bluuebunny/crossref_metadata_2025 huggingface dataset:
Table S1 from Results of the ADAPT Phase 3 Study of Rocapuldencel-T in Combination with Sunitinib as First-Line Therapy in Patients with Metastatic Renal Cell Carcinoma
Authors: Figlin Robert A. , Tannir Nizar M. , Uzzo Robert G. , Tykodi Scott S. , Chen David Y.T. , Master Viraj , Kapoor Anil , Vaena Daniel , Lowrance William , Bratslavsky Gennady , DeBenedette Mark , Gamble Alicia , Plachco Ana , Norris Marcus S. , Horvatinovich Joe , Tcherepanova Irina Y. , Nicolette Charles A. , Wood Christopher G.
Published: April 2023

subsequent standard of care treaments
Table S3 from Dual Targeting of CDK4/6 and BCL2 Pathways Augments Tumor Response in Estrogen Receptor–Positive Breast Cancer
Authors: Whittle James R. , Vaillant François , Surgenor Elliot , Policheni Antonia N. , Giner Göknur , Capaldo Bianca D. , Chen Huei-Rong , Liu He K. , Dekkers Johanna F. , Sachs Norman , Clevers Hans , Fellowes Andrew , Green Thomas , Xu Huiling , Fox Stephen B. , Herold Marco J. , Smyth Gordon K. , Gray Daniel H.D. , Visvader Jane E. , Lindeman Geoffrey J.
Published: April 2023

Summary of clinical features for patient derived xenograft and patient derived organoids
Table S1 from Dual Targeting of CDK4/6 and BCL2 Pathways Augments Tumor Response in Estrogen Receptor–Positive Breast Cancer
Authors: Whittle James R. , Vaillant François , Surgenor Elliot , Policheni Antonia N. , Giner Göknur , Capaldo Bianca D. , Chen Huei-Rong , Liu He K. , Dekkers Johanna F. , Sachs Norman , Clevers Hans , Fellowes Andrew , Green Thomas , Xu Huiling , Fox Stephen B. , Herold Marco J. , Smyth Gordon K. , Gray Daniel H.D. , Visvader Jane E. , Lindeman Geoffrey J.
Published: April 2023

Differential sgRNA enrichment from CRISPR-Cas9 genome-wide screens
Supplementary video from Deubiquitinase Activity Profiling Identifies UCHL1 as a Candidate Oncoprotein That Promotes TGFβ-Induced Breast Cancer Metastasis
Authors: Liu Sijia , González-Prieto Román , Zhang Mengdi , Geurink Paul P. , Kooij Raymond , Iyengar Prasanna Vasudevan , van Dinther Maarten , Bos Erik , Zhang Xiaobing , Le Dévédec Sylvia E. , van de Water Bob , Koning Roman I. , Zhu Hong-Jian , Mesker Wilma E. , Vertegaal Alfred C.O. , Ovaa Huib , Zhang Long , Martens John W.M. , ten Dijke Peter
Published: April 2023

Supplementary video
Table S5 from Comprehensive Genomic Analysis of Translocation Renal Cell Carcinoma Reveals Copy-Number Variations as Drivers of Disease Progression
Authors: Marcon Julian , DiNatale Renzo G. , Sanchez Alejandro , Kotecha Ritesh R. , Gupta Sounak , Kuo Fengshen , Makarov Vladimir , Sandhu Amar , Mano Roy , Silagy Andrew W. , Blum Kyle A. , Nassau Daniel E. , Benfante Nicole E. , Ortiz Michael V. , Carlo Maria I. , Chan Timothy A. , Motzer Robert J. , Voss Martin H. , Coleman Jonathan , Russo Paul , Reuter Victor , Hakimi A. Ari , Reznik Ed
Published: April 2023

