bluuebunny/crossref_metadata_2025 huggingface dataset:
Figure S2 from Identification of Tissue-Specific DNA Methylation Signatures for Thyroid Nodule Diagnostics
Authors: Yim John H. , Choi Audrey H. , Li Arthur X. , Qin Hanjun , Chang Sue , Tong Sun-Wing T. , Chu Peiguo , Kim Byung-Wook , Schmolze Daniel , Lew Ryan , Ibrahim Yasmine , Poroyko Valeriy A. , Salvatierra Sylvana , Baker Alysha , Wang Jinhui , Wu Xiwei , Pfeifer Gerd P. , Fong Yuman , Hahn Maria A.
Published: April 2023

DDMS locations are frequently co-localized with active enhancers. A. Representative snap-shot of H3K27Ac pattern in two analyzed adjacent thyroid tissues (7N and 10N). The snap-shot indicates the normalized number of reads. Transcriptional start sites and transcript directions are shown. B. Representative snap-shot of co-localization DDMS site with H3K27Ac enrichment at the NFIC gene body in two analyzed adjacent thyroid tissues (7N and 10N). The snap-shot indicates the normalized number of reads. The red dotted line indicates the position of the DDMS location. Transcriptional start site and transcript directions are shown. C. Representative snap-shot of co-localization DDMS site with H3K27Ac enrichment at the EPHA2 gene body in two analyzed adjacent thyroid tissues (7N and 10N). The snap-shot indicates the normalized number of reads. The red dotted line indicates the position of the DDMS location. Transcriptional start site and transcript direction are shown.
Figure S1 from Identification of Tissue-Specific DNA Methylation Signatures for Thyroid Nodule Diagnostics
Authors: Yim John H. , Choi Audrey H. , Li Arthur X. , Qin Hanjun , Chang Sue , Tong Sun-Wing T. , Chu Peiguo , Kim Byung-Wook , Schmolze Daniel , Lew Ryan , Ibrahim Yasmine , Poroyko Valeriy A. , Salvatierra Sylvana , Baker Alysha , Wang Jinhui , Wu Xiwei , Pfeifer Gerd P. , Fong Yuman , Hahn Maria A.
Published: April 2023

Genes associated with DDMS locations are frequently linked to cancer according to Ingenuity® Pathway Analysis (Qiagen Inc.). Number of genes in each group is indicated.
Figure S7 from Identification of Recurrent Activating HER2 Mutations in Primary Canine Pulmonary Adenocarcinoma
Authors: Lorch Gwendolen , Sivaprakasam Karthigayini , Zismann Victoria , Perdigones Nieves , Contente-Cuomo Tania , Nazareno Alexandra , Facista Salvatore , Wong Shukmei , Drenner Kevin , Liang Winnie S. , Amann Joseph M. , Sinicropi-Yao Sara L. , Koenig Michael J. , La Perle Krista , Whitsett Timothy G. , Murtaza Muhammed , Trent Jeffrey M. , Carbone David P. , Hendricks William P.D.
Published: April 2023

Canine primary lung cancer cell line sensitivity to lapatinib. Four canine cell lines (three HER2WT and one HER2V659E) were treated with 14 lapatinib doses ranging from 100 Î¼M to 5.5x10-2 nM for 72 hours with CellTiterGlo viability endpoints were measured and shown as percent survival relative to DMSO vehicle control.
Figure S1 from Identification of Recurrent Activating HER2 Mutations in Primary Canine Pulmonary Adenocarcinoma
Authors: Lorch Gwendolen , Sivaprakasam Karthigayini , Zismann Victoria , Perdigones Nieves , Contente-Cuomo Tania , Nazareno Alexandra , Facista Salvatore , Wong Shukmei , Drenner Kevin , Liang Winnie S. , Amann Joseph M. , Sinicropi-Yao Sara L. , Koenig Michael J. , La Perle Krista , Whitsett Timothy G. , Murtaza Muhammed , Trent Jeffrey M. , Carbone David P. , Hendricks William P.D.
Published: April 2023

Extended clinical annotation of primary canine lung cancer patients. Cohort distribution of: (A) Affected breeds, (B) Age at diagnosis, (C) Primary tumor location distribution, (D) Sex, (E) Adenocarcinoma subtype, and (F) Treatment. Yr=years.
Supplementary Methods, Supplementary Figure I-IV from Ad5NULL-A20: A Tropism-Modified, αvβ6 Integrin-Selective Oncolytic Adenovirus for Epithelial Ovarian Cancer Therapies
Authors: Uusi-Kerttula Hanni , Davies James A. , Thompson Jill M. , Wongthida Phonphimon , Evgin Laura , Shim Kevin G. , Bradshaw Angela , Baker Alexander T. , Rizkallah Pierre J. , Jones Rachel , Hanna Louise , Hudson Emma , Vile Richard G. , Chester John D. , Parker Alan L.
Published: April 2023

Supplemental Figure I. Homology modelling of the Ad5NULL-A20 complex; Supplement II. Biodistribution study: Heat-map images of luminescence intensity ex vivo; Supplement II. Biodistribution study: Immunohistochemistry on formalin-fixed, paraffinembedded liver sections; Supplementary Figure IV. Pilot study: Tumour localisation and take rate in NOD/SCID mice; Supplement II. Biodistribution study: Immunohistochemistry on formalin-fixed, paraffinembedded; liver sections; Supplementary Figure IV. Pilot study: Tumour localisation and take rate in NOD/SCID mice.
Figure S2 from Antibody-based Delivery of TNF to the Tumor Neovasculature Potentiates the Therapeutic Activity of a Peptide Anticancer Vaccine
Authors: Probst Philipp , Stringhini Marco , Ritz Danilo , Fugmann Tim , Neri Dario
Published: April 2023

Toxicity data of the therapy studies
Figure S1 from Antibody-based Delivery of TNF to the Tumor Neovasculature Potentiates the Therapeutic Activity of a Peptide Anticancer Vaccine
Authors: Probst Philipp , Stringhini Marco , Ritz Danilo , Fugmann Tim , Neri Dario
Published: April 2023

Analysis of AH1-specific CD8+ T cells in WEHI-164 tumor-bearing mice
Supplementary Methods and Appendix from Real-Time Tumor Gene Expression Profiling to Direct Gastric Cancer Chemotherapy: Proof-of-Concept “3G” Trial
Authors: Yong Wei Peng , Rha Sun Young , Tan Iain Bee-Huat , Choo Su-Pin , Syn Nicholas L. , Koh Vivien , Tan Shi-Hui , Asuncion Bernadette Reyna , Sundar Raghav , So Jimmy Bok-Yan , Shabbir Asim , Tan Chee-Seng , Kim Hyo-Song , Jung Minkyu , Chung Hyun Cheol , Ng Matthew C.H. , Tai David Wai-Meng , Lee Ming-Hui , Wu Jeanie , Yeoh Khay Guan , Tan Patrick
Published: April 2023

3G study protocol
Figure S1 from D-2-Hydroxyglutarate Is an Intercellular Mediator in IDH-Mutant Gliomas Inhibiting Complement and T Cells
Authors: Zhang Lingjun , Sorensen Mia D. , Kristensen Bjarne W. , Reifenberger Guido , McIntyre Thomas M. , Lin Feng
Published: April 2023

Summary of the discoveries
Supplementary Data from DGKA Provides Platinum Resistance in Ovarian Cancer Through Activation of c-JUN–WEE1 Signaling
Authors: Li Jie , Pan Chaoyun , Boese Austin C. , Kang JiHoon , Umano Anna D. , Magliocca Kelly R. , Yang Wenqing , Zhang Yu , Lonial Sagar , Jin Lingtao , Kang Sumin
Published: April 2023

Supplementary Fig S7
Figure S2B from Patritumab with Cetuximab plus Platinum-Containing Therapy in Recurrent or Metastatic Squamous Cell Carcinoma of the Head and Neck: An Open-Label, Phase Ib Study
Authors: Dillon Magnus T. , Grove Lorna , Newbold Kate L. , Shaw Heather , Brown Nicholas F. , Mendell Jeanne , Chen Shuquan , Beckman Robert A. , Jennings Anne , Ricamara Marivic , Greenberg Jonathan , Forster Martin , Harrington Kevin J.
Published: April 2023

Figure S2B
Supplementary Figure S7 from A CpG Methylation Classifier to Predict Relapse in Adults with T-Cell Lymphoblastic Lymphoma
Authors: Tian Xiao-Peng , Su Ning , Wang Liang , Huang Wei-Juan , Liu Yan-Hui , Zhang Xi , Huang Hui-Qiang , Lin Tong-Yu , Ma Shu-Yun , Rao Hui-Lan , Li Mei , Liu Fang , Zhang Fen , Zhong Li-Ye , Liang Li , Lan Xiao-Liang , Li Juan , Liao Bing , Li Zhi-Hua , Tang Qiong-Lan , Liang Qiong , Shao Chun-Kui , Zhai Qiong-Li , Cheng Run-Fen , Sun Qi , Ru Kun , Gu Xia , Lin Xi-Na , Yi Kun , Shuang Yue-Rong , Chen Xiao-Dong , Dong Wei , Sun Cai , Sang Wei , Liu Hui , Zhu Zhi-Gang , Rao Jun , Guo Qiao-Nan , Zhou Ying , Meng Xiang-Ling , Zhu Yong , Hu Chang-Lu , Jiang Yi-Rong , Zhang Ying , Gao Hong-Yi , He Wen-Jun , Xia Zhong-Jun , Pan Xue-Yi , Hai Lan , Li Guo-Wei , Song Li-Yan , Kang Tie-Bang , Xie Dan , Cai Qing-Qing
Published: April 2023

Supplementary Figure S7
Figure S1 from Patritumab with Cetuximab plus Platinum-Containing Therapy in Recurrent or Metastatic Squamous Cell Carcinoma of the Head and Neck: An Open-Label, Phase Ib Study
Authors: Dillon Magnus T. , Grove Lorna , Newbold Kate L. , Shaw Heather , Brown Nicholas F. , Mendell Jeanne , Chen Shuquan , Beckman Robert A. , Jennings Anne , Ricamara Marivic , Greenberg Jonathan , Forster Martin , Harrington Kevin J.
Published: April 2023

Figure S1
Supplementary Table S1 from Robust Activity of Avapritinib, Potent and Highly Selective Inhibitor of Mutated KIT, in Patient-derived Xenograft Models of Gastrointestinal Stromal Tumors
Authors: Gebreyohannes Yemarshet K. , Wozniak Agnieszka , Zhai Madalina-Elena , Wellens Jasmien , Cornillie Jasmien , Vanleeuw Ulla , Evans Erica , Gardino Alexandra K. , Lengauer Christoph , Debiec-Rychter Maria , Sciot Raf , Schöffski Patrick
Published: April 2023

Grading scheme for pMAPK immunostaining. Staining was graded based on the intensity of the staining and the percent of tumor area showing pMAPK positivity.
Supplementary Figure S3 from Robust Activity of Avapritinib, Potent and Highly Selective Inhibitor of Mutated KIT, in Patient-derived Xenograft Models of Gastrointestinal Stromal Tumors
Authors: Gebreyohannes Yemarshet K. , Wozniak Agnieszka , Zhai Madalina-Elena , Wellens Jasmien , Cornillie Jasmien , Vanleeuw Ulla , Evans Erica , Gardino Alexandra K. , Lengauer Christoph , Debiec-Rychter Maria , Sciot Raf , Schöffski Patrick
Published: April 2023

Representative images of H&E, KIT and DOG1 staining (200x magnification) from vehicle-treated tumors from three xenografts, characterizing models used in the experiment.
Supplementary Figure S21 from A CpG Methylation Classifier to Predict Relapse in Adults with T-Cell Lymphoblastic Lymphoma
Authors: Tian Xiao-Peng , Su Ning , Wang Liang , Huang Wei-Juan , Liu Yan-Hui , Zhang Xi , Huang Hui-Qiang , Lin Tong-Yu , Ma Shu-Yun , Rao Hui-Lan , Li Mei , Liu Fang , Zhang Fen , Zhong Li-Ye , Liang Li , Lan Xiao-Liang , Li Juan , Liao Bing , Li Zhi-Hua , Tang Qiong-Lan , Liang Qiong , Shao Chun-Kui , Zhai Qiong-Li , Cheng Run-Fen , Sun Qi , Ru Kun , Gu Xia , Lin Xi-Na , Yi Kun , Shuang Yue-Rong , Chen Xiao-Dong , Dong Wei , Sun Cai , Sang Wei , Liu Hui , Zhu Zhi-Gang , Rao Jun , Guo Qiao-Nan , Zhou Ying , Meng Xiang-Ling , Zhu Yong , Hu Chang-Lu , Jiang Yi-Rong , Zhang Ying , Gao Hong-Yi , He Wen-Jun , Xia Zhong-Jun , Pan Xue-Yi , Hai Lan , Li Guo-Wei , Song Li-Yan , Kang Tie-Bang , Xie Dan , Cai Qing-Qing
Published: April 2023

Supplementary Figure S21
Supplementary Figure S20 from A CpG Methylation Classifier to Predict Relapse in Adults with T-Cell Lymphoblastic Lymphoma
Authors: Tian Xiao-Peng , Su Ning , Wang Liang , Huang Wei-Juan , Liu Yan-Hui , Zhang Xi , Huang Hui-Qiang , Lin Tong-Yu , Ma Shu-Yun , Rao Hui-Lan , Li Mei , Liu Fang , Zhang Fen , Zhong Li-Ye , Liang Li , Lan Xiao-Liang , Li Juan , Liao Bing , Li Zhi-Hua , Tang Qiong-Lan , Liang Qiong , Shao Chun-Kui , Zhai Qiong-Li , Cheng Run-Fen , Sun Qi , Ru Kun , Gu Xia , Lin Xi-Na , Yi Kun , Shuang Yue-Rong , Chen Xiao-Dong , Dong Wei , Sun Cai , Sang Wei , Liu Hui , Zhu Zhi-Gang , Rao Jun , Guo Qiao-Nan , Zhou Ying , Meng Xiang-Ling , Zhu Yong , Hu Chang-Lu , Jiang Yi-Rong , Zhang Ying , Gao Hong-Yi , He Wen-Jun , Xia Zhong-Jun , Pan Xue-Yi , Hai Lan , Li Guo-Wei , Song Li-Yan , Kang Tie-Bang , Xie Dan , Cai Qing-Qing
Published: April 2023

Supplementary Figure S20
Supplementary Figure S19 from A CpG Methylation Classifier to Predict Relapse in Adults with T-Cell Lymphoblastic Lymphoma
Authors: Tian Xiao-Peng , Su Ning , Wang Liang , Huang Wei-Juan , Liu Yan-Hui , Zhang Xi , Huang Hui-Qiang , Lin Tong-Yu , Ma Shu-Yun , Rao Hui-Lan , Li Mei , Liu Fang , Zhang Fen , Zhong Li-Ye , Liang Li , Lan Xiao-Liang , Li Juan , Liao Bing , Li Zhi-Hua , Tang Qiong-Lan , Liang Qiong , Shao Chun-Kui , Zhai Qiong-Li , Cheng Run-Fen , Sun Qi , Ru Kun , Gu Xia , Lin Xi-Na , Yi Kun , Shuang Yue-Rong , Chen Xiao-Dong , Dong Wei , Sun Cai , Sang Wei , Liu Hui , Zhu Zhi-Gang , Rao Jun , Guo Qiao-Nan , Zhou Ying , Meng Xiang-Ling , Zhu Yong , Hu Chang-Lu , Jiang Yi-Rong , Zhang Ying , Gao Hong-Yi , He Wen-Jun , Xia Zhong-Jun , Pan Xue-Yi , Hai Lan , Li Guo-Wei , Song Li-Yan , Kang Tie-Bang , Xie Dan , Cai Qing-Qing
Published: April 2023

Supplementary Figure S19
Table S3 from 21-Gene Recurrence Score Assay Predicts Benefit of Post-Mastectomy Radiotherapy in T1-2 N1 Breast Cancer
Authors: Goodman Chelain R. , Seagle Brandon-Luke L. , Kocherginsky Masha , Donnelly Eric D. , Shahabi Shohreh , Strauss Jonathan B.
Published: April 2023

Kaplan-Meier estimates and covariate-adjusted unmatched parametric accelerated failure time models for overall survival from the NCDB cohort.
Supplementary Data from A Combined Nomogram Model to Preoperatively Predict Histologic Grade in Pancreatic Neuroendocrine Tumors
Authors: Liang Wenjie , Yang Pengfei , Huang Rui , Xu Lei , Wang Jiawei , Liu Weihai , Zhang Lele , Wan Dalong , Huang Qiang , Lu Yao , Kuang Yu , Niu Tianye
Published: April 2023

Figure S1. The recruitment pathway in this study. Table S1. Clinical characteristics of patients with pNETs in the training and validation set. Figure S2. Schematic of the undecimated three-dimensional wavelet transform applied to each CT image. Table S2. Radiomics features extracted in this study. Figure S3. The construction procedure of radiomics signature model. Figure S4. The correlation matrix for the selected radiomics features and clinical characteristics. Figure S5. The correlation matrix for the selected radiomics features and Ki-67 Index/rate of nuclear mitosis. Figure S7. Scatter plots for selected radiomics features and rate of nuclear mitosis. Figure S8. Scatter plots for radiomics signature/nomogram and the Ki-67 Index/rate of nuclear mitosis. Table S3. Predictive performance of the radiomics signature incorporating maximum diameter and tumor clinical stage. Table S4. Multivariable Regression Results for Radiomics Signature.
Table S2 from 21-Gene Recurrence Score Assay Predicts Benefit of Post-Mastectomy Radiotherapy in T1-2 N1 Breast Cancer
Authors: Goodman Chelain R. , Seagle Brandon-Luke L. , Kocherginsky Masha , Donnelly Eric D. , Shahabi Shohreh , Strauss Jonathan B.
Published: April 2023

Characteristics of the matched cohorts of each 21-gene Recurrence Score Assay risk group from the SEER cohort, grouped by receipt of post-mastectomy radiotherapy.
Table S1 from 21-Gene Recurrence Score Assay Predicts Benefit of Post-Mastectomy Radiotherapy in T1-2 N1 Breast Cancer
Authors: Goodman Chelain R. , Seagle Brandon-Luke L. , Kocherginsky Masha , Donnelly Eric D. , Shahabi Shohreh , Strauss Jonathan B.
Published: April 2023

Characteristics of the matched cohorts of each 21-gene Recurrence Score Assay risk group from the NCDB cohort, grouped by receipt of post-mastectomy radiotherapy.
Table S9 from The Immune Microenvironment and Neoantigen Landscape of Aggressive Salivary Gland Carcinomas Differ by Subtype
Authors: Linxweiler Maximilian , Kuo Fengshen , Katabi Nora , Lee Mark , Nadeem Zaineb , Dalin Martin G. , Makarov Vladimir , Chowell Diego , Dogan Snjezana , Ganly Ian , Hakimi A. Ari , Wong Richard J. , Riaz Nadeem , Ho Alan L. , Chan Timothy A. , Morris Luc G.T.
Published: April 2023

Table S9
Table S8 from The Immune Microenvironment and Neoantigen Landscape of Aggressive Salivary Gland Carcinomas Differ by Subtype
Authors: Linxweiler Maximilian , Kuo Fengshen , Katabi Nora , Lee Mark , Nadeem Zaineb , Dalin Martin G. , Makarov Vladimir , Chowell Diego , Dogan Snjezana , Ganly Ian , Hakimi A. Ari , Wong Richard J. , Riaz Nadeem , Ho Alan L. , Chan Timothy A. , Morris Luc G.T.
Published: April 2023

Table S8
Supplementary Methods from Comparing Circulating Tumor Cell Counts with Dynamic Tumor Size Changes as Predictor of Overall Survival: A Quantitative Modeling Framework
Authors: Netterberg Ida , Karlsson Mats O. , Terstappen Leon W.M.M. , Koopman Miriam , Punt Cornelis J.A. , Friberg Lena E.
Published: April 2023

Supplementary Methods
Table S6 from The Immune Microenvironment and Neoantigen Landscape of Aggressive Salivary Gland Carcinomas Differ by Subtype
Authors: Linxweiler Maximilian , Kuo Fengshen , Katabi Nora , Lee Mark , Nadeem Zaineb , Dalin Martin G. , Makarov Vladimir , Chowell Diego , Dogan Snjezana , Ganly Ian , Hakimi A. Ari , Wong Richard J. , Riaz Nadeem , Ho Alan L. , Chan Timothy A. , Morris Luc G.T.
Published: April 2023

Table S6
Table S5 from The Immune Microenvironment and Neoantigen Landscape of Aggressive Salivary Gland Carcinomas Differ by Subtype
Authors: Linxweiler Maximilian , Kuo Fengshen , Katabi Nora , Lee Mark , Nadeem Zaineb , Dalin Martin G. , Makarov Vladimir , Chowell Diego , Dogan Snjezana , Ganly Ian , Hakimi A. Ari , Wong Richard J. , Riaz Nadeem , Ho Alan L. , Chan Timothy A. , Morris Luc G.T.
Published: April 2023

Table S5
Table S4 from The Immune Microenvironment and Neoantigen Landscape of Aggressive Salivary Gland Carcinomas Differ by Subtype
Authors: Linxweiler Maximilian , Kuo Fengshen , Katabi Nora , Lee Mark , Nadeem Zaineb , Dalin Martin G. , Makarov Vladimir , Chowell Diego , Dogan Snjezana , Ganly Ian , Hakimi A. Ari , Wong Richard J. , Riaz Nadeem , Ho Alan L. , Chan Timothy A. , Morris Luc G.T.
Published: April 2023

Table S4
Table S1 from The Immune Microenvironment and Neoantigen Landscape of Aggressive Salivary Gland Carcinomas Differ by Subtype
Authors: Linxweiler Maximilian , Kuo Fengshen , Katabi Nora , Lee Mark , Nadeem Zaineb , Dalin Martin G. , Makarov Vladimir , Chowell Diego , Dogan Snjezana , Ganly Ian , Hakimi A. Ari , Wong Richard J. , Riaz Nadeem , Ho Alan L. , Chan Timothy A. , Morris Luc G.T.
Published: April 2023

Table S1
Supplementary Materials from Lobular Carcinomas In Situ Display Intralesion Genetic Heterogeneity and Clonal Evolution in the Progression to Invasive Lobular Carcinoma
Authors: Lee Ju Youn , Schizas Michail , Geyer Felipe C. , Selenica Pier , Piscuoglio Salvatore , Sakr Rita A. , Ng Charlotte K.Y. , Carniello Jose V. Scarpa , Towers Russell , Giri Dilip D. , de Andrade Victor P. , Papanastasiou Anastasios D. , Viale Agnes , Harris Reuben S. , Solit David B. , Weigelt Britta , Reis-Filho Jorge S. , King Tari A.
Published: April 2023

File containing Supplementary Methods, Legends for Supplementary Tables S1-S2, Legends for Supplementary Figures S1-S4 and Legends for the Supplementary Data File 1.
Supplementary Figure S2 from Lobular Carcinomas In Situ Display Intralesion Genetic Heterogeneity and Clonal Evolution in the Progression to Invasive Lobular Carcinoma
Authors: Lee Ju Youn , Schizas Michail , Geyer Felipe C. , Selenica Pier , Piscuoglio Salvatore , Sakr Rita A. , Ng Charlotte K.Y. , Carniello Jose V. Scarpa , Towers Russell , Giri Dilip D. , de Andrade Victor P. , Papanastasiou Anastasios D. , Viale Agnes , Harris Reuben S. , Solit David B. , Weigelt Britta , Reis-Filho Jorge S. , King Tari A.
Published: April 2023

Supplementary Fig. S2: Repertoire of somatic mutations, clonal composition and phylogenetic tree analysis of cases 11-18.
Supplementary Figure S1 from Lobular Carcinomas In Situ Display Intralesion Genetic Heterogeneity and Clonal Evolution in the Progression to Invasive Lobular Carcinoma
Authors: Lee Ju Youn , Schizas Michail , Geyer Felipe C. , Selenica Pier , Piscuoglio Salvatore , Sakr Rita A. , Ng Charlotte K.Y. , Carniello Jose V. Scarpa , Towers Russell , Giri Dilip D. , de Andrade Victor P. , Papanastasiou Anastasios D. , Viale Agnes , Harris Reuben S. , Solit David B. , Weigelt Britta , Reis-Filho Jorge S. , King Tari A.
Published: April 2023

Supplementary Fig. S1: Repertoire of somatic mutations, clonal composition and phylogenetic tree analysis of cases 1-3 and cases 5-9.
Figure S4 from The Immune Microenvironment and Neoantigen Landscape of Aggressive Salivary Gland Carcinomas Differ by Subtype
Authors: Linxweiler Maximilian , Kuo Fengshen , Katabi Nora , Lee Mark , Nadeem Zaineb , Dalin Martin G. , Makarov Vladimir , Chowell Diego , Dogan Snjezana , Ganly Ian , Hakimi A. Ari , Wong Richard J. , Riaz Nadeem , Ho Alan L. , Chan Timothy A. , Morris Luc G.T.
Published: April 2023

Figure S4
Figure S2 from The Immune Microenvironment and Neoantigen Landscape of Aggressive Salivary Gland Carcinomas Differ by Subtype
Authors: Linxweiler Maximilian , Kuo Fengshen , Katabi Nora , Lee Mark , Nadeem Zaineb , Dalin Martin G. , Makarov Vladimir , Chowell Diego , Dogan Snjezana , Ganly Ian , Hakimi A. Ari , Wong Richard J. , Riaz Nadeem , Ho Alan L. , Chan Timothy A. , Morris Luc G.T.
Published: April 2023

Figure S2
Supplementary Data from Rebalancing Protein Homeostasis Enhances Tumor Antigen Presentation
Authors: Jaeger Alex M. , Stopfer Lauren , Lee Sunmin , Gaglia Giorgio , Sandel Demi , Santagata Sandro , Lin Nancy U. , Trepel Jane B. , White Forest , Jacks Tyler , Lindquist Susan , Whitesell Luke
Published: April 2023

Clinical Data Pan Cancer Immune Profiling Codeset
Supplementary Data from Rebalancing Protein Homeostasis Enhances Tumor Antigen Presentation
Authors: Jaeger Alex M. , Stopfer Lauren , Lee Sunmin , Gaglia Giorgio , Sandel Demi , Santagata Sandro , Lin Nancy U. , Trepel Jane B. , White Forest , Jacks Tyler , Lindquist Susan , Whitesell Luke
Published: April 2023

Summary of MC38 MHC-I Peptides
Figure S2 from Genomic and Immunologic Characterization of INI1-Deficient Pediatric Cancers
Authors: Forrest Suzanne J. , Al-Ibraheemi Alyaa , Doan Duong , Ward Abigail , Clinton Catherine M. , Putra Juan , Pinches R. Seth , Kadoch Cigall , Chi Susan N. , DuBois Steven G. , Leavey Patrick J. , LeBoeuf Nicole R. , Mullen Elizabeth , Collins Natalie , Church Alanna J. , Janeway Katherine A.
Published: April 2023

Figure S2 shows PD-L1 status in patients with multiple sample time points
Table S5 from Analysis of Mucosal Melanoma Whole-Genome Landscapes Reveals Clinically Relevant Genomic Aberrations
Authors: Zhou Rong , Shi Chaoji , Tao Wenjie , Li Jiang , Wu Jing , Han Yong , Yang Guizhu , Gu Ziyue , Xu Shengming , Wang Yujue , Wang Lizhen , Wang Yanan , Zhou Guoyu , Zhang Chenping , Zhang Zhiyuan , Sun Shuyang
Published: April 2023

Comparison between two primary samples and matched metastatic samples.
Supplementary Data from Arming an Oncolytic Herpes Simplex Virus Type 1 with a Single-chain Fragment Variable Antibody against PD-1 for Experimental Glioblastoma Therapy
Authors: Passaro Carmela , Alayo Quazim , DeLaura Isabel , McNulty John , Grauwet Korneel , Ito Hirotaka , Bhaskaran Vivek , Mineo Marco , Lawler Sean E. , Shah Khalid , Speranza Maria C. , Goins William , McLaughlin Eric , Fernandez Soledad , Reardon David A. , Freeman Gordon J. , Chiocca E. Antonio , Nakashima Hiroshi
Published: April 2023

Supplementary figure legends
Table S4 from Analysis of Mucosal Melanoma Whole-Genome Landscapes Reveals Clinically Relevant Genomic Aberrations
Authors: Zhou Rong , Shi Chaoji , Tao Wenjie , Li Jiang , Wu Jing , Han Yong , Yang Guizhu , Gu Ziyue , Xu Shengming , Wang Yujue , Wang Lizhen , Wang Yanan , Zhou Guoyu , Zhang Chenping , Zhang Zhiyuan , Sun Shuyang
Published: April 2023

Distribution of chromothripsis and BFB and correlation analysis of the SV pattern and CNV pattern.
Table S3 from Analysis of Mucosal Melanoma Whole-Genome Landscapes Reveals Clinically Relevant Genomic Aberrations
Authors: Zhou Rong , Shi Chaoji , Tao Wenjie , Li Jiang , Wu Jing , Han Yong , Yang Guizhu , Gu Ziyue , Xu Shengming , Wang Yujue , Wang Lizhen , Wang Yanan , Zhou Guoyu , Zhang Chenping , Zhang Zhiyuan , Sun Shuyang
Published: April 2023

Pathway analysis in MM and comparison between MM and CM.
Supplementary Table S1 from Phase I Study of Rapid Alternation of Sunitinib and Regorafenib for the Treatment of Tyrosine Kinase Inhibitor Refractory Gastrointestinal Stromal Tumors
Authors: Serrano César , Leal Alessandro , Kuang Yanan , Morgan Jeffrey A. , Barysauskas Constance M. , Phallen Jillian , Triplett Olivia , Mariño-Enríquez Adrián , Wagner Andrew J. , Demetri George D. , Velculescu Victor E. , Paweletz Cloud P. , Fletcher Jonathan A. , George Suzanne
Published: April 2023

Pharmacokinetic collection time-points (pre-dose) for sunitinib and its metabolite (SU012662), and regorafenib and its metabolites (M2 and M5).
Supplementary Data from Analysis of Mucosal Melanoma Whole-Genome Landscapes Reveals Clinically Relevant Genomic Aberrations
Authors: Zhou Rong , Shi Chaoji , Tao Wenjie , Li Jiang , Wu Jing , Han Yong , Yang Guizhu , Gu Ziyue , Xu Shengming , Wang Yujue , Wang Lizhen , Wang Yanan , Zhou Guoyu , Zhang Chenping , Zhang Zhiyuan , Sun Shuyang
Published: April 2023

Supplementary figures and figure legends. (Figure S1) Deregulation of genes within key affected signaling pathways in MM. (Figure S2) Validation of the somatic SNV/InDels found in POM121. (Figure S3) Copy number changes in MM. (Figure S4) Distribution of SVs and genetic events including breakage-fusion-bridges [BFBs] and chromothripsis across chromosomes among all samples. (Figure S5) Validation of SV occurring between chromosome 5 and 12 in MM023 and MM065. (Figure S6) Fine structure of BFBs and chromothripsis found in MM. (Figure S7) Comparison of lesions found in mucosal melanoma. (Figure S8) Validation of the copy number alteration of CDK4 and TERT in representative samples. (Figure S9) FISH confirming amplification and co-localization of CDK4 [12q14] and TERT [5p15]. (Figure S10) Molecular characterization of the MM PDX models and the effects of palbociclib on Rb phosphorylation in treatment-responsive PDX models. (Figure S11) Significant mutated non-coding region genes in MMs. (Figure S12) Mutation signatures found in MM.
Supplementary Data from Pembrolizumab in Combination with the Oncolytic Virus Pelareorep and Chemotherapy in Patients with Advanced Pancreatic Adenocarcinoma: A Phase Ib Study
Authors: Mahalingam Devalingam , Wilkinson Grey A. , Eng Kevin H. , Fields Paul , Raber Patrick , Moseley Jennifer L. , Cheetham Karol , Coffey Matt , Nuovo Gerard , Kalinski Pawel , Zhang Bin , Arora Sukeshi Patel , Fountzilas Christos
Published: April 2023

Supplementary Figures and Tables
Supplementary figures S1-S5 from Targeting Endoglin-Expressing Regulatory T Cells in the Tumor Microenvironment Enhances the Effect of PD1 Checkpoint Inhibitor Immunotherapy
Authors: Schoonderwoerd Mark J.A. , Koops Maaike F.M. , Angela Ricardo A. , Koolmoes Bryan , Toitou Melpomeni , Paauwe Madelon , Barnhoorn Marieke C. , Liu Yingmiao , Sier Cornelis F.M. , Hardwick James C.H. , Nixon Andrew B. , Theuer Charles P. , Fransen Marieke F. , Hawinkels Lukas J.A.C.
Published: April 2023

Supplementary figures S1-S5
Suppl Table 3 from A Method to Summarize Toxicity in Cancer Randomized Clinical Trials
Authors: Carbini Mariana , Suárez-Fariñas Mayte , Maki Robert G.
Published: April 2023

PRO-CTCAE proposed WTS matrix
Supplementary Figure 7 from Genetic Analysis of 779 Advanced Differentiated and Anaplastic Thyroid Cancers
Authors: Pozdeyev Nikita , Gay Laurie M. , Sokol Ethan S. , Hartmaier Ryan , Deaver Kelsi E. , Davis Stephanie , French Jena D. , Borre Pierre Vanden , LaBarbera Daniel V. , Tan Aik-Choon , Schweppe Rebecca E. , Fishbein Lauren , Ross Jeffrey S. , Haugen Bryan R. , Bowles Daniel W.
Published: April 2023

The sensitivity of thyroid cancer cell lines to lenvatinib in vitro (A) and the expression of RET (B), KDR (C), KIT (D) and PDGFRA (E).
Suppl Table 2 from A Method to Summarize Toxicity in Cancer Randomized Clinical Trials
Authors: Carbini Mariana , Suárez-Fariñas Mayte , Maki Robert G.
Published: April 2023

Full description of WTS for CTCAE 4.03
Suppl Table 1 from A Method to Summarize Toxicity in Cancer Randomized Clinical Trials
Authors: Carbini Mariana , Suárez-Fariñas Mayte , Maki Robert G.
Published: April 2023

Studies examined
Supplementary Figure 5 from Genetic Analysis of 779 Advanced Differentiated and Anaplastic Thyroid Cancers
Authors: Pozdeyev Nikita , Gay Laurie M. , Sokol Ethan S. , Hartmaier Ryan , Deaver Kelsi E. , Davis Stephanie , French Jena D. , Borre Pierre Vanden , LaBarbera Daniel V. , Tan Aik-Choon , Schweppe Rebecca E. , Fishbein Lauren , Ross Jeffrey S. , Haugen Bryan R. , Bowles Daniel W.
Published: April 2023

Genetic alterations in hurthle cell thyroid cancer.
Supp Figure 2 from A Method to Summarize Toxicity in Cancer Randomized Clinical Trials
Authors: Carbini Mariana , Suárez-Fariñas Mayte , Maki Robert G.
Published: April 2023

Predict DDR from DWTS
Supplementary Figure 3 from Genetic Analysis of 779 Advanced Differentiated and Anaplastic Thyroid Cancers
Authors: Pozdeyev Nikita , Gay Laurie M. , Sokol Ethan S. , Hartmaier Ryan , Deaver Kelsi E. , Davis Stephanie , French Jena D. , Borre Pierre Vanden , LaBarbera Daniel V. , Tan Aik-Choon , Schweppe Rebecca E. , Fishbein Lauren , Ross Jeffrey S. , Haugen Bryan R. , Bowles Daniel W.
Published: April 2023

Genetic alterations in pediatric papillary thyroid cancer.
Supplementary Figure 1 from Genetic Analysis of 779 Advanced Differentiated and Anaplastic Thyroid Cancers
Authors: Pozdeyev Nikita , Gay Laurie M. , Sokol Ethan S. , Hartmaier Ryan , Deaver Kelsi E. , Davis Stephanie , French Jena D. , Borre Pierre Vanden , LaBarbera Daniel V. , Tan Aik-Choon , Schweppe Rebecca E. , Fishbein Lauren , Ross Jeffrey S. , Haugen Bryan R. , Bowles Daniel W.
Published: April 2023

The number of genetic alterations per tumor increases with age in papillary (A) but not in anaplastic thyroid cancer (B).
Supplementary Data from Low-Dose Metformin Reprograms the Tumor Immune Microenvironment in Human Esophageal Cancer: Results of a Phase II Clinical Trial
Authors: Wang Shuhong , Lin Yusheng , Xiong Xiao , Wang Lu , Guo Yi , Chen Yuping , Chen Shaobin , Wang Geng , Lin Peng , Chen Hongcai , Yeung Sai-Ching Jim , Bremer Edwin , Zhang Hao
Published: April 2023

Supplementary Data including supplementary figures and tables.
Table S3 from Genetic Alterations in the PI3K/AKT Pathway and Baseline AKT Activity Define AKT Inhibitor Sensitivity in Breast Cancer Patient-derived Xenografts
Authors: Gris-Oliver Albert , Palafox Marta , Monserrat Laia , Brasó-Maristany Fara , Òdena Andreu , Sánchez-Guixé Mònica , Ibrahim Yasir H. , Villacampa Guillermo , Grueso Judit , Parés Mireia , Guzmán Marta , Rodríguez Olga , Bruna Alejandra , Hirst Caroline S. , Barnicle Alan , de Bruin Elza C. , Reddy Avinash , Schiavon Gaia , Arribas Joaquín , Mills Gordon B. , Caldas Carlos , Dienstmann Rodrigo , Prat Aleix , Nuciforo Paolo , Razavi Pedram , Scaltriti Maurizio , Turner Nicholas C. , Saura Cristina , Davies Barry R. , Oliveira Mafalda , Serra Violeta
Published: April 2023

RPPA data analysis
Supplementary Materials from Identification of Deleterious NOTCH Mutation as Novel Predictor to Efficacious Immunotherapy in NSCLC
Authors: Zhang Kai , Hong Xiaohua , Song Zhengbo , Xu Yu , Li Chengcheng , Wang Guoqiang , Zhang Yuzi , Zhao Xiaochen , Zhao Zhengyi , Zhao Jing , Huang Mengli , Huang Depei , Qi Chuang , Gao Chan , Cai Shangli , Gu Feifei , Hu Yue , Xu Chunwei , Wang Wenxian , Lou Zhenkun , Zhang Yong , Liu Li
Published: April 2023

Supplementary Materials
Table S2 from Genetic Alterations in the PI3K/AKT Pathway and Baseline AKT Activity Define AKT Inhibitor Sensitivity in Breast Cancer Patient-derived Xenografts
Authors: Gris-Oliver Albert , Palafox Marta , Monserrat Laia , Brasó-Maristany Fara , Òdena Andreu , Sánchez-Guixé Mònica , Ibrahim Yasir H. , Villacampa Guillermo , Grueso Judit , Parés Mireia , Guzmán Marta , Rodríguez Olga , Bruna Alejandra , Hirst Caroline S. , Barnicle Alan , de Bruin Elza C. , Reddy Avinash , Schiavon Gaia , Arribas Joaquín , Mills Gordon B. , Caldas Carlos , Dienstmann Rodrigo , Prat Aleix , Nuciforo Paolo , Razavi Pedram , Scaltriti Maurizio , Turner Nicholas C. , Saura Cristina , Davies Barry R. , Oliveira Mafalda , Serra Violeta
Published: April 2023

Genomic alterations in PDX by IMPACT-MSKCC platform or exome-sequencing
Table S1 from Pharmacokinetics, Safety, and Antitumor Effect of Apalutamide with Abiraterone Acetate plus Prednisone in Metastatic Castration-Resistant Prostate Cancer: Phase Ib Study
Authors: Posadas Edwin M. , Chi Kim N. , de Wit Ronald , de Jonge Maja J.A. , Attard Gerhardt , Friedlander Terence W. , Yu Margaret K. , Hellemans Peter , Chien Caly , Abrams Charlene , Jiao Juhui J. , Saad Fred
Published: April 2023

Plasma pharmacokinetic parameters of abiraterone, APA, N-desmethyl APA, prednisone, and prednisolone following oral administration of AA-P on C1D7 and APA plus AA-P on C2D8
Figure S1 from Pharmacokinetics, Safety, and Antitumor Effect of Apalutamide with Abiraterone Acetate plus Prednisone in Metastatic Castration-Resistant Prostate Cancer: Phase Ib Study
Authors: Posadas Edwin M. , Chi Kim N. , de Wit Ronald , de Jonge Maja J.A. , Attard Gerhardt , Friedlander Terence W. , Yu Margaret K. , Hellemans Peter , Chien Caly , Abrams Charlene , Jiao Juhui J. , Saad Fred
Published: April 2023

Study design for NCT02123758, a multicenter, open-label phase Ib study in patients with mCRPC to assess potential pharmacokinetic drug-drug interaction, safety, and antitumor activity when APA is given in combination with AA-P.
Supplementary Table 7 from Molecular Classification of Epithelial Ovarian Cancer Based on Methylation Profiling: Evidence for Survival Heterogeneity
Authors: Bodelon Clara , Killian J. Keith , Sampson Joshua N. , Anderson William F. , Matsuno Rayna , Brinton Louise A. , Lissowska Jolanta , Anglesio Michael S. , Bowtell David D.L. , Doherty Jennifer A. , Ramus Susan J. , Talhouk Aline , Sherman Mark E. , Wentzensen Nicolas
Published: April 2023

Supplementary Table 7
Supplementary Materials and Methods from Fratricide of NK Cells in Daratumumab Therapy for Multiple Myeloma Overcome by Ex Vivo–Expanded Autologous NK Cells
Authors: Wang Yufeng , Zhang Yibo , Hughes Tiffany , Zhang Jianying , Caligiuri Michael A. , Benson Don M. , Yu Jianhua
Published: April 2023

Supplementary materials and methods
Supplementary Data from Molecular Classification of Epithelial Ovarian Cancer Based on Methylation Profiling: Evidence for Survival Heterogeneity
Authors: Bodelon Clara , Killian J. Keith , Sampson Joshua N. , Anderson William F. , Matsuno Rayna , Brinton Louise A. , Lissowska Jolanta , Anglesio Michael S. , Bowtell David D.L. , Doherty Jennifer A. , Ramus Susan J. , Talhouk Aline , Sherman Mark E. , Wentzensen Nicolas
Published: April 2023

Supplemental Figures and tables
Supplementary Figure 1 from First-in-Human Study of AT13148, a Dual ROCK-AKT Inhibitor in Patients with Solid Tumors
Authors: McLeod Robert , Kumar Rajiv , Papadatos-Pastos Dionysis , Mateo Joaquin , Brown Jessica S. , Garces Alvaro H. Ingles , Ruddle Ruth , Decordova Shaun , Jueliger Simone , Ferraldeschi Roberta , Maiques Oscar , Sanz-Moreno Victoria , Jones Paul , Traub Stephanie , Halbert Gavin , Mellor Sarah , Swales Karen E. , Raynaud Florence I. , Garrett Michelle D. , Banerji Udai
Published: April 2023

Relationship between dose and AUC/Cmax
Supplementary Tables from Circulating Tumor DNA Sequencing Analysis of Gastroesophageal Adenocarcinoma
Authors: Maron Steven B. , Chase Leah M. , Lomnicki Samantha , Kochanny Sara , Moore Kelly L. , Joshi Smita S. , Landron Stacie , Johnson Julie , Kiedrowski Lesli A. , Nagy Rebecca J. , Lanman Richard B. , Kim Seung Tae , Lee Jeeyun , Catenacci Daniel V.T.
Published: April 2023

Supplemental Table S1. Description of cohorts and sub-cohorts utilized in this study. Supplemental Table S2. Clinical information detailing patients in the "Baseline-cohort" ie untreated stage IV patients from UC and SMC who underwent ctDNA-NGS testing (n=144). Supplemental Table S3. Peri-operative ctDNA samples and their timing relative to surgery, DFS, maxVAF at the time of draw, and staging. Supplemental Table S4. Alterations detected in ctDNA in post-operative patients within 180 days of surgery. Supplemental Table S5. Frequencies of A) genomic alterations, B) mutations, or C) amplifications in initial tests across the entire Global GEA (n=1627) and UC/SMC subsets as seen in Figure 3. D) GA frequencies in genes common to ctDNA-NGS, MSK-Impact, and TCGA reported as percentage altered. Supplemental Table S6. Frequencies of GAs across the "Global-cohort" and UC/SMC subsets when narrowing patients from figure 3A to A) only initial tests with detectable non-synonymous alterations (n=1329) or B) only initial tests with maxVAF>0.5% (n=936), as seen in figure S3A-B. Similarly, initial tests from the "Global-cohort" were compared with MSK-Impact and TCGA using C) only ctDNA-NGS cases with non-synonymous alterations and D) ctDNA-NGS cases with maxVAF>0.5%. Supplemental Table S7. Detailed molecular information regarding clinically HER2-positive patient cohort (n=58). Supplemental Table S8. Alterations present upon progression of disease after 1L HER2-targeted therapy in patients with persistent HER2 amplification. Supplemental Table S9. Prognostic significance of alterations, mutations, and amplifications in potentially actionable genes.
Supplementary Data from Circulating Tumor DNA Sequencing Analysis of Gastroesophageal Adenocarcinoma
Authors: Maron Steven B. , Chase Leah M. , Lomnicki Samantha , Kochanny Sara , Moore Kelly L. , Joshi Smita S. , Landron Stacie , Johnson Julie , Kiedrowski Lesli A. , Nagy Rebecca J. , Lanman Richard B. , Kim Seung Tae , Lee Jeeyun , Catenacci Daniel V.T.
Published: April 2023

Patient case descriptions
Supplementary Data from Circulating Tumor DNA Sequencing Analysis of Gastroesophageal Adenocarcinoma
Authors: Maron Steven B. , Chase Leah M. , Lomnicki Samantha , Kochanny Sara , Moore Kelly L. , Joshi Smita S. , Landron Stacie , Johnson Julie , Kiedrowski Lesli A. , Nagy Rebecca J. , Lanman Richard B. , Kim Seung Tae , Lee Jeeyun , Catenacci Daniel V.T.
Published: April 2023

Supplementary Legend and Figures Supplemental Figure S1. Relationship between tumor burden, number of alterations, and tumor mutation burden. Supplemental Figure S2. Number of detected genomic alterations by stage. Supplemental Figure S3. Relative frequency of common (>5%) non-synonymous alterations between various ctDNA-NGS and tissue-NGS cohorts amongst patients with detectable alterations. Supplemental Figure S4. Distribution of oncogenic copy number with and without "adjustment" for maxVAF. Supplemental Figure S5. Serial NGS of ctDNA and tissue highlight spatio-temporal heterogeneity in patients with RTK alterations treated with matched targeted therapies.
Supplementary Data from Clinical Significance of Extracellular Vesicles in Plasma from Glioblastoma Patients
Authors: Osti Daniela , Del Bene Massimiliano , Rappa Germana , Santos Mark , Matafora Vittoria , Richichi Cristina , Faletti Stefania , Beznoussenko Galina V. , Mironov Alexandre , Bachi Angela , Fornasari Lorenzo , Bongetta Daniele , Gaetani Paolo , DiMeco Francesco , Lorico Aurelio , Pelicci Giuliana
Published: April 2023

Table S1
Supplementary Data from Clinical Significance of Extracellular Vesicles in Plasma from Glioblastoma Patients
Authors: Osti Daniela , Del Bene Massimiliano , Rappa Germana , Santos Mark , Matafora Vittoria , Richichi Cristina , Faletti Stefania , Beznoussenko Galina V. , Mironov Alexandre , Bachi Angela , Fornasari Lorenzo , Bongetta Daniele , Gaetani Paolo , DiMeco Francesco , Lorico Aurelio , Pelicci Giuliana
Published: April 2023

Table S2
Supplementary Data from Clinical Significance of Extracellular Vesicles in Plasma from Glioblastoma Patients
Authors: Osti Daniela , Del Bene Massimiliano , Rappa Germana , Santos Mark , Matafora Vittoria , Richichi Cristina , Faletti Stefania , Beznoussenko Galina V. , Mironov Alexandre , Bachi Angela , Fornasari Lorenzo , Bongetta Daniele , Gaetani Paolo , DiMeco Francesco , Lorico Aurelio , Pelicci Giuliana
Published: April 2023

Table S4
Supplementary Figure S5 from Whole-Exome Sequencing Analysis of the Progression from Non–Low-Grade Ductal Carcinoma In Situ to Invasive Ductal Carcinoma
Authors: Pareja Fresia , Brown David N. , Lee Ju Youn , Da Cruz Paula Arnaud , Selenica Pier , Bi Rui , Geyer Felipe C. , Gazzo Andrea , da Silva Edaise M. , Vahdatinia Mahsa , Stylianou Anthe A. , Ferrando Lorenzo , Wen Hannah Y. , Hicks James B. , Weigelt Britta , Reis-Filho Jorge S.
Published: April 2023

Supplementary Figure S5 shows BRCA1 loss of heterozygosity in the different foci of synchronously diagnosed ductal carcinoma in situ and invasive ductal carcinoma of no special type in a BRCA1 germline carrier.
Supplementary Data from Open-label, Phase I Study of Nivolumab Combined with nab-Paclitaxel Plus Gemcitabine in Advanced Pancreatic Cancer
Authors: Wainberg Zev A. , Hochster Howard S. , Kim Edward J. , George Ben , Kaylan Aparna , Chiorean E. Gabriela , Waterhouse David M. , Guiterrez Martin , Parikh Aparna , Jain Rishi , Carrizosa Daniel Ricardo , Soliman Hatem H. , Lila Thomas , Reiss David J. , Pierce Daniel W. , Bhore Rafia , Banerjee Sibabrata , Lyons Larry , Louis Chrystal U. , Ong Teng Jin , O'Dwyer Peter J.
Published: April 2023

Data Tables
Supplementary Figure S2 from Whole-Exome Sequencing Analysis of the Progression from Non–Low-Grade Ductal Carcinoma In Situ to Invasive Ductal Carcinoma
Authors: Pareja Fresia , Brown David N. , Lee Ju Youn , Da Cruz Paula Arnaud , Selenica Pier , Bi Rui , Geyer Felipe C. , Gazzo Andrea , da Silva Edaise M. , Vahdatinia Mahsa , Stylianou Anthe A. , Ferrando Lorenzo , Wen Hannah Y. , Hicks James B. , Weigelt Britta , Reis-Filho Jorge S.
Published: April 2023

Supplementary Figure S2 shows the repertoire and number of non-synonymous somatic mutations and mutational signatures in synchronously diagnosed ductal carcinoma in situ and invasive ductal carcinoma of no special type and in pure ductal carcinoma in situ.
Figure S2. Survival Outcomes By Tumor PD-L1 Levels (arm B parts 1 and 2) from Open-label, Phase I Study of Nivolumab Combined with nab-Paclitaxel Plus Gemcitabine in Advanced Pancreatic Cancer
Authors: Wainberg Zev A. , Hochster Howard S. , Kim Edward J. , George Ben , Kaylan Aparna , Chiorean E. Gabriela , Waterhouse David M. , Guiterrez Martin , Parikh Aparna , Jain Rishi , Carrizosa Daniel Ricardo , Soliman Hatem H. , Lila Thomas , Reiss David J. , Pierce Daniel W. , Bhore Rafia , Banerjee Sibabrata , Lyons Larry , Louis Chrystal U. , Ong Teng Jin , O'Dwyer Peter J.
Published: April 2023

Investigator-assessed PFS and OS in patients with PD-L1 expression cutoff of 1% (A, B) or 5% (C, D). HR, hazard ratio; mo, months; OS, overall survival; PD-L1, programmed cell death ligand-1; PFS, progression-free survival.
Supplementary Methods from PIK3CA Amplification Associates with Aggressive Phenotype but Not Markers of AKT-MTOR Signaling in Endometrial Carcinoma
Authors: Holst Frederik , Werner Henrica M.J. , Mjøs Siv , Hoivik Erling A. , Kusonmano Kanthida , Wik Elisabeth , Berg Anna , Birkeland Even , Gibson William J. , Halle Mari K. , Trovik Jone , Cherniack Andrew D. , Kalland Karl-Henning , Mills Gordon B. , Singer Christian F. , Krakstad Camilla , Beroukhim Rameen , Salvesen Helga B.
Published: April 2023

Supplementary Methods
Supplementary Figure S2 from PIK3CA Amplification Associates with Aggressive Phenotype but Not Markers of AKT-MTOR Signaling in Endometrial Carcinoma
Authors: Holst Frederik , Werner Henrica M.J. , Mjøs Siv , Hoivik Erling A. , Kusonmano Kanthida , Wik Elisabeth , Berg Anna , Birkeland Even , Gibson William J. , Halle Mari K. , Trovik Jone , Cherniack Andrew D. , Kalland Karl-Henning , Mills Gordon B. , Singer Christian F. , Krakstad Camilla , Beroukhim Rameen , Salvesen Helga B.
Published: April 2023

Relations between PIK3CA amplification status and expression of PI3K signaling related protein epitopes in 336 UCEC from BGCB including 29 and 41 tumors with polysomy 3 and focal PIK3CA amplification, respectively.
Supplementary Figure S1 from PIK3CA Amplification Associates with Aggressive Phenotype but Not Markers of AKT-MTOR Signaling in Endometrial Carcinoma
Authors: Holst Frederik , Werner Henrica M.J. , Mjøs Siv , Hoivik Erling A. , Kusonmano Kanthida , Wik Elisabeth , Berg Anna , Birkeland Even , Gibson William J. , Halle Mari K. , Trovik Jone , Cherniack Andrew D. , Kalland Karl-Henning , Mills Gordon B. , Singer Christian F. , Krakstad Camilla , Beroukhim Rameen , Salvesen Helga B.
Published: April 2023

Correlation between copy number status determined by FISH and microarrays.
Supplementary Figure 3 from Glioblastoma-mediated Immune Dysfunction Limits CMV-specific T Cells and Therapeutic Responses: Results from a Phase I/II Trial
Authors: Weathers Shiao-Pei , Penas-Prado Marta , Pei Be-Lian , Ling Xiaoyang , Kassab Cynthia , Banerjee Pinaki , Bdiwi Mustafa , Shaim Hila , Alsuliman Abdullah , Shanley Mayra , de Groot John F. , O'Brien Barbara J. , Harrison Rebecca , Majd Nazanin , Kamiya-Matsuoka Carlos , Fuller Gregory N. , Huse Jason T. , Chi Linda , Rao Ganesh , Weinberg Jeffrey S. , Lang Frederick F. , Sawaya Raymond , Shpall Elizabeth J. , Rezvani Katayoun , Heimberger Amy B.
Published: April 2023

Supplementary Figure 3
Supplementary Table 3 from A Preclinical Trial and Molecularly Annotated Patient Cohort Identify Predictive Biomarkers in Homologous Recombination–deficient Pancreatic Cancer
Authors: Wang Yifan , Park Jin Yong Patrick , Pacis Alain , Denroche Robert E. , Jang Gun Ho , Zhang Amy , Cuggia Adeline , Domecq Celine , Monlong Jean , Raitses-Gurevich Maria , Grant Robert C. , Borgida Ayelet , Holter Spring , Stossel Chani , Bu Simeng , Masoomian Mehdi , Lungu Ilinca M. , Bartlett John M.S. , Wilson Julie M. , Gao Zu-Hua , Riazalhosseini Yasser , Asselah Jamil , Bouganim Nathaniel , Cabrera Tatiana , Boucher Louis-Martin , Valenti David , Biagi James , Greenwood Celia M.T. , Polak Paz , Foulkes William D. , Golan Talia , O'Kane Grainne M. , Fischer Sandra E. , Knox Jennifer J. , Gallinger Steven , Zogopoulos George
Published: April 2023

Supplementary Table 3 shows the establishment of primary cell cultures from HRD PDAC xenografts
Supplementary Figure 3 from The XPO1 Inhibitor KPT-8602 Synergizes with Dexamethasone in Acute Lymphoblastic Leukemia
Authors: Verbeke Delphine , Demeyer Sofie , Prieto Cristina , de Bock Charles E. , De Bie Jolien , Gielen Olga , Jacobs Kris , Mentens Nicole , Verhoeven Bronte Manouk , Uyttebroeck Anne , Boeckx Nancy , De Keersmaecker Kim , Maertens Johan , Segers Heidi , Cools Jan
Published: April 2023

Suppl. figure 3: Dexamethasone and dexamethasone+KPT-8602 treatment induce NR3C1 binding and leads to differential gene expression of the bound genes in the SUP-T1 cell line
Supplementary Figure 8 from A Preclinical Trial and Molecularly Annotated Patient Cohort Identify Predictive Biomarkers in Homologous Recombination–deficient Pancreatic Cancer
Authors: Wang Yifan , Park Jin Yong Patrick , Pacis Alain , Denroche Robert E. , Jang Gun Ho , Zhang Amy , Cuggia Adeline , Domecq Celine , Monlong Jean , Raitses-Gurevich Maria , Grant Robert C. , Borgida Ayelet , Holter Spring , Stossel Chani , Bu Simeng , Masoomian Mehdi , Lungu Ilinca M. , Bartlett John M.S. , Wilson Julie M. , Gao Zu-Hua , Riazalhosseini Yasser , Asselah Jamil , Bouganim Nathaniel , Cabrera Tatiana , Boucher Louis-Martin , Valenti David , Biagi James , Greenwood Celia M.T. , Polak Paz , Foulkes William D. , Golan Talia , O'Kane Grainne M. , Fischer Sandra E. , Knox Jennifer J. , Gallinger Steven , Zogopoulos George
Published: April 2023

Supplementary Figure 8 shows the principal component analysis followed by k-means clustering to group xenografts based on their sensitivity to cisplatin, talazoparib and cisplatin-talazoparib
Supplement from The XPO1 Inhibitor KPT-8602 Synergizes with Dexamethasone in Acute Lymphoblastic Leukemia
Authors: Verbeke Delphine , Demeyer Sofie , Prieto Cristina , de Bock Charles E. , De Bie Jolien , Gielen Olga , Jacobs Kris , Mentens Nicole , Verhoeven Bronte Manouk , Uyttebroeck Anne , Boeckx Nancy , De Keersmaecker Kim , Maertens Johan , Segers Heidi , Cools Jan
Published: April 2023

Supplementary methods, tables, figure legends
Supplementary Figure 4 from A Preclinical Trial and Molecularly Annotated Patient Cohort Identify Predictive Biomarkers in Homologous Recombination–deficient Pancreatic Cancer
Authors: Wang Yifan , Park Jin Yong Patrick , Pacis Alain , Denroche Robert E. , Jang Gun Ho , Zhang Amy , Cuggia Adeline , Domecq Celine , Monlong Jean , Raitses-Gurevich Maria , Grant Robert C. , Borgida Ayelet , Holter Spring , Stossel Chani , Bu Simeng , Masoomian Mehdi , Lungu Ilinca M. , Bartlett John M.S. , Wilson Julie M. , Gao Zu-Hua , Riazalhosseini Yasser , Asselah Jamil , Bouganim Nathaniel , Cabrera Tatiana , Boucher Louis-Martin , Valenti David , Biagi James , Greenwood Celia M.T. , Polak Paz , Foulkes William D. , Golan Talia , O'Kane Grainne M. , Fischer Sandra E. , Knox Jennifer J. , Gallinger Steven , Zogopoulos George
Published: April 2023

Supplementary Figure 4 shows the Kaplan-Meier survival curves of mice evaluated in the preclinical trial