bluuebunny/crossref_metadata_2025 huggingface dataset:
Supplementary Figure S4 from Androgen Receptor Signaling Regulates DNA Repair in Prostate Cancers
Authors: Polkinghorn William R. , Parker Joel S. , Lee Man X. , Kass Elizabeth M. , Spratt Daniel E. , Iaquinta Phillip J. , Arora Vivek K. , Yen Wei-Feng , Cai Ling , Zheng Deyou , Carver Brett S. , Chen Yu , Watson Philip A. , Shah Neel P. , Fujisawa Sho , Goglia Alexander G. , Gopalan Anuradha , Hieronymus Haley , Wongvipat John , Scardino Peter T. , Zelefsky Michael J. , Jasin Maria , Chaudhuri Jayanta , Powell Simon N. , Sawyers Charles L.
Published: April 2023

Supplementary Figure S4 - PDF file 793K, Immunoblot of LNCaP demonstrating LIG4 knockdown
Supplementary Tables 1-3 from High Frequency of PIK3R1 and PIK3R2 Mutations in Endometrial Cancer Elucidates a Novel Mechanism for Regulation of PTEN Protein Stability
Authors: Cheung Lydia W.T. , Hennessy Bryan T. , Li Jie , Yu Shuangxing , Myers Andrea P. , Djordjevic Bojana , Lu Yiling , Stemke-Hale Katherine , Dyer Mary D. , Zhang Fan , Ju Zhenlin , Cantley Lewis C. , Scherer Steven E. , Liang Han , Lu Karen H. , Broaddus Russell R. , Mills Gordon B.
Published: April 2023

Supplementary Tables 1-3 from High Frequency of PIK3R1 and PIK3R2 Mutations in Endometrial Cancer Elucidates a Novel Mechanism for Regulation of PTEN Protein Stability
Supplementary Figure S3 from Androgen Receptor Signaling Regulates DNA Repair in Prostate Cancers
Authors: Polkinghorn William R. , Parker Joel S. , Lee Man X. , Kass Elizabeth M. , Spratt Daniel E. , Iaquinta Phillip J. , Arora Vivek K. , Yen Wei-Feng , Cai Ling , Zheng Deyou , Carver Brett S. , Chen Yu , Watson Philip A. , Shah Neel P. , Fujisawa Sho , Goglia Alexander G. , Gopalan Anuradha , Hieronymus Haley , Wongvipat John , Scardino Peter T. , Zelefsky Michael J. , Jasin Maria , Chaudhuri Jayanta , Powell Simon N. , Sawyers Charles L.
Published: April 2023

Supplementary Figure S3 - PDF file 1337K, LNCaP cell cycle distribution by PI and BrdU analyses plus or minus ARN-509
Supplementary Materials and Methods from High Frequency of PIK3R1 and PIK3R2 Mutations in Endometrial Cancer Elucidates a Novel Mechanism for Regulation of PTEN Protein Stability
Authors: Cheung Lydia W.T. , Hennessy Bryan T. , Li Jie , Yu Shuangxing , Myers Andrea P. , Djordjevic Bojana , Lu Yiling , Stemke-Hale Katherine , Dyer Mary D. , Zhang Fan , Ju Zhenlin , Cantley Lewis C. , Scherer Steven E. , Liang Han , Lu Karen H. , Broaddus Russell R. , Mills Gordon B.
Published: April 2023

Supplementary Materials and Methods from High Frequency of PIK3R1 and PIK3R2 Mutations in Endometrial Cancer Elucidates a Novel Mechanism for Regulation of PTEN Protein Stability
Supplementary Figures 1-6 from High Frequency of PIK3R1 and PIK3R2 Mutations in Endometrial Cancer Elucidates a Novel Mechanism for Regulation of PTEN Protein Stability
Authors: Cheung Lydia W.T. , Hennessy Bryan T. , Li Jie , Yu Shuangxing , Myers Andrea P. , Djordjevic Bojana , Lu Yiling , Stemke-Hale Katherine , Dyer Mary D. , Zhang Fan , Ju Zhenlin , Cantley Lewis C. , Scherer Steven E. , Liang Han , Lu Karen H. , Broaddus Russell R. , Mills Gordon B.
Published: April 2023

Supplementary Figures 1-6 from High Frequency of PIK3R1 and PIK3R2 Mutations in Endometrial Cancer Elucidates a Novel Mechanism for Regulation of PTEN Protein Stability
Supplementary Figure S2 from Androgen Receptor Signaling Regulates DNA Repair in Prostate Cancers
Authors: Polkinghorn William R. , Parker Joel S. , Lee Man X. , Kass Elizabeth M. , Spratt Daniel E. , Iaquinta Phillip J. , Arora Vivek K. , Yen Wei-Feng , Cai Ling , Zheng Deyou , Carver Brett S. , Chen Yu , Watson Philip A. , Shah Neel P. , Fujisawa Sho , Goglia Alexander G. , Gopalan Anuradha , Hieronymus Haley , Wongvipat John , Scardino Peter T. , Zelefsky Michael J. , Jasin Maria , Chaudhuri Jayanta , Powell Simon N. , Sawyers Charles L.
Published: April 2023

Supplementary Figure S2 - PDF file 1705K, LNCaP cell cycle distribution by PI and BrdU analyses plus or minus androgen
Supplementary Figure S1 from Androgen Receptor Signaling Regulates DNA Repair in Prostate Cancers
Authors: Polkinghorn William R. , Parker Joel S. , Lee Man X. , Kass Elizabeth M. , Spratt Daniel E. , Iaquinta Phillip J. , Arora Vivek K. , Yen Wei-Feng , Cai Ling , Zheng Deyou , Carver Brett S. , Chen Yu , Watson Philip A. , Shah Neel P. , Fujisawa Sho , Goglia Alexander G. , Gopalan Anuradha , Hieronymus Haley , Wongvipat John , Scardino Peter T. , Zelefsky Michael J. , Jasin Maria , Chaudhuri Jayanta , Powell Simon N. , Sawyers Charles L.
Published: April 2023

Supplementary Figure S1 - PDF file 1194K, Gamma-H2AX foci and Comet assay normalized of LNCaP plus or minus androgen normalized to time 0
Interview with Dr. Cheung from High Frequency of PIK3R1 and PIK3R2 Mutations in Endometrial Cancer Elucidates a Novel Mechanism for Regulation of PTEN Protein Stability
Authors: Cheung Lydia W.T. , Hennessy Bryan T. , Li Jie , Yu Shuangxing , Myers Andrea P. , Djordjevic Bojana , Lu Yiling , Stemke-Hale Katherine , Dyer Mary D. , Zhang Fan , Ju Zhenlin , Cantley Lewis C. , Scherer Steven E. , Liang Han , Lu Karen H. , Broaddus Russell R. , Mills Gordon B.
Published: April 2023

mp3 file (7.5 MB). In the July edition of the Cancer Discovery podcast, Executive Editor Judy Quong talks with Lydia W.T. Cheung about her paper on the characterization of genetic mutations found in endometrial cancer.
Supplementary Methods, Figures 1-10, Tables 1-8 from Leukocyte Complexity Predicts Breast Cancer Survival and Functionally Regulates Response to Chemotherapy
Authors: DeNardo David G. , Brennan Donal J. , Rexhepaj Elton , Ruffell Brian , Shiao Stephen L. , Madden Stephen F. , Gallagher William M. , Wadhwani Nikhil , Keil Scott D. , Junaid Sharfaa A. , Rugo Hope S. , Hwang E. Shelley , Jirström Karin , West Brian L. , Coussens Lisa M.
Published: April 2023