Table S5 contains variables of the univariate survival analysis in MSK-IMPACT and TCGA cohorts
Supplementary tables from Deubiquitinase Activity Profiling Identifies UCHL1 as a Candidate Oncoprotein That Promotes TGFβ-Induced Breast Cancer Metastasis
Authors: Liu Sijia , González-Prieto Román , Zhang Mengdi , Geurink Paul P. , Kooij Raymond , Iyengar Prasanna Vasudevan , van Dinther Maarten , Bos Erik , Zhang Xiaobing , Le Dévédec Sylvia E. , van de Water Bob , Koning Roman I. , Zhu Hong-Jian , Mesker Wilma E. , Vertegaal Alfred C.O. , Ovaa Huib , Zhang Long , Martens John W.M. , ten Dijke Peter
Published: April 2023

Supplementary Table S1-S6.
Table S1 from Comprehensive Genomic Analysis of Translocation Renal Cell Carcinoma Reveals Copy-Number Variations as Drivers of Disease Progression
Authors: Marcon Julian , DiNatale Renzo G. , Sanchez Alejandro , Kotecha Ritesh R. , Gupta Sounak , Kuo Fengshen , Makarov Vladimir , Sandhu Amar , Mano Roy , Silagy Andrew W. , Blum Kyle A. , Nassau Daniel E. , Benfante Nicole E. , Ortiz Michael V. , Carlo Maria I. , Chan Timothy A. , Motzer Robert J. , Voss Martin H. , Coleman Jonathan , Russo Paul , Reuter Victor , Hakimi A. Ari , Reznik Ed
Published: April 2023

Table S1 shows the baseline characteristics of MSK-IMPACT and TCGA cohorts
Supplementary Figure S4 from Deubiquitinase Activity Profiling Identifies UCHL1 as a Candidate Oncoprotein That Promotes TGFβ-Induced Breast Cancer Metastasis
Authors: Liu Sijia , González-Prieto Román , Zhang Mengdi , Geurink Paul P. , Kooij Raymond , Iyengar Prasanna Vasudevan , van Dinther Maarten , Bos Erik , Zhang Xiaobing , Le Dévédec Sylvia E. , van de Water Bob , Koning Roman I. , Zhu Hong-Jian , Mesker Wilma E. , Vertegaal Alfred C.O. , Ovaa Huib , Zhang Long , Martens John W.M. , ten Dijke Peter
Published: April 2023

Supplementary Figure S4. Related to Figure 4. A, UCHL1-TÎ²RI interaction and ubiquitination of TÎ²RI in HEK293T cells that ectopically express UCHL1 with different specific amino acid mutations. IP results were from obtained same blot. Input results were obtained from another blot using the same corresponding cell lysates as for IP. B, UCHL1-SMAD2 interaction and ubiquitination of SMAD2 in HEK293T cells that ectopically express UCHL1 with different specific amino acid mutations. IP results were from obtained same blot. Input results were obtained from another blot using the same corresponding cell lysates as for IP. C, qPCR analysis of TÎ²RI and SMAD2 mRNA expression levels in the presence of cycloheximide in HEK293T cells upon control and UCHL1 overexpression HEK293T cells. D, qPCR analysis of TÎ²RI and SMAD2 mRNA expression levels in the presence of cycloheximide in PLKO and shUCHL1 HEK293T cells. E, In vivo (de)ubiquitination assay of TÎ²RI in K48 or K48R HA-Ub expressing HEK293T cells with WT-UCHL1-myc or control vector overexpression. IP results were obtained from same blot. Input results were from another blot using the same corresponding cell lysates as for IP. F, In vivo (de)ubiquitination assay of SMAD2 in K48 or K48R HA-Ub expressing HEK293T cells with WT-UCHL1-myc or control vector overexpression. IP results were obtained from same blot. Input results were obtained from another blot using the same corresponding cell lysates as for IP. G, In vivo ubiquitination assay of SMAD3 in K48 or K48R HA-Ub expressing HEK293T cells with WT-UCHL1-myc or C90A-UCHL1-myc overexpression. IP results were obtained from same blot. Input results were obtained from another blot using the corresponding cell lysates as for IP. H, In vitro (de)ubiquitination assay of TÎ²RI incubated with recombinant UCHL1 or inactive UCHL1 protein without and with treatment with NEM. All results were obtained from one blot. I, In vitro (de)ubiquitination assay of SMAD2 incubated with recombinant UCHL1 or inactive UCHL1 without and with treatment of NEM. All results were obtained from one blot.
Supplementary Figure S2 from Deubiquitinase Activity Profiling Identifies UCHL1 as a Candidate Oncoprotein That Promotes TGFβ-Induced Breast Cancer Metastasis
Authors: Liu Sijia , González-Prieto Román , Zhang Mengdi , Geurink Paul P. , Kooij Raymond , Iyengar Prasanna Vasudevan , van Dinther Maarten , Bos Erik , Zhang Xiaobing , Le Dévédec Sylvia E. , van de Water Bob , Koning Roman I. , Zhu Hong-Jian , Mesker Wilma E. , Vertegaal Alfred C.O. , Ovaa Huib , Zhang Long , Martens John W.M. , ten Dijke Peter
Published: April 2023

Supplementary Figure S2. Related to Figure 3. A, The UCHL1 activities of MDA-MB-231 cell lines stably transfected with control vector and UCHL1 expression vector were validated by TAMRA ABP assay. Coomassie staining of proteins in SDS-PAGE gel was used as loading controls. Arrowhead on left indicate UCHL1-Flag. TAMRA and Coomassie results were obtained from the same gel. B, Proliferation assay of MDA-MB-231 cell lines stably transfected with control vector and UCHL1 expression vector (as measured by MTS assay). C, Analysis of the UCHL1 activities in MDA-MB-436 cell lines infected with non-targeting (NT), empty vector (PLKO) and sh1-UCHL1 and sh2-UCHL1 lentivirus by TAMRA ABP assay. Coomassie of proteins in SDS-PAGE gel was used as loading control. Arrowhead on left indicates UCHL1. TAMRA and Coomassie results were obtained from the same gel. D, Proliferation assay of NT, PLKO, sh1-UCHL1 and sh2-UCHL1 MDA-MB-436 cell lines (as measured by MTS assay).
Supplementary Figure S3 from Identification of Somatically Acquired BRCA1/2 Mutations by cfDNA Analysis in Patients with Metastatic Breast Cancer
Authors: Vidula Neelima , Dubash Taronish , Lawrence Michael S. , Simoneau Antoine , Niemierko Andrzej , Blouch Erica , Nagy Becky , Roh Whijae , Chirn Brian , Reeves Brittany A. , Malvarosa Giuliana , Lennerz Jochen , Isakoff Steven J. , Juric Dejan , Micalizzi Douglas , Wander Seth , Spring Laura , Moy Beverly , Shannon Kristen , Younger Jerry , Lanman Richard , Toner Mehmet , Iafrate A. John , Getz Gad , Zou Lee , Ellisen Leif W. , Maheswaran Shyamala , Haber Daniel A. , Bardia Aditya
Published: April 2023

MAF of mutations detected
Table S1-S5 from Regulation of eIF4F Translation Initiation Complex by the Peptidyl Prolyl Isomerase FKBP7 in Taxane-resistant Prostate Cancer
Authors: Garrido Marine F. , Martin Nicolas J.-P. , Bertrand Matthieu , Gaudin Catherine , Commo Frédéric , El Kalaany Nassif , Al Nakouzi Nader , Fazli Ladan , Del Nery Elaine , Camonis Jacques , Perez Franck , Lerondel Stéphanie , Le Pape Alain , Compagno Daniel , Gleave Martin , Loriot Yohann , Désaubry Laurent , Vagner Stéphan , Fizazi Karim , Chauchereau Anne
Published: April 2023

Table S1A: Signature of 998 differentially expressed genes between various resistant IGR-CaP1 cells and parental IGR-CaP1 Table S1B: Gene Ontology information on the 998 gene signature Table S2A: List of the 34 upregulated hits from the image-based high-content screen Table S2B: Gene Ontology information about the 34 hits issued from the image-based screen Table S3: Clinical data of patients recruited for tissue microarray (TMA) Table S4A: Specific partners of FKBP7 in RPE-1 cells Table S4B: Specific partners of FKBP7 in IGR-CaP1-Dtx-R cells Table S5A: SILAC on RPE-1 cells. Table S5B: SILAC on IGR-CaP1-Dtx-R cells.
Supplementary Data from Drugs That Modify Cholesterol Metabolism Alter the p38/JNK-Mediated Targeted and Nontargeted Response to Alpha and Auger Radioimmunotherapy
Authors: Ladjohounlou Riad , Lozza Catherine , Pichard Alexandre , Constanzo Julie , Karam Jihad , Le Fur Pierre , Deshayes Emmanuel , Boudousq Vincent , Paillas Salomé , Busson Muriel , Le Blay Marion , Jarlier Marta , Marcatili Sara , Bardiès Manuel , Bruchertseifer Frank , Morgenstern Alfred , Torgue Julien , Navarro-Teulon Isabelle , Pouget Jean-Pierre
Published: April 2023

Supplementary Methodology
Figure S5 from Regulation of eIF4F Translation Initiation Complex by the Peptidyl Prolyl Isomerase FKBP7 in Taxane-resistant Prostate Cancer
Authors: Garrido Marine F. , Martin Nicolas J.-P. , Bertrand Matthieu , Gaudin Catherine , Commo Frédéric , El Kalaany Nassif , Al Nakouzi Nader , Fazli Ladan , Del Nery Elaine , Camonis Jacques , Perez Franck , Lerondel Stéphanie , Le Pape Alain , Compagno Daniel , Gleave Martin , Loriot Yohann , Désaubry Laurent , Vagner Stéphan , Fizazi Karim , Chauchereau Anne
Published: April 2023

FKBP7 silencing effect in non-tumorous cells
Figure S8 from Drugs That Modify Cholesterol Metabolism Alter the p38/JNK-Mediated Targeted and Nontargeted Response to Alpha and Auger Radioimmunotherapy
Authors: Ladjohounlou Riad , Lozza Catherine , Pichard Alexandre , Constanzo Julie , Karam Jihad , Le Fur Pierre , Deshayes Emmanuel , Boudousq Vincent , Paillas Salomé , Busson Muriel , Le Blay Marion , Jarlier Marta , Marcatili Sara , Bardiès Manuel , Bruchertseifer Frank , Morgenstern Alfred , Torgue Julien , Navarro-Teulon Isabelle , Pouget Jean-Pierre
Published: April 2023

SUPPLEMENTARY FIG. S8. In vivo effects of MBCD on tumor growth in mice treated with low activities of 213Bi-anti-MISRII mAb.
Figure S3 from Regulation of eIF4F Translation Initiation Complex by the Peptidyl Prolyl Isomerase FKBP7 in Taxane-resistant Prostate Cancer
Authors: Garrido Marine F. , Martin Nicolas J.-P. , Bertrand Matthieu , Gaudin Catherine , Commo Frédéric , El Kalaany Nassif , Al Nakouzi Nader , Fazli Ladan , Del Nery Elaine , Camonis Jacques , Perez Franck , Lerondel Stéphanie , Le Pape Alain , Compagno Daniel , Gleave Martin , Loriot Yohann , Désaubry Laurent , Vagner Stéphan , Fizazi Karim , Chauchereau Anne
Published: April 2023

FKBP7 silencing and overexpression effect on cell growth and taxane response
Figure S2 from Regulation of eIF4F Translation Initiation Complex by the Peptidyl Prolyl Isomerase FKBP7 in Taxane-resistant Prostate Cancer
Authors: Garrido Marine F. , Martin Nicolas J.-P. , Bertrand Matthieu , Gaudin Catherine , Commo Frédéric , El Kalaany Nassif , Al Nakouzi Nader , Fazli Ladan , Del Nery Elaine , Camonis Jacques , Perez Franck , Lerondel Stéphanie , Le Pape Alain , Compagno Daniel , Gleave Martin , Loriot Yohann , Désaubry Laurent , Vagner Stéphan , Fizazi Karim , Chauchereau Anne
Published: April 2023

FKBP7 upregulation at mRNA and protein levels
Figure S3 from Drugs That Modify Cholesterol Metabolism Alter the p38/JNK-Mediated Targeted and Nontargeted Response to Alpha and Auger Radioimmunotherapy
Authors: Ladjohounlou Riad , Lozza Catherine , Pichard Alexandre , Constanzo Julie , Karam Jihad , Le Fur Pierre , Deshayes Emmanuel , Boudousq Vincent , Paillas Salomé , Busson Muriel , Le Blay Marion , Jarlier Marta , Marcatili Sara , Bardiès Manuel , Bruchertseifer Frank , Morgenstern Alfred , Torgue Julien , Navarro-Teulon Isabelle , Pouget Jean-Pierre
Published: April 2023

SUPPLEMENTARY FIG. S3. DNA double strand break formation in SK-OV-3MISRII and A-431CEA cells after RIT.
Supplementary material 2. from Enhancing Abiraterone Acetate Efficacy in Androgen Receptor–positive Triple-negative Breast Cancer: Chk1 as a Potential Target
Authors: Grellety Thomas , Callens Celine , Richard Elodie , Briaux Adrien , Vélasco Valérie , Pulido Marina , Gonçalves Anthony , Gestraud Pierre , MacGrogan Gaetan , Bonnefoi Hervé , Cardinaud Bruno
Published: April 2023

List of genes used for DNA analyses by Next Generation Sequencing.
Supplementary Data S2 from Integrative Analysis of Multi-omics Data Identified EGFR and PTGS2 as Key Nodes in a Gene Regulatory Network Related to Immune Phenotypes in Head and Neck Cancer
Authors: Feng Bohai , Shen Ying , Pastor Hostench Xavier , Bieg Matthias , Plath Michaela , Ishaque Naveed , Eils Roland , Freier Kolja , Weichert Wilko , Zaoui Karim , Hess Jochen
Published: April 2023

Supplementary Data S2
Supplementary figure S1. from Enhancing Abiraterone Acetate Efficacy in Androgen Receptor–positive Triple-negative Breast Cancer: Chk1 as a Potential Target
Authors: Grellety Thomas , Callens Celine , Richard Elodie , Briaux Adrien , Vélasco Valérie , Pulido Marina , Gonçalves Anthony , Gestraud Pierre , MacGrogan Gaetan , Bonnefoi Hervé , Cardinaud Bruno
Published: April 2023

Flow chart of the sub-study of the UCBG 12-1 trial. AR, androgen receptor; ER, estrogen receptor; PgR, progesterone receptor; AA, abiraterone acetate; TNBC, triple negative breast cancer; TMA, tissue microarray.
Supplemental Figure legends from Integrative Analysis of Multi-omics Data Identified EGFR and PTGS2 as Key Nodes in a Gene Regulatory Network Related to Immune Phenotypes in Head and Neck Cancer
Authors: Feng Bohai , Shen Ying , Pastor Hostench Xavier , Bieg Matthias , Plath Michaela , Ishaque Naveed , Eils Roland , Freier Kolja , Weichert Wilko , Zaoui Karim , Hess Jochen
Published: April 2023

Supplemental Figure legends_revised
Supplemental Figues from Integrative Analysis of Multi-omics Data Identified EGFR and PTGS2 as Key Nodes in a Gene Regulatory Network Related to Immune Phenotypes in Head and Neck Cancer
Authors: Feng Bohai , Shen Ying , Pastor Hostench Xavier , Bieg Matthias , Plath Michaela , Ishaque Naveed , Eils Roland , Freier Kolja , Weichert Wilko , Zaoui Karim , Hess Jochen
Published: April 2023

Supplemental Figues
Supplementary Data from The Splicing Factor PTBP1 Promotes Expression of Oncogenic Splice Variants and Predicts Poor Prognosis in Patients with Non–muscle-Invasive Bladder Cancer
Authors: Bielli Pamela , Panzeri Valentina , Lattanzio Rossano , Mutascio Simona , Pieraccioli Marco , Volpe Elisabetta , Pagliarulo Vincenzo , Piantelli Mauro , Giannantoni Antonella , Di Stasi Savino M. , Sette Claudio
Published: April 2023

Supplementary Information, Figures and Tables
Supplementary Tables from Dynamics of Genome Alterations in Crohn's Disease–Associated Colorectal Carcinogenesis
Authors: Hirsch Daniela , Wangsa Darawalee , Zhu Yuelin J. , Hu Yue , Edelman Daniel C. , Meltzer Paul S. , