yosuke , Sato Katsuaki , Mizuuchi Hiroshi , Sakai Kazuko , Suda Kenichi , Nakamura Yu , Banno Eri , Hayashi Hidetoshi , De Velasco Marco A. , Fujita Yoshihiko , Tomida Shuta , Mitsudomi Tetsuya , Nishio Kazuto
Published: April 2023

Expressions of other relevant downstream targets of p38 (HBP1, p27, and p16) in the transfectant A549 cell lines. Six or 24 hours after collagen I stimulation, no changes in the expressions were observed in any of the cell lines. β-actin was used as an internal control.
Supplementary Materials and Methods from A Hypoxia-Induced Vascular Endothelial-to-Mesenchymal Transition in Development of Radiation-Induced Pulmonary Fibrosis
Authors: Choi Seo-Hyun , Hong Zhen-Yu , Nam Jae-Kyung , Lee Hae-June , Jang Junho , Yoo Ran Ji , Lee Yong Jin , Lee Chang Young , Kim Kyung Hwan , Park Seungwoo , Ji Young Hoon , Lee Yun-Sil , Cho Jaeho , Lee Yoon-Jin
Published: April 2023

Supplementary Materials and Methods
Supplementary Figure S1 from Functional Analyses of Mutations in Receptor Tyrosine Kinase Genes in Non–Small Cell Lung Cancer: Double-Edged Sword of DDR2
Authors: Terashima Masato , Togashi Yosuke , Sato Katsuaki , Mizuuchi Hiroshi , Sakai Kazuko , Suda Kenichi , Nakamura Yu , Banno Eri , Hayashi Hidetoshi , De Velasco Marco A. , Fujita Yoshihiko , Tomida Shuta , Mitsudomi Tetsuya , Nishio Kazuto
Published: April 2023

(A) Phosphorylation of each receptor in the transfectant HEK293 cell lines. In both mutation-overexpressed cell lines (ERBB4 D245G and FGFR1 A263V), the phosphorylation level of each receptor was not elevated, compared with the phosphorylation level of the respective receptor in the respective WT-overexpressed cell line. (B) Transformational ability in the transfectant NIH3T3 cell lines. None of the cell lines exhibited transformational abilities. The KRAS-overexpressed NIH3T3 cell line was used as a positive control. Scale bars, 100 μm.
Supplementary Materials from Lung Squamous Cell Carcinomas with Basaloid Histology Represent a Specific Molecular Entity
Authors: Brambilla Christian , Laffaire Julien , Lantuejoul Sylvie , Moro-Sibilot Denis , Mignotte Hélène , Arbib François , Toffart Anne-Claire , Petel Fabien , Hainaut Pierre , Rousseaux Sophie , Khochbin Saadi , de Reyniès Aurélien , Brambilla Elisabeth
Published: April 2023

Supplementary Table Legend, Supplementary References, Supplementary Information
supplementary methods and figure legends from PHLPP2 Downregulation Contributes to Lung Carcinogenesis Following B[a]P/B[a]PDE Exposure
Authors: Huang Haishan , Pan Xiaofu , Jin Honglei , Li Yang , Zhang Lin , Yang Caili , Liu Pei , Liu Ya , Chen Lili , Li Jingxia , Zhu Junlan , Zeng Xingruo , Fu Kai , Chen Guorong , Gao Jimin , Huang Chuanshu
Published: April 2023

supplementary methods and figure legends
Supplementary data from Strategically Timing Inhibition of Phosphatidylinositol 3-Kinase to Maximize Therapeutic Index in Estrogen Receptor Alpha–Positive, PIK3CA-Mutant Breast Cancer
Authors: Yang Wei , Hosford Sarah R. , Dillon Lloye M. , Shee Kevin , Liu Stephanie C. , Bean Jennifer R. , Salphati Laurent , Pang Jodie , Zhang Xiaolin , Nannini Michelle A. , Demidenko Eugene , Bates Darcy , Lewis Lionel D. , Marotti Jonathan D. , Eastman Alan R. , Miller Todd W.
Published: April 2023

Supplementary Methods; Table. S1- Pairwise comparisons of tumor growth patterns between treatment groups; Fig. S1- PI3K inhibition induces ER activation; Fig. S2- Transient, complete inhibition of PI3K more effectively suppresses cell growth than chronic, partial inhibition; Fig. S3- Short-term and long-term inhibition of PI3K and ER induce similar degrees of apoptosis in ER+ breast cancer cells; Fig. S4- Fulv inhibits ER in MCF-7 tumors; Fig. S5- Tumor GDC-0941 concentrations are inversely correlated with PI3K pathway activation; Fig. S6- Pharmacodynamic effects of GDC-0941 and fulv on MCF-7 tumors; Fig. S7- High-dose GDC-0941 in combination with fulv induces tumor cell apoptosis; Fig. S8- High-dose GDC-0941 in combination with fulv suppresses tumor cell proliferation as indicated by geminin IHC; Fig. S9- High-dose GDC-0941 in combination with fulv suppresses tumor cell proliferation as indicated by Ki67 IHC; Fig. S10- Individual MCF-7 tumor volumes; Fig. S11- Individual T47D/FR tumor volumes; Fig. S12- GDC-0941 inhibits PI3K in T47D/FR and HCI-003 tumors; Fig. S13- Individual HCI-003 tumor volumes; Fig. S14- Intermittent, longer-term inhibition of PI3K and ER induces a bolus of suppression of tumor cell proliferation indicated by Geminin and Ki67 staining, with proliferative rebound after recovery of PI3K activity; Fig. S15- Comparison of BCL-2 family members among HCI-003, MCF-7 and T47D FR tumors
Figure S2 from Identification of Recurrent FGFR3–TACC3 Fusion Oncogenes from Lung Adenocarcinoma
Authors: Capelletti Marzia , Dodge Michael E. , Ercan Dalia , Hammerman Peter S. , Park Seung-Il , Kim Jhingook , Sasaki Hidefumi , Jablons David M. , Lipson Doron , Young Lauren , Stephens Phil J. , Miller Vincent A. , Lindeman Neal I. , Munir Kiara J. , Richards William G. , Jänne Pasi A.
Published: April 2023

Figure S2. Haematoxylin and eosin staining of two patient samples with adenocarcinoma histology: A. CG-42. B. J2-109.
Supplemental Tables 1-5 from Recurrent Mutations of Chromatin-Remodeling Genes and Kinase Receptors in Pheochromocytomas and Paragangliomas
Authors: Toledo Rodrigo A. , Qin Yuejuan , Cheng Zi-Ming , Gao Qing , Iwata Shintaro , Silva Gustavo M. , Prasad Manju L. , Ocal I. Tolgay , Rao Sarika , Aronin Neil , Barontini Marta , Bruder Jan , Reddick Robert L. , Chen Yidong , Aguiar Ricardo C.T. , Dahia Patricia L.M.
Published: April 2023

Table S1: Features of the 41 samples of the next-generation sequencing (NGS) cohort; Table S2: Mutations identified in known pheochromocytoma/paraganglioma-related genes in the NGS cohort; Table S3: Features of the validation cohort of 136 pheochromocytoma/paraganglioma samples; Table S4: Pathway analysis of G34â€�mutant vs. wt pheochromocytomas and paragangliomas from microarray expression ; Table S5: Main clinical features and MET gene variants found in a validation cohort of 136 pheochromocytomas and paragangliomas
Supplementary Figures S1-S7 from Two Novel ALK Mutations Mediate Acquired Resistance to the Next-Generation ALK Inhibitor Alectinib
Authors: Katayama Ryohei , Friboulet Luc , Koike Sumie , Lockerman Elizabeth L. , Khan Tahsin M. , Gainor Justin F. , Iafrate A. John , Takeuchi Kengo , Taiji Makoto , Okuno Yasushi , Fujita Naoya , Engelman Jeffrey A. , Shaw Alice T.
Published: April 2023

Supplementary Figures S1-S7. Figure S1 contains the cell survival data of H3122 cells to multiple ALK-TKIs. Figure S2 contains the comparison of experimental IC50 values and calculated free energy values corresponding to Fig 3C. Figure S3 contains the IC50 values of Ba/F3 cells following treatment with various ALK-TKIs corresponding to Fig3A and 4A. Figure S4 contains the cell survival data of Ba/F3 cells to ASP3026 and AP26113. Figure S5 contains the immunoblot data of Ba/F3 cells treated with various ALK-TKIs. Figure S6 contains the apoptosis assay of alectinib resistant H3122 CHR-A1 cells following treatment with various ALK-TKIs. Figure S7 contains the cell survival data and immunoblot data of Hsp90 inhibitor treated cells.
Sup Figure 3 from Interrogating Two Schedules of the AKT Inhibitor MK-2206 in Patients with Advanced Solid Tumors Incorporating Novel Pharmacodynamic and Functional Imaging Biomarkers
Authors: Yap Timothy A. , Yan Li , Patnaik Amita , Tunariu Nina , Biondo Andrea , Fearen Ivy , Papadopoulos Kyriakos P. , Olmos David , Baird Richard , Delgado Liliana , Tetteh Ernestina , Beckman Robert A. , Lupinacci Lisa , Riisnaes Ruth , Decordova Shaun , Heaton Simon P. , Swales Karen , deSouza Nandita M. , Leach Martin O. , Garrett Michelle D. , Sullivan Daniel M. , de Bono Johann S. , Tolcher Anthony W.
Published: April 2023

Sup Figure 3. A 59-year-old male with metastatic colorectal cancer treated with 60mg QOD of MK-2206.
Supplementary Figure 1 from Development and Validation of a Gene Profile Predicting Benefit of Postmastectomy Radiotherapy in Patients with High-Risk Breast Cancer: A Study of Gene Expression in the DBCG82bc Cohort
Authors: Tramm Trine , Mohammed Hayat , Myhre Simen , Kyndi Marianne , Alsner Jan , Børresen-Dale Anne-Lise , Sørlie Therese , Frigessi Arnoldo , Overgaard Jens
Published: April 2023

Flowchart of patients included in the training set.
Supplemental Table 2 from DNA Methylation Profiling in Pheochromocytoma and Paraganglioma Reveals Diagnostic and Prognostic Markers
Authors: de Cubas Aguirre A. , Korpershoek Esther , Inglada-Pérez Lucia , Letouzé Eric , Currás-Freixes Maria , Fernández Agustin F. , Comino-Méndez Iñaki , Schiavi Francesca , Mancikova Veronika , Eisenhofer Graeme , Mannelli Massimo , Opocher Guiseppe , Timmers Henri , Beuschlein Felix , de Krijger Ronald , Cascon Alberto , Rodríguez-Antona Cristina , Fraga Mario F. , Favier Judith , Gimenez-Roqueplo Anne-Paule , Robledo Mercedes
Published: April 2023

Supplemental Table 2. Bisulfite pyrosequencing primer sequences.
Supplemental Table 2 from Human Anaplastic Thyroid Carcinoma Cells Are Sensitive to NK Cell–Mediated Lysis via ULBP2/5/6 and Chemoattract NK Cells
Authors: Wennerberg Erik , Pfefferle Aline , Ekblad Lars , Yoshimoto Yuya , Kremer Veronika , Kaminskyy Vitaliy O , Juhlin C Christofer , Höög Anders , Bodin Inger , Svjatoha Vitalijs , Larsson Catharina , Zedenius Jan , Wennerberg Johan , Lundqvist Andreas
Published: April 2023

Supplemental Table 2. (A) Single tandem repeat (STR) analysis of the LUTC-1, LUTC-2, LUTC-8, LUTC-10, LUTC-12, LUTC-14 and K562 cell line. STR analysis of the LUTC cell lines was performed on January 31 2013 and the K562 cell line was authenticated by STR analysis on November 28 2013.
Supplementary Table 1 from Broad, Hybrid Capture–Based Next-Generation Sequencing Identifies Actionable Genomic Alterations in Lung Adenocarcinomas Otherwise Negative for Such Alterations by Other Genomic Testing Approaches
Authors: Drilon Alexander , Wang Lu , Arcila Maria E. , Balasubramanian Sohail , Greenbowe Joel R. , Ross Jeffrey S. , Stephens Phil , Lipson Doron , Miller Vincent A. , Kris Mark G. , Ladanyi Marc , Rizvi Naiyer A.
Published: April 2023

Supplementary Table 1. Mutation hotspots interrogated by Sequenom.
Supplementary Figure 2 from IL15 Trispecific Killer Engagers (TriKE) Make Natural Killer Cells Specific to CD33+ Targets While Also Inducing Persistence, In Vivo Expansion, and Enhanced Function
Authors: Vallera Daniel A. , Felices Martin , McElmurry Ron , McCullar Valarie , Zhou Xianzheng , Schmohl Joerg Uwe , Zhang Bin , Lenvik Alexander J. , Panoskaltsis-Mortari Angela , Verneris Michael R. , Tolar Jakub , Cooley Sarah , Weisdorf Daniel J. , Blazar Bruce R. , Miller Jeffrey S.
Published: April 2023

Supplementary Figure 2. Studies of effector cells from normal donors indicate that NK cells proliferate moreso than T cells in response to TriKE, but T cells can expand.
Supplementary Table 1 from Combined Androgen and Estrogen Receptor Status in Breast Cancer: Treatment Prediction and Prognosis in a Population-Based Prospective Cohort
Authors: Elebro Karin , Borgquist Signe , Simonsson Maria , Markkula Andrea , Jirström Karin , Ingvar Christian , Rose Carsten , Jernström Helena
Published: April 2023

Patient characteristics by AR status for ages <50 years and 50 years and older.
Supplementary Figures 1-4 from Divergence of Antiangiogenic Activity and Hepatotoxicity of Different Stereoisomers of Itraconazole
Authors: Shim Joong Sup , Li Ruo-Jing , Bumpus Namandje N. , Head Sarah A. , Kumar Pasunooti Kalyan , Yang Eun Ju , Lv Junfang , Shi Wei , Liu Jun O.
Published: April 2023

Supplementary Fig S1. Effect of itraconazole and its stereoisomers on HUVEC tube formation; Supplementary Fig S2. Effect of itraconazole and its stereoisomers on pre-formed HUVEC tube Formation; Supplementary Fig S3. Effect of itraconazole and the 2S4R series of stereoisomers on in vivo Matrigel angiogenesis in mice; Supplementary Fig S4. Effect of itraconazole and IT-C on mouse body weight change.
Supplementary Figures 1-6 and Supplementary Table 1 from Long-Lasting Complete Responses in Patients with Metastatic Melanoma after Adoptive Cell Therapy with Tumor-Infiltrating Lymphocytes and an Attenuated IL2 Regimen
Authors: Andersen Rikke , Donia Marco , Ellebaek Eva , Borch Troels Holz , Kongsted Per , Iversen Trine Zeeberg , Hölmich Lisbet Rosenkrantz , Hendel Helle Westergren , Met Özcan , Andersen Mads Hald , thor Straten Per , Svane Inge Marie
Published: April 2023

Supplementary Figure S1. Treatment and monitoring schedule; Supplementary Figure S2. Enrolled patients and number of dropouts; Supplementary Figure S3 The figure shows FDG-PET/CT scans of two responding patients; Supplementary Figure S4. Kaplan-Meier curves of (A) overall survival and (B) progression free survival in all 25 treated patients; Supplementary Figure S5. Kaplan-Meier curves of overall survival in all 25 treated patients including separate survival curves for patients with best reduction in target lesion size from baseline >20% (n=14) in green and patients with no significant tumor regression (n=10) in red; Supplementary Figure S6. Antitumor responses of infusion products and peripheral blood; Supplementary Table S1. Objective response to prior immunotherapies.
Supplementary Figure 2 from Effective Clinical Responses in Metastatic Melanoma Patients after Vaccination with Primary Myeloid Dendritic Cells
Authors: Schreibelt Gerty , Bol Kalijn F. , Westdorp Harm , Wimmers Florian , Aarntzen Erik H.J.G. , Duiveman-de Boer Tjitske , van de Rakt Mandy W.M.M. , Scharenborg Nicole M. , de Boer Annemiek J. , Pots Jeanette M. , Olde Nordkamp Michel A.M. , van Oorschot Tom G.M. , Tel Jurjen , Winkels Gregor , Petry Katja , Blokx Willeke A.M. , van Rossum Michelle M. , Welzen Marieke E.B. , Mus Roel D.M. , Croockewit Sandra A.J. , Koornstra Rutger H.T. , Jacobs Joannes F.M. , Kelderman Sander , Blank Christian U. , Gerritsen Winald R. , Punt Cornelis J.A. , Figdor Carl G. , de Vries I. Jolanda M.
Published: April 2023

Supplementary Figure 2. Flow chart.
Supplementary Fig. S5 from Genetic Evolution of T-cell Resistance in the Course of Melanoma Progression
Authors: Sucker Antje , Zhao Fang , Real Birgit , Heeke Christina , Bielefeld Nicola , Maβen Stefan , Horn Susanne , Moll Iris , Maltaner Raffaela , Horn Peter A. , Schilling Bastian , Sabbatino Francesco , Lennerz Volker , Kloor Matthias , Ferrone Soldano , Schadendorf Dirk , Falk Christine S. , Griewank Klaus , Paschen Annette
Published: April 2023

Supplementary Fig. S5. A, The different Ma-Mel-48 cell lines were treated with IFN-γ(500 U/ml) for 48 h, controls were left untreated. Cell lysates were analyzed by Western blot for the protein levels of JAK1, STAT1 and pSTAT1. GAPDH served as loading control. One representative of three independent experiments is depicted. B, mRNA levels of the indicated APM components in Ma-Mel-48a cells, melanocytes from a normal donor and autologous CD8-depleted PBMC were quantified by qRT-PCR and normalized to endogenous beta-actin mRNA. Expression levels, given as means (+ SEM) of three independent experiments, are depicted relative to the expression in Ma-Mel-48a cells.
Supplementary Figure S2 from Adoptive Transfer of MAGE-A4 T-cell Receptor Gene-Transduced Lymphocytes in Patients with Recurrent Esophageal Cancer
Authors: Kageyama Shinichi , Ikeda Hiroaki , Miyahara Yoshihiro , Imai Naoko , Ishihara Mikiya , Saito Kanako , Sugino Sahoko , Ueda Shugo , Ishikawa Takeshi , Kokura Satoshi , Naota Hiroaki , Ohishi Kohshi , Shiraishi Taizo , Inoue Naoki , Tanabe Masashige , Kidokoro Tomohide , Yoshioka Hirofumi , Tomura Daisuke , Nukaya Ikuei , Mineno Junichi , Takesako Kazutoh , Katayama Naoyuki , Shiku Hiroshi
Published: April 2023

ELISPOT assay to test whether MAGE-A4-targeting TCR cross-reacts with other peptides with sequences similar to that of the MAGE-A4 peptide.
Supplementary Figure Legend from Adoptive Transfer of MAGE-A4 T-cell Receptor Gene-Transduced Lymphocytes in Patients with Recurrent Esophageal Cancer
Authors: Kageyama Shinichi , Ikeda Hiroaki , Miyahara Yoshihiro , Imai Naoko , Ishihara Mikiya , Saito Kanako , Sugino Sahoko , Ueda Shugo , Ishikawa Takeshi , Kokura Satoshi , Naota Hiroaki , Ohishi Kohshi , Shiraishi Taizo , Inoue Naoki , Tanabe Masashige , Kidokoro Tomohide , Yoshioka Hirofumi , Tomura Daisuke , Nukaya Ikuei , Mineno Junichi , Takesako Kazutoh , Katayama Naoyuki , Shiku Hiroshi
Published: April 2023

Adoptive transfer of MAGE-A4 T-cell receptor geneâˆ’transduced lymphocytes in patients with recurrent esophageal cancer.
Supplementary Table 6 from IL2 Inducible T-cell Kinase, a Novel Therapeutic Target in Melanoma
Authors: Carson Craig C. , Moschos Stergios J. , Edmiston Sharon N. , Darr David B. , Nikolaishvili-Feinberg Nana , Groben Pamela A. , Zhou Xin , Kuan Pei Fen , Pandey Shaily , Chan Keefe T. , Jordan Jamie L. , Hao Honglin , Frank Jill S. , Hopkinson Dennis A. , Gibbs David C. , Alldredge Virginia D. , Parrish Eloise , Hanna Sara C. , Berkowitz Paula , Rubenstein David S. , Miller C. Ryan , Bear James E. , Ollila David W. , Sharpless Norman E. , Conway Kathleen , Thomas Nancy E.
Published: April 2023

Supplementary Table 6. Significant pathways identified by Ingenuity Pathway Analysis for Reverse Phase Protein Array (RPPA) results of RPMI 8322
Supplemental Table 2 from Integrative Protein-Based Prognostic Model for Early-Stage Endometrioid Endometrial Cancer
Authors: Yang Ji-Yeon , Werner Henrica M.J. , Li Jie , Westin Shannon N. , Lu Yiling , Halle Mari K. , Trovik Jone , Salvesen Helga B. , Mills Gordon B. , Liang Han
Published: April 2023

Supplemental Table 2. Antibodies used for the RPPA platform in our study
Supplementary Table S4 from Vaccination with LAG-3Ig (IMP321) and Peptides Induces Specific CD4 and CD8 T-Cell Responses in Metastatic Melanoma Patients—Report of a Phase I/IIa Clinical Trial
Authors: Legat Amandine , Maby-El Hajjami Hélène , Baumgaertner Petra , Cagnon Laurène , Abed Maillard Samia , Geldhof Christine , Iancu Emanuela M. , Lebon Luc , Guillaume Philippe , Dojcinovic Danijel , Michielin Olivier , Romano Emanuela , Berthod Grégoire , Rimoldi Donata , Triebel Frédéric , Luescher Immanuel , Rufer Nathalie , Speiser Daniel E.
Published: April 2023

Direct ex vivo analysis of circulating Melan-A-specific CD8 T-cell frequencies
Supplementary Fig. S2 from Vaccination with LAG-3Ig (IMP321) and Peptides Induces Specific CD4 and CD8 T-Cell Responses in Metastatic Melanoma Patients—Report of a Phase I/IIa Clinical Trial
Authors: Legat Amandine , Maby-El Hajjami Hélène , Baumgaertner Petra , Cagnon Laurène , Abed Maillard Samia , Geldhof Christine , Iancu Emanuela M. , Lebon Luc , Guillaume Philippe , Dojcinovic Danijel , Michielin Olivier , Romano Emanuela , Berthod Grégoire , Rimoldi Donata , Triebel Frédéric , Luescher Immanuel , Rufer Nathalie , Speiser Daniel E.
Published: April 2023

Specific CD8 T-cell frequencies before and after each cycle of vaccination
Supplementary Figure 2 from DNA Methylation Status of Key Cell-Cycle Regulators Such as CDKNA2/p16 and CCNA1 Correlates with Treatment Response to Doxorubicin and 5-Fluorouracil in Locally Advanced Breast Tumors
Authors: Klajic Jovana , Busato Florence , Edvardsen Hege , Touleimat Nizar , Fleischer Thomas , Bukholm Ida , Børresen-Dale Anne-Lise , Lønning Per Eystein , Tost Jörg , Kristensen Vessela N.
Published: April 2023

Supplementary Figure 2. Canonical pathway:Gαi Signalling
study design from The Predictive and Prognostic Value of Early Metabolic Response Assessed by Positron Emission Tomography in Advanced Gastric Cancer Treated with Chemotherapy
Authors: Wang Chenchen , Guo Weijian , Zhou Min , Zhu Xiaodong , Ji Dongmei , Li Wenhua , Liu Xin , Tao Zhonghua , Zhang Xiaowei , Zhang Yingjian , Li Jin
Published: April 2023

Supplementary data Fig.1 Study design Supplementary data Fig.2 Flow chart of patient receiving FDG-PET and FLT-PET
Supplementary Figure 1 from DNA Methylation Status of Key Cell-Cycle Regulators Such as CDKNA2/p16 and CCNA1 Correlates with Treatment Response to Doxorubicin and 5-Fluorouracil in Locally Advanced Breast Tumors
Authors: Klajic Jovana , Busato Florence , Edvardsen Hege , Touleimat Nizar , Fleischer Thomas , Bukholm Ida , Børresen-Dale Anne-Lise , Lønning Per Eystein , Tost Jörg , Kristensen Vessela N.
Published: April 2023

Supplementary Figure 1. Canonical pathway:Communication between Innate and Adaptive Immune Cells
Supplementary Figure 2 from Loss of SMAD4 Promotes Colorectal Cancer Progression by Accumulation of Myeloid-Derived Suppressor Cells through the CCL15–CCR1 Chemokine Axis
Authors: Inamoto Susumu , Itatani Yoshiro , Yamamoto Takamasa , Minamiguchi Sachiko , Hirai Hideyo , Iwamoto Masayoshi , Hasegawa Suguru , Taketo Makoto Mark , Sakai Yoshiharu , Kawada Kenji
Published: April 2023

Kaplan-Meier curves of overall survival (OS) and relapse-free survival (RFS) in CRC patients.
Supplemental Tables 1-4 from Tyrosine Kinase Inhibition in Leukemia Induces an Altered Metabolic State Sensitive to Mitochondrial Perturbations
Authors: Alvarez-Calderon Francesca , Gregory Mark A. , Pham-Danis Catherine , DeRyckere Deborah , Stevens Brett M. , Zaberezhnyy Vadym , Hill Amanda A. , Gemta Lelisa , Kumar Amit , Kumar Vijay , Wempe Michael F. , Pollyea Daniel A. , Jordan Craig T. , Serkova Natalie J. , Graham Douglas K. , DeGregori James
Published: April 2023

Supplemental Tables 1-4. Table 1: pLKO shRNA clone information and antibody information. Table 2: Combination Indices to assess for synergism. Table 3: Quantitative 1H-, 31P- and 13C-NMR analysis of K562 CML cells treated with vehicle imatinib, oligomycin-A or the combination imatinib + oligomycin-A. Table 4: Complete blood counts and metabolic profiles after in vivo treatment with Oligomycin-A
Supplementary data from Adrenergic Stimulation of DUSP1 Impairs Chemotherapy Response in Ovarian Cancer
Authors: Kang Yu , Nagaraja Archana S. , Armaiz-Pena Guillermo N. , Dorniak Piotr L. , Hu Wei , Rupaimoole Rajesha , Liu Tao , Gharpure Kshipra M. , Previs Rebecca A. , Hansen Jean M. , Rodriguez-Aguayo Cristian , Ivan Cristina , Ram Prahlad , Sehgal Vasudha , Lopez-Berestein Gabriel , Lutgendorf Susan K. , Cole Steven W. , Sood Anil K.
Published: April 2023

Supplementary Figure 1 Functional genomic analysis of HeyA8 and SKOV3ip ovarian cancer cells 4 h after exposure to norepinephrine and compared to control cells. Supplementary Figure 2 A, Western blot analysis of ADRB1, ADRB2, ADRB3, and DUSP1 expression in 10 epithelial ovarian cancer cell lines and one breast cancer cell line (MDA-231), using non-transformed ovarian epithelium cells (HIO-180) as control. B, DUSP1 mRNA levels of cells exposed to norepinephrine 10 μM for 4 h. Supplementary Figure 3 A, DUSP1 silencing. Two commercially available siRNAs that directly target the DUSP1 gene were transfected to norepinephrine-treated HeyA8 cells. B, DUSP1 overexpression. SKOV3ip1 cells were transiently transfected with a DUSP1-myc/DDK-tagged expression vector (Origene). Supplementary Figure 4 SKOV3ip1 cells were treated with paclitaxel alone (10nM) or in combination with norepinephrine (NE; 10μM) or vascular endothelial growth factor (VEGF; 10ng/ml or 50ng/ml). NE or VEGF was administered 30 minutes prior to paclitaxel exposure.
Supplemental Table S5 from Mutational Landscape of Aggressive Cutaneous Squamous Cell Carcinoma
Authors: Pickering Curtis R. , Zhou Jane H. , Lee J. Jack , Drummond Jennifer A. , Peng S. Andrew , Saade Rami E. , Tsai Kenneth Y. , Curry Jonathan L. , Tetzlaff Michael T. , Lai Stephen Y. , Yu Jun , Muzny Donna M. , Doddapaneni Harshavardhan , Shinbrot Eve , Covington Kyle R. , Zhang Jianhua , Seth Sahil , Caulin Carlos , Clayman Gary L. , El-Naggar Adel K. , Gibbs Richard A. , Weber Randal S. , Myers Jeffrey N. , Wheeler David A. , Frederick Mitchell J.
Published: April 2023

Supplemental Table S5: mutation annotation file.
Supplementary Table S5 from Integrating RAS Status into Prognostic Signatures for Adenocarcinomas of the Lung
Authors: Starmans Maud HW. , Pintilie Melania , Chan-Seng-Yue Michelle , Moon Nathalie C. , Haider Syed , Nguyen Francis , Lau Suzanne K. , Liu Ni , Kasprzyk Arek , Wouters Bradly G. , Der Sandy D. , Shepherd Frances A. , Jurisica Igor , Penn Linda Z. , Tsao Ming-Sound , Lambin Philippe , Boutros Paul C.
Published: April 2023

Supplementary Table S5. Complete list of Entrez GeneIDs and Gene Symbols for all signatures.
Supplemental Figure A from Quantification of Nonenhancing Tumor Burden in Gliomas Using Effective T2 Maps Derived from Dual-Echo Turbo Spin-Echo MRI
Authors: Ellingson Benjamin M. , Lai Albert , Nguyen Huytram N. , Nghiemphu Phioanh L. , Pope Whitney B. , Cloughesy Timothy F.
Published: April 2023

Supplemental Figure A: Automatic segmentation of T2-defined non-enhancing tumor (NET).
Supplementary Figure S1 from A miRNA-Based Signature Detected in Primary Melanoma Tissue Predicts Development of Brain Metastasis
Authors: Hanniford Doug , Zhong Judy , Koetz Lisa , Gaziel-Sovran Avital , Lackaye Daniel J. , Shang Shulian , Pavlick Anna , Shapiro Richard , Berman Russell , Darvishian Farbod , Shao Yongzhao , Osman Iman , Hernando Eva
Published: April 2023

Supplementary Figure S1. This figure depicts in waterfall plots the individual patient risk scores derived from the miRNA signature + stage prognostic model.
Supplementary tables S1-3 and figure legends from Model Matters: Differences in Orthotopic Rat Hepatocellular Carcinoma Physiology Determine Therapy Response to Sorafenib
Authors: Groß Claudia , Steiger Katja , Sayyed Sufyan , Heid Irina , Feuchtinger Annette , Walch Axel , Heß Julia , Unger Kristian , Zitzelsberger Horst , Settles Marcus , Schlitter Anna Melissa , Dworniczak Juliane , Altomonte Jennifer , Ebert Oliver , Schwaiger Markus , Rummeny Ernst , Steingötter Andreas , Esposito Irene , Braren Rickmer
Published: April 2023

Supplementary tables S1-3 and figure legends. Supplementary Table S1. Antibodies and antibody dilution used for immunohistochemical analyses. Supplementary Table S2. Characterization of human HCC Supplementary Table S3. Number of tumors per analyzed animal of DEN and McA model.
Supplementary Fig. S3 from Model Matters: Differences in Orthotopic Rat Hepatocellular Carcinoma Physiology Determine Therapy Response to Sorafenib
Authors: Groß Claudia , Steiger Katja , Sayyed Sufyan , Heid Irina , Feuchtinger Annette , Walch Axel , Heß Julia , Unger Kristian , Zitzelsberger Horst , Settles Marcus , Schlitter Anna Melissa , Dworniczak Juliane , Altomonte Jennifer , Ebert Oliver , Schwaiger Markus , Rummeny Ernst , Steingötter Andreas , Esposito Irene , Braren Rickmer
Published: April 2023

Supplementary Fig. S3. aCGH analyses.
Clinical Trial Eligibility Data from Vaccination with Irradiated Autologous Tumor Cells Mixed with Irradiated GM-K562 Cells Stimulates Antitumor Immunity and T Lymphocyte Activation in Patients with Recurrent Malignant Glioma
Authors: Curry William T. , Gorrepati Ramana , Piesche Matthias , Sasada Tetsuro , Agarwalla Pankaj , Jones Pamela S. , Gerstner Elizabeth R. , Golby Alexandra J. , Batchelor Tracy T. , Wen Patrick Y. , Mihm Martin C. , Dranoff Glenn
Published: April 2023

Complete inclusion and exclusion criteria are listed.
Supplementary Fig. S1 from Model Matters: Differences in Orthotopic Rat Hepatocellular Carcinoma Physiology Determine Therapy Response to Sorafenib
Authors: Groß Claudia , Steiger Katja , Sayyed Sufyan , Heid Irina , Feuchtinger Annette , Walch Axel , Heß Julia , Unger Kristian , Zitzelsberger Horst , Settles Marcus , Schlitter Anna Melissa , Dworniczak Juliane , Altomonte Jennifer , Ebert Oliver , Schwaiger Markus , Rummeny Ernst , Steingötter Andreas , Esposito Irene , Braren Rickmer
Published: April 2023

Supplementary Fig. S1. Schematic of study design.