Supplementary Methods, Figures 1-10, Tables 1-8 from Leukocyte Complexity Predicts Breast Cancer Survival and Functionally Regulates Response to Chemotherapy
Supplementary Figure Legends 1-4 from C-Raf Is Required for the Initiation of Lung Cancer by K-RasG12D
Authors: Karreth Florian A. , Frese Kristopher K. , DeNicola Gina M. , Baccarini Manuela , Tuveson David A.
Published: April 2023

Supplementary Figure Legends 1-4 from C-Raf Is Required for the Initiation of Lung Cancer by K-RasG12D
Supplementary Figure 4 from C-Raf Is Required for the Initiation of Lung Cancer by K-RasG12D
Authors: Karreth Florian A. , Frese Kristopher K. , DeNicola Gina M. , Baccarini Manuela , Tuveson David A.
Published: April 2023

Supplementary Figure 4 from C-Raf Is Required for the Initiation of Lung Cancer by K-RasG12D
Supplementary Table 2 from The OPCML Tumor Suppressor Functions as a Cell Surface Repressor–Adaptor, Negatively Regulating Receptor Tyrosine Kinases in Epithelial Ovarian Cancer
Authors: McKie Arthur B. , Vaughan Sebastian , Zanini Elisa , Okon Imoh S. , Louis Louay , de Sousa Camila , Greene Mark I. , Wang Qiang , Agarwal Roshan , Shaposhnikov Dmitry , Wong Joshua L. C. , Gungor Hatice , Janczar Szymon , El-Bahrawy Mona , Lam Eric W-F. , Chayen Naomi E. , Gabra Hani
Published: April 2023

PDF file - 130K
Supplementary Figure 3 from C-Raf Is Required for the Initiation of Lung Cancer by K-RasG12D
Authors: Karreth Florian A. , Frese Kristopher K. , DeNicola Gina M. , Baccarini Manuela , Tuveson David A.
Published: April 2023

Supplementary Figure 3 from C-Raf Is Required for the Initiation of Lung Cancer by K-RasG12D
Supplementary Table 1 from The OPCML Tumor Suppressor Functions as a Cell Surface Repressor–Adaptor, Negatively Regulating Receptor Tyrosine Kinases in Epithelial Ovarian Cancer
Authors: McKie Arthur B. , Vaughan Sebastian , Zanini Elisa , Okon Imoh S. , Louis Louay , de Sousa Camila , Greene Mark I. , Wang Qiang , Agarwal Roshan , Shaposhnikov Dmitry , Wong Joshua L. C. , Gungor Hatice , Janczar Szymon , El-Bahrawy Mona , Lam Eric W-F. , Chayen Naomi E. , Gabra Hani
Published: April 2023

PDF file - 76K
Supplementary Figure 2 from C-Raf Is Required for the Initiation of Lung Cancer by K-RasG12D
Authors: Karreth Florian A. , Frese Kristopher K. , DeNicola Gina M. , Baccarini Manuela , Tuveson David A.
Published: April 2023

Supplementary Figure 2 from C-Raf Is Required for the Initiation of Lung Cancer by K-RasG12D
Supplementary Figure 1 from C-Raf Is Required for the Initiation of Lung Cancer by K-RasG12D
Authors: Karreth Florian A. , Frese Kristopher K. , DeNicola Gina M. , Baccarini Manuela , Tuveson David A.
Published: April 2023

Supplementary Figure 1 from C-Raf Is Required for the Initiation of Lung Cancer by K-RasG12D
Supplementary Figures 1-11 from Response and Resistance to NF-κB Inhibitors in Mouse Models of Lung Adenocarcinoma
Authors: Xue Wen , Meylan Etienne , Oliver Trudy G. , Feldser David M. , Winslow Monte M. , Bronson Roderick , Jacks Tyler
Published: April 2023

Supplementary Figures 1-11 from Response and Resistance to NF-κB Inhibitors in Mouse Models of Lung Adenocarcinoma
Supplementary Figure 9 from The OPCML Tumor Suppressor Functions as a Cell Surface Repressor–Adaptor, Negatively Regulating Receptor Tyrosine Kinases in Epithelial Ovarian Cancer
Authors: McKie Arthur B. , Vaughan Sebastian , Zanini Elisa , Okon Imoh S. , Louis Louay , de Sousa Camila , Greene Mark I. , Wang Qiang , Agarwal Roshan , Shaposhnikov Dmitry , Wong Joshua L. C. , Gungor Hatice , Janczar Szymon , El-Bahrawy Mona , Lam Eric W-F. , Chayen Naomi E. , Gabra Hani
Published: April 2023

PDF file - 67K
Supplementary Figure 8 from The OPCML Tumor Suppressor Functions as a Cell Surface Repressor–Adaptor, Negatively Regulating Receptor Tyrosine Kinases in Epithelial Ovarian Cancer
Authors: McKie Arthur B. , Vaughan Sebastian , Zanini Elisa , Okon Imoh S. , Louis Louay , de Sousa Camila , Greene Mark I. , Wang Qiang , Agarwal Roshan , Shaposhnikov Dmitry , Wong Joshua L. C. , Gungor Hatice , Janczar Szymon , El-Bahrawy Mona , Lam Eric W-F. , Chayen Naomi E. , Gabra Hani
Published: April 2023

PDF file - 119K
Supplementary Figure S5 from Amplification of the MET Receptor Drives Resistance to Anti-EGFR Therapies in Colorectal Cancer
Authors: Bardelli Alberto , Corso Simona , Bertotti Andrea , Hobor Sebastijan , Valtorta Emanuele , Siravegna Giulia , Sartore-Bianchi Andrea , Scala Elisa , Cassingena Andrea , Zecchin Davide , Apicella Maria , Migliardi Giorgia , Galimi Francesco , Lauricella Calogero , Zanon Carlo , Perera Timothy , Veronese Silvio , Corti Giorgio , Amatu Alessio , Gambacorta Marcello , Diaz Luis A. , Sausen Mark , Velculescu Victor E. , Comoglio Paolo , Trusolino Livio , Di Nicolantonio Federica , Giordano Silvia , Siena Salvatore
Published: April 2023

Supplementary Figure S5 - PDF file 777K, Schematic representation of the scoring system applied to assess MET protein expression by immunohistochemistry
Supplementary Figure 6 from The OPCML Tumor Suppressor Functions as a Cell Surface Repressor–Adaptor, Negatively Regulating Receptor Tyrosine Kinases in Epithelial Ovarian Cancer
Authors: McKie Arthur B. , Vaughan Sebastian , Zanini Elisa , Okon Imoh S. , Louis Louay , de Sousa Camila , Greene Mark I. , Wang Qiang , Agarwal Roshan , Shaposhnikov Dmitry , Wong Joshua L. C. , Gungor Hatice , Janczar Szymon , El-Bahrawy Mona , Lam Eric W-F. , Chayen Naomi E. , Gabra Hani
Published: April 2023

PDF file - 49K
Supplementary Figure S3 from Amplification of the MET Receptor Drives Resistance to Anti-EGFR Therapies in Colorectal Cancer
Authors: Bardelli Alberto , Corso Simona , Bertotti Andrea , Hobor Sebastijan , Valtorta Emanuele , Siravegna Giulia , Sartore-Bianchi Andrea , Scala Elisa , Cassingena Andrea , Zecchin Davide , Apicella Maria , Migliardi Giorgia , Galimi Francesco , Lauricella Calogero , Zanon Carlo , Perera Timothy , Veronese Silvio , Corti Giorgio , Amatu Alessio , Gambacorta Marcello , Diaz Luis A. , Sausen Mark , Velculescu Victor E. , Comoglio Paolo , Trusolino Livio , Di Nicolantonio Federica , Giordano Silvia , Siena Salvatore
Published: April 2023

Supplementary Figure S3 - PDF file 123K, Schematic representation of the PCR based strategy used to detect the locus-specific rearrangement associated to MET amplification in samples from patient #3 and identification of MET amplification in circulating tumor DNA during anti-EGFR therapy
Supplementary Figure 5 from The OPCML Tumor Suppressor Functions as a Cell Surface Repressor–Adaptor, Negatively Regulating Receptor Tyrosine Kinases in Epithelial Ovarian Cancer
Authors: McKie Arthur B. , Vaughan Sebastian , Zanini Elisa , Okon Imoh S. , Louis Louay , de Sousa Camila , Greene Mark I. , Wang Qiang , Agarwal Roshan , Shaposhnikov Dmitry , Wong Joshua L. C. , Gungor Hatice , Janczar Szymon , El-Bahrawy Mona , Lam Eric W-F. , Chayen Naomi E. , Gabra Hani
Published: April 2023

PDF file - 86K
Supplementary Figure S2 from Amplification of the MET Receptor Drives Resistance to Anti-EGFR Therapies in Colorectal Cancer
Authors: Bardelli Alberto , Corso Simona , Bertotti Andrea , Hobor Sebastijan , Valtorta Emanuele , Siravegna Giulia , Sartore-Bianchi Andrea , Scala Elisa , Cassingena Andrea , Zecchin Davide , Apicella Maria , Migliardi Giorgia , Galimi Francesco , Lauricella Calogero , Zanon Carlo , Perera Timothy , Veronese Silvio , Corti Giorgio , Amatu Alessio , Gambacorta Marcello , Diaz Luis A. , Sausen Mark , Velculescu Victor E. , Comoglio Paolo , Trusolino Livio , Di Nicolantonio Federica , Giordano Silvia , Siena Salvatore
Published: April 2023

Supplementary Figure S2 - PDF file 80K, Schematic representation of the PCR based strategy used to detect the locus-specific rearrangement associated to MET amplification in samples from patient #2
Supplementary Figure S1 from Amplification of the MET Receptor Drives Resistance to Anti-EGFR Therapies in Colorectal Cancer
Authors: Bardelli Alberto , Corso Simona , Bertotti Andrea , Hobor Sebastijan , Valtorta Emanuele , Siravegna Giulia , Sartore-Bianchi Andrea , Scala Elisa , Cassingena Andrea , Zecchin Davide , Apicella Maria , Migliardi Giorgia , Galimi Francesco , Lauricella Calogero , Zanon Carlo , Perera Timothy , Veronese Silvio , Corti Giorgio , Amatu Alessio , Gambacorta Marcello , Diaz Luis A. , Sausen Mark , Velculescu Victor E. , Comoglio Paolo , Trusolino Livio , Di Nicolantonio Federica , Giordano Silvia , Siena Salvatore
Published: April 2023

Supplementary Figure S1 - PDF file 158K, MET is not overexpressed in tumors which display KRAS mutations as a mechanism of secondary resistance to EGFR targeted monoclonal antibodies
Supplementary Figure Legend from Amplification of the MET Receptor Drives Resistance to Anti-EGFR Therapies in Colorectal Cancer
Authors: Bardelli Alberto , Corso Simona , Bertotti Andrea , Hobor Sebastijan , Valtorta Emanuele , Siravegna Giulia , Sartore-Bianchi Andrea , Scala Elisa , Cassingena Andrea , Zecchin Davide , Apicella Maria , Migliardi Giorgia , Galimi Francesco , Lauricella Calogero , Zanon Carlo , Perera Timothy , Veronese Silvio , Corti Giorgio , Amatu Alessio , Gambacorta Marcello , Diaz Luis A. , Sausen Mark , Velculescu Victor E. , Comoglio Paolo , Trusolino Livio , Di Nicolantonio Federica , Giordano Silvia , Siena Salvatore
Published: April 2023

Legend to Supplementary Figures - PDF file 72K, Legend to Supplementary Figures
Supplementary Table 4 from Histone H3.3 Mutations Drive Pediatric Glioblastoma through Upregulation of MYCN
Authors: Bjerke Lynn , Mackay Alan , Nandhabalan Meera , Burford Anna , Jury Alexa , Popov Sergey , Bax Dorine A. , Carvalho Diana , Taylor Kathryn R. , Vinci Maria , Bajrami Ilirjana , McGonnell Imelda M. , Lord Christopher J. , Reis Rui M. , Hargrave Darren , Ashworth Alan , Workman Paul , Jones Chris
Published: April 2023

PDF file - 32K, Paediatric GBM tissue microarray samples.
Supplementary Figure 3 from Temporal Dissection of Tumorigenesis in Primary Cancers
Authors: Durinck Steffen , Ho Christine , Wang Nicholas J. , Liao Wilson , Jakkula Lakshmi R. , Collisson Eric A. , Pons Jennifer , Chan Sai-Wing , Lam Ernest T. , Chu Catherine , Park Kyunghee , Hong Sung-woo , Hur Joe S. , Huh Nam , Neuhaus Isaac M. , Yu Siegrid S. , Grekin Roy C. , Mauro Theodora M. , Cleaver James E. , Kwok Pui-Yan , LeBoit Philip E. , Getz Gad , Cibulskis Kristian , Aster Jon C. , Huang Haiyan , Purdom Elizabeth , Li Jian , Bolund Lars , Arron Sarah T. , Gray Joe W. , Spellman Paul T. , Cho Raymond J.
Published: April 2023

Supplementary Figure 3 from Temporal Dissection of Tumorigenesis in Primary Cancers
Supplementary Figure 6 from Autophagy Is Critical for Pancreatic Tumor Growth and Progression in Tumors with p53 Alterations
Authors: Yang Annan , Rajeshkumar N.V. , Wang Xiaoxu , Yabuuchi Shinichi , Alexander Brian M. , Chu Gerald C. , Von Hoff Daniel D. , Maitra Anirban , Kimmelman Alec C.
Published: April 2023

PDF file - 239KB, Western blot showed inhibition of autophagy in Atg5 and Atg7 knockdown cell lines.
Supplementary Data from Restricted Expression of miR-30c-2-3p and miR-30a-3p in Clear Cell Renal Cell Carcinomas Enhances HIF2α Activity
Authors: Mathew Lijoy K. , Lee Samuel S. , Skuli Nicolas , Rao Shilpa , Keith Brian , Nathanson Katherine L. , Lal Priti , Simon M. Celeste
Published: April 2023

PDF file 162K, Methods and supplementary figure legends
Figure S6 from Restricted Expression of miR-30c-2-3p and miR-30a-3p in Clear Cell Renal Cell Carcinomas Enhances HIF2α Activity
Authors: Mathew Lijoy K. , Lee Samuel S. , Skuli Nicolas , Rao Shilpa , Keith Brian , Nathanson Katherine L. , Lal Priti , Simon M. Celeste
Published: April 2023

PDF file 463K, Cell survival is reduced upon increased miR-30c-2-3p expression in RCC cells
Figure S3 from Restricted Expression of miR-30c-2-3p and miR-30a-3p in Clear Cell Renal Cell Carcinomas Enhances HIF2α Activity
Authors: Mathew Lijoy K. , Lee Samuel S. , Skuli Nicolas , Rao Shilpa , Keith Brian , Nathanson Katherine L. , Lal Priti , Simon M. Celeste
Published: April 2023

PDF file 123K, Regulation of HIF2? by miR-30c-2-3p and miR-30a-3p in ccRCCs
Supplementary Figure S1 from EPHA2 Is a Mediator of Vemurafenib Resistance and a Novel Therapeutic Target in Melanoma
Authors: Miao Benchun , Ji Zhenyu , Tan Li , Taylor Michael , Zhang Jianming , Choi Hwan Geun , Frederick Dennie T. , Kumar Raj , Wargo Jennifer A. , Flaherty Keith T. , Gray Nathanael S. , Tsao Hensin
Published: April 2023

Supplementary Figure S1. Survival Curves for VEM resistant lines.
Supplementary Figure and Table Legends from A Diverse Array of Cancer-Associated MTOR Mutations Are Hyperactivating and Can Predict Rapamycin Sensitivity
Authors: Grabiner Brian C. , Nardi Valentina , Birsoy Kıvanç , Possemato Richard , Shen Kuang , Sinha Sumi , Jordan Alexander , Beck Andrew H. , Sabatini David M.
Published: April 2023

PDF file 82K, Supplementary Figure and Table Legends
Supplementary Table S3 from RNA Helicase A Is a Downstream Mediator of KIF1Bβ Tumor-Suppressor Function in Neuroblastoma
Authors: Chen Zhi Xiong , Wallis Karin , Fell Stuart M. , Sobrado Veronica R. , Hemmer Marie C. , Ramsköld Daniel , Hellman Ulf , Sandberg Rickard , Kenchappa Rajappa S. , Martinson Tommy , Johnsen John I. , Kogner Per , Schlisio Susanne
Published: April 2023

PDF file 95K, Table S3, related to Figure 7 Neuroblastoma data on stage, outcome, MYCN, 1p-status, genomic profile group, KIF1B mutation report and KIF1Bbeta and DHX9 expression
Supplementary Table 1 from Autophagy Is Required for Glucose Homeostasis and Lung Tumor Maintenance
Authors: Karsli-Uzunbas Gizem , Guo Jessie Yanxiang , Price Sandy , Teng Xin , Laddha Saurabh V , Khor Sinan , Kalaany Nada Y. , Jacks Tyler , Chan Chang S. , Rabinowitz Joshua D. , White Eileen
Published: April 2023

PDF file - 145KB, Differential expression analysis for significant biological processes by GO term DAVID Analysis for liver tissues during fasting.
Supplementary Figure 2 from Mcl-1 and FBW7 Control a Dominant Survival Pathway Underlying HDAC and Bcl-2 Inhibitor Synergy in Squamous Cell Carcinoma
Authors: He Lei , Torres-Lockhart Kristine , Forster Nicole , Ramakrishnan Saranya , Greninger Patricia , Garnett Mathew J. , McDermott Ultan , Rothenberg Stephen M. , Benes Cyril H. , Ellisen Leif W.
Published: April 2023

Supplementary Figure 2 PDF file 74K, Mcl-1 is essential for cell survival in SCC cells and vorinostat induces redistribution of Bim from Mcl-1 to Bcl-2/Bcl-xl
Supplementary Figure 1 from Mcl-1 and FBW7 Control a Dominant Survival Pathway Underlying HDAC and Bcl-2 Inhibitor Synergy in Squamous Cell Carcinoma
Authors: He Lei , Torres-Lockhart Kristine , Forster Nicole , Ramakrishnan Saranya , Greninger Patricia , Garnett Mathew J. , McDermott Ultan , Rothenberg Stephen M. , Benes Cyril H. , Ellisen Leif W.
Published: April 2023

Supplementary Figure 1 PDF file 140K, Vorinostat induces apoptosis and alters gene expression of Bcl-2 family members in different SCC cell lines
Supplementary Figures 1 - 15, Tables 1 - 2 from JAK–STAT Pathway Activation in Malignant and Nonmalignant Cells Contributes to MPN Pathogenesis and Therapeutic Response
Authors: Kleppe Maria , Kwak Minsuk , Koppikar Priya , Riester Markus , Keller Matthew , Bastian Lennart , Hricik Todd , Bhagwat Neha , McKenney Anna Sophia , Papalexi Efthymia , Abdel-Wahab Omar , Rampal Raajit , Marubayashi Sachie , Chen Jonathan J. , Romanet Vincent , Fridman Jordan S. , Bromberg Jacqueline , Teruya-Feldstein Julie , Murakami Masato , Radimerski Thomas , Michor Franziska , Fan Rong , Levine Ross L.
Published: April 2023

Supplementary Figure 1. Pro-inflammatory cytokines are elevated in MF mice and reversed with JAK inhibitor treatment. Supplementary Figure 2. Principal component analysis of MF cells. Supplementary Figure 3. Single cell analysis of immunophenotypically-defined subpopulations from MF and control mice. Supplementary Figure 4. Elevated IL8 expression in MF patients. Supplementary Figure 5. Complete removal of Il6 from the mouse system shows only minor effects on MPLW515L disease. Supplementary Figure 6. Peripheral blood and cytometric flow analysis of MPLW515L transplanted mice with and without Stat3 deletion. Supplementary Figure 7. Constitutive activation of STAT3 in the BM of MPLW515L mice and primary MF patients. Supplementary Figure 8. Schematic illustration of bone marrow transplantation experiments using Stat3-deficient mice or littermate control mice as donors. Supplementary Figure 9. Excision of Stat3 post engraftment prolongs survival and reduces leukocytosis. Supplementary Figure 10. Mutant-restricted deletion of Stat3 does not affect disease severity in vivo. Supplementary Figure 11. Single cell analysis of populations from MF and control mice. Supplementary Figure 12. Mutant and non-mutant hematopoietic cells feature a higher percentage of cytokine secreting cells. Supplementary Figure 13. Single cell analysis of populations from Jak2V617F MF and control mice. Supplementary Figure 14. Mutant and non-mutant hematopoietic cells feature a higher percentage of cytokine secreting cells. Supplementary Figure 15. JAK1/2 inhibition reduces cytokine expression from CD45.1-positive wild-type cells and CD45.2-positive mutant cell population. Supplementary Table 1. Primary myelofibrosis patient characteristics. Supplementary Table 2. Genetic alterations of patient PMF#11.
Supplementary Table S1A - S1B from Comprehensive Genomic Profiling of Pancreatic Acinar Cell Carcinomas Identifies Recurrent RAF Fusions and Frequent Inactivation of DNA Repair Genes
Authors: Chmielecki Juliann , Hutchinson Katherine E. , Frampton Garrett M. , Chalmers Zachary R. , Johnson Adrienne , Shi Chanjuan , Elvin Julia , Ali Siraj M. , Ross Jeffrey S. , Basturk Olca , Balasubramanian Sohail , Lipson Doron , Yelensky Roman , Pao William , Miller Vincent A. , Klimstra David S. , Stephens Philip J.
Published: April 2023

Supplementary Table S1A: Genes analyzed for base substitutions, short insertions/deletions, and copy number alterations (DNA). Supplementary Table S1B: Genes analyzed for rearrangements (DNA).
Supplementary Data Figure 6 from Molecular Profiling of the Residual Disease of Triple-Negative Breast Cancers after Neoadjuvant Chemotherapy Identifies Actionable Therapeutic Targets
Authors: Balko Justin M. , Giltnane Jennifer M. , Wang Kai , Schwarz Luis J. , Young Christian D. , Cook Rebecca S. , Owens Phillip , Sanders Melinda E. , Kuba Maria G. , Sánchez Violeta , Kurupi Richard , Moore Preston D. , Pinto Joseph A. , Doimi Franco D. , Gómez Henry , Horiuchi Dai , Goga Andrei , Lehmann Brian D. , Bauer Joshua A. , Pietenpol Jennifer A. , Ross Jeffrey S. , Palmer Gary A. , Yelensky Roman , Cronin Maureen , Miller Vincent A. , Stephens Phillip J. , Arteaga Carlos L.
Published: April 2023

PDF file 1474K, MEK activity is required for MYC-induced soft agar colony formation
Supplementary Data Figure 3 from Molecular Profiling of the Residual Disease of Triple-Negative Breast Cancers after Neoadjuvant Chemotherapy Identifies Actionable Therapeutic Targets
Authors: Balko Justin M. , Giltnane Jennifer M. , Wang Kai , Schwarz Luis J. , Young Christian D. , Cook Rebecca S. , Owens Phillip , Sanders Melinda E. , Kuba Maria G. , Sánchez Violeta , Kurupi Richard , Moore Preston D. , Pinto Joseph A. , Doimi Franco D. , Gómez Henry , Horiuchi Dai , Goga Andrei , Lehmann Brian D. , Bauer Joshua A. , Pietenpol Jennifer A. , Ross Jeffrey S. , Palmer Gary A. , Yelensky Roman , Cronin Maureen , Miller Vincent A. , Stephens Phillip J. , Arteaga Carlos L.
Published: April 2023

PDF file 77K, Association of gene alterations with gene expression
Supplementary Figure 2 from Active CREB1 Promotes a Malignant TGFβ2 Autocrine Loop in Glioblastoma
Authors: Rodón Laura , Gonzàlez-Juncà Alba , del Mar Inda María , Sala-Hojman Ada , Martínez-Sáez Elena , Seoane Joan
Published: April 2023

A graph showing the quantification of tumor growth in GBM PDX models expressing shCREB1.
Supplementary Table 2 from Canonical Wnt/β-catenin Signaling Drives Human Schwann Cell Transformation, Progression, and Tumor Maintenance
Authors: Watson Adrienne L. , Rahrmann Eric P. , Moriarity Branden S. , Choi Kwangmin , Conboy Caitlin B. , Greeley Andrew D. , Halfond Amanda L. , Anderson Leah K. , Wahl Brian R. , Keng Vincent W. , Rizzardi Anthony E. , Forster Colleen L. , Collins Margaret H. , Sarver Aaron L. , Wallace Margaret R. , Schmechel Stephen C. , Ratner Nancy , Largaespada David A.
Published: April 2023

Supplementary Table 2 - PDF 69K, QPCR primer sequences
Supplementary Figure S3 from Lysine Demethylase KDM4A Associates with Translation Machinery and Regulates Protein Synthesis
Authors: Van Rechem Capucine , Black Joshua C. , Boukhali Myriam , Aryee Martin J. , Gräslund Susanne , Haas Wilhelm , Benes Cyril H. , Whetstine Johnathan R.
Published: April 2023

Supplementary Figure S3. JIB-04 inhibits translation initiation.
Supplementary Figure 3 from Canonical Wnt/β-catenin Signaling Drives Human Schwann Cell Transformation, Progression, and Tumor Maintenance
Authors: Watson Adrienne L. , Rahrmann Eric P. , Moriarity Branden S. , Choi Kwangmin , Conboy Caitlin B. , Greeley Andrew D. , Halfond Amanda L. , Anderson Leah K. , Wahl Brian R. , Keng Vincent W. , Rizzardi Anthony E. , Forster Colleen L. , Collins Margaret H. , Sarver Aaron L. , Wallace Margaret R. , Schmechel Stephen C. , Ratner Nancy , Largaespada David A.
Published: April 2023

Supplementary Figure 3 - PDF file 85K, Knockdown of β-catenin or TNKS and overexpression of GSK3B results in decreased Wnt signaling in MPNST cell lines
Supplementary Figure 1 from Canonical Wnt/β-catenin Signaling Drives Human Schwann Cell Transformation, Progression, and Tumor Maintenance
Authors: Watson Adrienne L. , Rahrmann Eric P. , Moriarity Branden S. , Choi Kwangmin , Conboy Caitlin B. , Greeley Andrew D. , Halfond Amanda L. , Anderson Leah K. , Wahl Brian R. , Keng Vincent W. , Rizzardi Anthony E. , Forster Colleen L. , Collins Margaret H. , Sarver Aaron L. , Wallace Margaret R. , Schmechel Stephen C. , Ratner Nancy , Largaespada David A.
Published: April 2023

Supplementary Figure 1 - PDF file 141K, Human tissue microarray shows that C-MYC staining intensity increases with tumor progression
Supplementary Figure Legends from The p53 Target Gene SIVA Enables Non–Small Cell Lung Cancer Development
Authors: Van Nostrand Jeanine L. , Brisac Alice , Mello Stephano S. , Jacobs Suzanne B.R. , Luong Richard , Attardi Laura D.
Published: April 2023

Supplementary Figure Legends
Supplementary Figure 4 from The p53 Target Gene SIVA Enables Non–Small Cell Lung Cancer Development
Authors: Van Nostrand Jeanine L. , Brisac Alice , Mello Stephano S. , Jacobs Suzanne B.R. , Luong Richard , Attardi Laura D.
Published: April 2023

Siva loss does not affect NFkappaB signaling.
Supplementary Figure 3 from The p53 Target Gene SIVA Enables Non–Small Cell Lung Cancer Development
Authors: Van Nostrand Jeanine L. , Brisac Alice , Mello Stephano S. , Jacobs Suzanne B.R. , Luong Richard , Attardi Laura D.
Published: April 2023

Siva knockdown does not induce apoptosis.
Supplementary Figure 2 from The p53 Target Gene SIVA Enables Non–Small Cell Lung Cancer Development
Authors: Van Nostrand Jeanine L. , Brisac Alice , Mello Stephano S. , Jacobs Suzanne B.R. , Luong Richard , Attardi Laura D.
Published: April 2023

Siva loss does not affect proliferation in non-lung cancer cell lines.
Supplementary Figure 1 from The p53 Target Gene SIVA Enables Non–Small Cell Lung Cancer Development
Authors: Van Nostrand Jeanine L. , Brisac Alice , Mello Stephano S. , Jacobs Suzanne B.R. , Luong Richard , Attardi Laura D.
Published: April 2023

Siva heterozygous mice display reduced tumor number and tumor burden.
Supplementary Figure 1 from Targeted Inhibition of the Molecular Chaperone Hsp90 Overcomes ALK Inhibitor Resistance in Non–Small Cell Lung Cancer
Authors: Sang Jim , Acquaviva Jaime , Friedland Julie C. , Smith Donald L. , Sequeira Manuel , Zhang Chaohua , Jiang Qin , Xue Liquan , Lovly Christine M. , Jimenez John-Paul , Shaw Alice T. , Doebele Robert C. , He Suqin , Bates Richard C. , Camidge D. Ross , Morris Stephan W. , El-Hariry Iman , Proia David A.
Published: April 2023

PDF file - 251K, Chemical structures of ganetespib and crizotinib.
Supplementary Methods from SPSB1 Promotes Breast Cancer Recurrence by Potentiating c-MET Signaling
Authors: Feng Yi , Pan Tien-Chi , Pant Dhruv K. , Chakrabarti Kristi R. , Alvarez James V. , Ruth Jason R. , Chodosh Lewis A.
Published: April 2023

PDF file 70K, This file contains detailed information about the experimental procedures and the reagents used in the assays described in the manuscript
Supplementary Figure Legend from SPSB1 Promotes Breast Cancer Recurrence by Potentiating c-MET Signaling
Authors: Feng Yi , Pan Tien-Chi , Pant Dhruv K. , Chakrabarti Kristi R. , Alvarez James V. , Ruth Jason R. , Chodosh Lewis A.
Published: April 2023

PDF file 49K, This file contains text descriptions for each corresponding supplemental figures
Supplementary Methods, Figure Legends, Table Legend from EGFR Kinase Domain Duplication (EGFR-KDD) Is a Novel Oncogenic Driver in Lung Cancer That Is Clinically Responsive to Afatinib
Authors: Gallant Jean-Nicolas , Sheehan Jonathan H. , Shaver Timothy M. , Bailey Mark , Lipson Doron , Chandramohan Raghu , Brewer Monica Red , York Sally J. , Kris Mark G. , Pietenpol Jennifer A. , Ladanyi Marc , Miller Vincent A. , Ali Siraj M. , Meiler Jens , Lovly Christine M.
Published: April 2023

This document contains Supplementary Methods, Supplementary Figure Legends, and Supplementary Table Legend.
Supplementary Figures 1 - 6, Table 1 from EGFR Kinase Domain Duplication (EGFR-KDD) Is a Novel Oncogenic Driver in Lung Cancer That Is Clinically Responsive to Afatinib
Authors: Gallant Jean-Nicolas , Sheehan Jonathan H. , Shaver Timothy M. , Bailey Mark , Lipson Doron , Chandramohan Raghu , Brewer Monica Red , York Sally J. , Kris Mark G. , Pietenpol Jennifer A. , Ladanyi Marc , Miller Vincent A. , Ali Siraj M. , Meiler Jens , Lovly Christine M.
Published: April 2023

This document contains Supplementary Figures 1-6 and Supplementary Table 1. Supplementary Figure 1. Sequencing reads of EGFR-KDD in index patient with lung adenocarcinoma. Supplementary Figure 2. cDNA sequence of EGFR-KDD. Supplementary Figure 3. Sequencing reads identifying EGFR-KDD in a lung adenocarcinoma tumor from The Cancer Genome Atlas. Supplementary Figure 4. Autophosphorylation of endogenous EGFR-KDD in A1235 cells. Supplementary Figure 5. Colony formation of NR6 cells expressing EGFR variants. Supplementary Figure 6. Efficacy of EGFR TKIs in endogenous and ectopic models of the EGFR-KDD. Supplementary Table 1. Results of MTT curve fitting from Prism.
Supplementary Table 1 from p38MAPK Plays a Crucial Role in Stromal-Mediated Tumorigenesis
Authors: Alspach Elise , Flanagan Kevin C. , Luo Xianmin , Ruhland Megan K. , Huang Hui , Pazolli Ermira , Donlin Maureen J. , Marsh Timothy , Piwnica-Worms David , Monahan Joseph , Novack Deborah V. , McAllister Sandra S. , Stewart Sheila A.
Published: April 2023

PDF file 401K, List of p38MAPK-dependent SASP factors and their overlap with publically available expression analyses from breast cancer-associated microenvironments
Supplementary Figure Legends from p38MAPK Plays a Crucial Role in Stromal-Mediated Tumorigenesis
Authors: Alspach Elise , Flanagan Kevin C. , Luo Xianmin , Ruhland Megan K. , Huang Hui , Pazolli Ermira , Donlin Maureen J. , Marsh Timothy , Piwnica-Worms David , Monahan Joseph , Novack Deborah V. , McAllister Sandra S. , Stewart Sheila A.
Published: April 2023

PDF file 62K, legends for supplemental figures
Supplementary Figure 3 from p38MAPK Plays a Crucial Role in Stromal-Mediated Tumorigenesis
Authors: Alspach Elise , Flanagan Kevin C. , Luo Xianmin , Ruhland Megan K. , Huang Hui , Pazolli Ermira , Donlin Maureen J. , Marsh Timothy , Piwnica-Worms David , Monahan Joseph , Novack Deborah V. , McAllister Sandra S. , Stewart Sheila A.
Published: April 2023

PDF file 229K, qRT-PCR validation of RNA-seq analysis and TNFalpha ELISA on p38i treated mice
Supplementary Figure Legends from Autophagy Inhibition Improves Chemosensitivity in BRAFV600E Brain Tumors
Authors: Levy Jean M. Mulcahy , Thompson Joshua C. , Griesinger Andrea M. , Amani Vladimir , Donson Andrew M. , Birks Diane K. , Morgan Michael J. , Mirsky David M. , Handler Michael H. , Foreman Nicholas K. , Thorburn Andrew
Published: April 2023

PDF file 186K, Figures legends for supplementary data figures
Supplementary Figure 6 from Autophagy Inhibition Improves Chemosensitivity in BRAFV600E Brain Tumors
Authors: Levy Jean M. Mulcahy , Thompson Joshua C. , Griesinger Andrea M. , Amani Vladimir , Donson Andrew M. , Birks Diane K. , Morgan Michael J. , Mirsky David M. , Handler Michael H. , Foreman Nicholas K. , Thorburn Andrew
Published: April 2023

PDF file 2464K, Timeline of treatments and clinical responses
Supplemental Tables S1 - S7 from Harnessing Connectivity in a Large-Scale Small-Molecule Sensitivity Dataset
Authors: Seashore-Ludlow Brinton , Rees Matthew G. , Cheah Jaime H. , Cokol Murat , Price Edmund V. , Coletti Matthew E. , Jones Victor , Bodycombe Nicole E. , Soule Christian K. , Gould Joshua , Alexander Benjamin , Li Ava , Montgomery Philip , Wawer Mathias J. , Kuru Nurdan , Kotz Joanne D. , Hon C. Suk-Yee , Munoz Benito , Liefeld Ted , Dančík Vlado , Bittker Joshua A. , Palmer Michelle , Bradner James E. , Shamji Alykhan F. , Clemons Paul A. , Schreiber Stuart L.
Published: April 2023

Supplemental Table S1. Small-molecule Informer Set Description of the small-molecule informer set used in the sensitivity profiling experiment, including protein target or activity. Supplemental Table S2.Cancer cell-line panel Description of the cancer cell lines profiled in this experiment; for a clarification of growth media compositions, see Supplemental Table S10. Supplemental Table S3. Area-under-sensitivity-curve values Area-under-sensitivity-curve (AUC) values for each compound-cell line pair using the indices provided in Supplemental Table S1 and Supplemental Table S2. Supplemental Table S4. Compound target annotations. Compound target annotations used for ACME analysis of the compound dendrogram. Supplemental Table S5. Cellular feature annotations Cellular feature annotations used for ACME analysis of the cell-line dendrogram. Supplemental Table S6. Cell-line mutation annotations Mutation annotations of the cancer cell lines used in ACME analysis of the cell-line dendrogram. Supplemental Table S7. ACME results table Results of ACME analysis of sensitivity profiling data.
Supplementary Figure 2 from Autophagy Inhibition Improves Chemosensitivity in BRAFV600E Brain Tumors
Authors: Levy Jean M. Mulcahy , Thompson Joshua C. , Griesinger Andrea M. , Amani Vladimir , Donson Andrew M. , Birks Diane K. , Morgan Michael J. , Mirsky David M. , Handler Michael H. , Foreman Nicholas K. , Thorburn Andrew
Published: April 2023

PDF file 117K,Propidium idodide results and western blot analysis
Supplementary Figure 1 from Rare Mutations in RINT1 Predispose Carriers to Breast and Lynch Syndrome–Spectrum Cancers
Authors: Park Daniel J. , Tao Kayoko , Le Calvez-Kelm Florence , Nguyen-Dumont Tu , Robinot Nivonirina , Hammet Fleur , Odefrey Fabrice , Tsimiklis Helen , Teo Zhi L. , Thingholm Louise B. , Young Erin L. , Voegele Catherine , Lonie Andrew , Pope Bernard J. , Roane Terrell C. , Bell Russell , Hu Hao , Huff Chad D. , Ellis Jonathan , Li Jun , Makunin Igor V. , John Esther M. , Andrulis Irene L. , Terry Mary B. , Daly Mary , Buys Saundra S. , Snyder Carrie , Lynch Henry T. , Devilee Peter , Giles Graham G. , Hopper John L. , Feng Bing-Jian , Lesueur Fabienne , Tavtigian Sean V. , Southey Melissa C. , Goldgar David E.
Published: April 2023

PDF file 199K, RINT1 c.1334-5delA, c.1334-1_1335delGTT minigene assay
Supplementary Figure 4 from A Small-Molecule c-Rel Inhibitor Reduces Alloactivation of T Cells without Compromising Antitumor Activity
Authors: Shono Yusuke , Tuckett Andrea Z. , Ouk Samedy , Liou Hsiou-Chi , Altan-Bonnet Grégoire , Tsai Jennifer J. , Oyler Jennifer E. , Smith Odette M. , West Mallory L. , Singer Natalie V. , Doubrovina Ekaterina , Pankov Dmitry , Undhad Chandresh V. , Murphy George F. , Lezcano Cecilia , Liu Chen , O'Reilly Richard J. , van den Brink Marcel R.M. , Zakrzewski Johannes L.
Published: April 2023

PDF file 96K, Pre-treatment of donor T-cells with a c-Rel antagonist promotes IL-2 secretion in vivo
Table S3 from Mechanism-Based Epigenetic Chemosensitization Therapy of Diffuse Large B-Cell Lymphoma
Authors: Clozel Thomas , Yang ShaoNing , Elstrom Rebecca L. , Tam Wayne , Martin Peter , Kormaksson Matthias , Banerjee Samprit , Vasanthakumar Aparna , Culjkovic Biljana , Scott David W. , Wyman Sarah , Leser Micheal , Shaknovich Rita , Chadburn Amy , Tabbo Fabrizio , Godley Lucy A. , Gascoyne Randy D. , Borden Katherine L. , Inghirami Giorgio , Leonard John P. , Melnick Ari , Cerchietti Leandro
Published: April 2023

Table S3 - PDF file 138K, mRNA qPCR and SMAD1 massARRAY primer
Supplementary Tables S1-S10 from Comprehensive Genomic Analysis of Rhabdomyosarcoma Reveals a Landscape of Alterations Affecting a Common Genetic Axis in Fusion-Positive and Fusion-Negative Tumors
Authors: Shern Jack F. , Chen Li , Chmielecki Juliann , Wei Jun S. , Patidar Rajesh , Rosenberg Mara , Ambrogio Lauren , Auclair Daniel , Wang Jianjun , Song Young K. , Tolman Catherine , Hurd Laura , Liao Hongling , Zhang Shile , Bogen Dominik , Brohl Andrew S. , Sindiri Sivasish , Catchpoole Daniel , Badgett Thomas , Getz Gad , Mora Jaume , Anderson James R. , Skapek Stephen X. , Barr Frederic G. , Meyerson Matthew , Hawkins Douglas S. , Khan Javed
Published: April 2023

XLSX file 2844K, Supplementary Tables S1-S10
Table S1 from Mechanism-Based Epigenetic Chemosensitization Therapy of Diffuse Large B-Cell Lymphoma
Authors: Clozel Thomas , Yang ShaoNing , Elstrom Rebecca L. , Tam Wayne , Martin Peter , Kormaksson Matthias , Banerjee Samprit , Vasanthakumar Aparna , Culjkovic Biljana , Scott David W. , Wyman Sarah , Leser Micheal , Shaknovich Rita , Chadburn Amy , Tabbo Fabrizio , Godley Lucy A. , Gascoyne Randy D. , Borden Katherine L. , Inghirami Giorgio , Leonard John P. , Melnick Ari , Cerchietti Leandro
Published: April 2023

Table S1 - PDF file 71K, Chemosensitivity and characteristics of DLBCL cell lines
Supplementary Figure S8 from Comprehensive Genomic Analysis of Rhabdomyosarcoma Reveals a Landscape of Alterations Affecting a Common Genetic Axis in Fusion-Positive and Fusion-Negative Tumors
Authors: Shern Jack F. , Chen Li , Chmielecki Juliann , Wei Jun S. , Patidar Rajesh , Rosenberg Mara , Ambrogio Lauren , Auclair Daniel , Wang Jianjun , Song Young K. , Tolman Catherine , Hurd Laura , Liao Hongling , Zhang Shile , Bogen Dominik , Brohl Andrew S. , Sindiri Sivasish , Catchpoole Daniel , Badgett Thomas , Getz Gad , Mora Jaume , Anderson James R. , Skapek Stephen X. , Barr Frederic G. , Meyerson Matthew , Hawkins Douglas S. , Khan Javed
Published: April 2023

PDF file 250K, Recurrent amplicons
Figures S1 - S4 from Mechanism-Based Epigenetic Chemosensitization Therapy of Diffuse Large B-Cell Lymphoma
Authors: Clozel Thomas , Yang ShaoNing , Elstrom Rebecca L. , Tam Wayne , Martin Peter , Kormaksson Matthias , Banerjee Samprit , Vasanthakumar Aparna , Culjkovic Biljana , Scott David W. , Wyman Sarah , Leser Micheal , Shaknovich Rita , Chadburn Amy , Tabbo Fabrizio , Godley Lucy A. , Gascoyne Randy D. , Borden Katherine L. , Inghirami Giorgio , Leonard John P. , Melnick Ari , Cerchietti Leandro
Published: April 2023

Figures S1, S2, S3 and S4 - PDF file 394K, Combinatorial effect of demethylating agents and chemotherapy in cell lines and primary samples
Supplementary Figure S5 from Comprehensive Genomic Analysis of Rhabdomyosarcoma Reveals a Landscape of Alterations Affecting a Common Genetic Axis in Fusion-Positive and Fusion-Negative Tumors
Authors: Shern Jack F. , Chen Li , Chmielecki Juliann , Wei Jun S. , Patidar Rajesh , Rosenberg Mara , Ambrogio Lauren , Auclair Daniel , Wang Jianjun , Song Young K. , Tolman Catherine , Hurd Laura , Liao Hongling , Zhang Shile , Bogen Dominik , Brohl Andrew S. , Sindiri Sivasish , Catchpoole Daniel , Badgett Thomas , Getz Gad , Mora Jaume , Anderson James R. , Skapek Stephen X. , Barr Frederic G. , Meyerson Matthew , Hawkins Douglas S. , Khan Javed
Published: April 2023

PDF file 277K, Expressed mutations summary
Supplementary Figure S4 from Comprehensive Genomic Analysis of Rhabdomyosarcoma Reveals a Landscape of Alterations Affecting a Common Genetic Axis in Fusion-Positive and Fusion-Negative Tumors
Authors: Shern Jack F. , Chen Li , Chmielecki Juliann , Wei Jun S. , Patidar Rajesh , Rosenberg Mara , Ambrogio Lauren , Auclair Daniel , Wang Jianjun , Song Young K. , Tolman Catherine , Hurd Laura , Liao Hongling , Zhang Shile , Bogen Dominik , Brohl Andrew S. , Sindiri Sivasish , Catchpoole Daniel , Badgett Thomas , Getz Gad , Mora Jaume , Anderson James R. , Skapek Stephen X. , Barr Frederic G. , Meyerson Matthew , Hawkins Douglas S. , Khan Javed
Published: April 2023

PDF file 671K, BCOR alterations
Supplementary Figure S2 from Comprehensive Genomic Analysis of Rhabdomyosarcoma Reveals a Landscape of Alterations Affecting a Common Genetic Axis in Fusion-Positive and Fusion-Negative Tumors
Authors: Shern Jack F. , Chen Li , Chmielecki Juliann , Wei Jun S. , Patidar Rajesh , Rosenberg Mara , Ambrogio Lauren , Auclair Daniel , Wang Jianjun , Song Young K. , Tolman Catherine , Hurd Laura , Liao Hongling , Zhang Shile , Bogen Dominik , Brohl Andrew S. , Sindiri Sivasish , Catchpoole Daniel , Badgett Thomas , Getz Gad , Mora Jaume , Anderson James R. , Skapek Stephen X. , Barr Frederic G. , Meyerson Matthew , Hawkins Douglas S. , Khan Javed
Published: April 2023

PDF file 1573K, Loss of heterozygosity across RMS tumor samples.
Supplementary Table S8 from Systematic Interrogation of 3q26 Identifies TLOC1 and SKIL as Cancer Drivers
Authors: Hagerstrand Daniel , Tong Alexander , Schumacher Steven E. , Ilic Nina , Shen Rhine R. , Cheung Hiu Wing , Vazquez Francisca , Shrestha Yashaswi , Kim So Young , Giacomelli Andrew O. , Rosenbluh Joseph , Schinzel Anna C. , Spardy Nicole A. , Barbie David A. , Mermel Craig H. , Weir Barbara A. , Garraway Levi A. , Tamayo Pablo , Mesirov Jill P. , Beroukhim Rameen , Hahn William C.
Published: April 2023

Supplementary Table S8 - XLSX file 51K, Primers used for quantitative real time PCR in this study
Supplementary Figure S11 from Comprehensive Genomic Analysis of Rhabdomyosarcoma Reveals a Landscape of Alterations Affecting a Common Genetic Axis in Fusion-Positive and Fusion-Negative Tumors
Authors: Shern Jack F. , Chen Li , Chmielecki Juliann , Wei Jun S. , Patidar Rajesh , Rosenberg Mara , Ambrogio Lauren , Auclair Daniel , Wang Jianjun , Song Young K. , Tolman Catherine , Hurd Laura , Liao Hongling , Zhang Shile , Bogen Dominik , Brohl Andrew S. , Sindiri Sivasish , Catchpoole Daniel , Badgett Thomas , Getz Gad , Mora Jaume , Anderson James R. , Skapek Stephen X. , Barr Frederic G. , Meyerson Matthew , Hawkins Douglas S. , Khan Javed
Published: April 2023

PDF file 1261K, Reverse Transcription PCR of PAX3-FOXO1 in cell line 7250_PF
Supplementary Table S7 from Systematic Interrogation of 3q26 Identifies TLOC1 and SKIL as Cancer Drivers
Authors: Hagerstrand Daniel , Tong Alexander , Schumacher Steven E. , Ilic Nina , Shen Rhine R. , Cheung Hiu Wing , Vazquez Francisca , Shrestha Yashaswi , Kim So Young , Giacomelli Andrew O. , Rosenbluh Joseph , Schinzel Anna C. , Spardy Nicole A. , Barbie David A. , Mermel Craig H. , Weir Barbara A. , Garraway Levi A. , Tamayo Pablo , Mesirov Jill P. , Beroukhim Rameen , Hahn William C.
Published: April 2023

Supplementary Table S7 - XLSX file 61K, List of shRNAs used in this study
Supplementary Figure S10 from Comprehensive Genomic Analysis of Rhabdomyosarcoma Reveals a Landscape of Alterations Affecting a Common Genetic Axis in Fusion-Positive and Fusion-Negative Tumors
Authors: Shern Jack F. , Chen Li , Chmielecki Juliann , Wei Jun S. , Patidar Rajesh , Rosenberg Mara , Ambrogio Lauren , Auclair Daniel , Wang Jianjun , Song Young K. , Tolman Catherine , Hurd Laura , Liao Hongling , Zhang Shile , Bogen Dominik , Brohl Andrew S. , Sindiri Sivasish , Catchpoole Daniel , Badgett Thomas , Getz Gad , Mora Jaume , Anderson James R. , Skapek Stephen X. , Barr Frederic G. , Meyerson Matthew , Hawkins Douglas S. , Khan Javed
Published: April 2023

PDF file 1175K, Determination of a somatic score cutoff for WGS based on the verification by WES
Supplementary Table S6 from Systematic Interrogation of 3q26 Identifies TLOC1 and SKIL as Cancer Drivers
Authors: Hagerstrand Daniel , Tong Alexander , Schumacher Steven E. , Ilic Nina , Shen Rhine R. , Cheung Hiu Wing , Vazquez Francisca , Shrestha Yashaswi , Kim So Young , Giacomelli Andrew O. , Rosenbluh Joseph , Schinzel Anna C. , Spardy Nicole A. , Barbie David A. , Mermel Craig H. , Weir Barbara A. , Garraway Levi A. , Tamayo Pablo , Mesirov Jill P. , Beroukhim Rameen , Hahn William C.
Published: April 2023

Supplementary Table S6 - XLSX file 8K, Primers used for generating TLOC1 truncation mutants
Supplementary Figure S1 from Comprehensive Genomic Analysis of Rhabdomyosarcoma Reveals a Landscape of Alterations Affecting a Common Genetic Axis in Fusion-Positive and Fusion-Negative Tumors
Authors: Shern Jack F. , Chen Li , Chmielecki Juliann , Wei Jun S. , Patidar Rajesh , Rosenberg Mara , Ambrogio Lauren , Auclair Daniel , Wang Jianjun , Song Young K. , Tolman Catherine , Hurd Laura , Liao Hongling , Zhang Shile , Bogen Dominik , Brohl Andrew S. , Sindiri Sivasish , Catchpoole Daniel , Badgett Thomas , Getz Gad , Mora Jaume , Anderson James R. , Skapek Stephen X. , Barr Frederic G. , Meyerson Matthew , Hawkins Douglas S. , Khan Javed
Published: April 2023

PDF file 1441K, Genetic Lesions associated with "Fusion Negative" Alveolar cases
Supplementary Table S4 from Systematic Interrogation of 3q26 Identifies TLOC1 and SKIL as Cancer Drivers
Authors: Hagerstrand Daniel , Tong Alexander , Schumacher Steven E. , Ilic Nina , Shen Rhine R. , Cheung Hiu Wing , Vazquez Francisca , Shrestha Yashaswi , Kim So Young , Giacomelli Andrew O. , Rosenbluh Joseph , Schinzel Anna C. , Spardy Nicole A. , Barbie David A. , Mermel Craig H. , Weir Barbara A. , Garraway Levi A. , Tamayo Pablo , Mesirov Jill P. , Beroukhim Rameen , Hahn William C.
Published: April 2023

Supplementary Table S4 - XLSX file 44K, Proteins that have been reported to associate with the TLOC1 Drosophila melanogaster ortholog Trp1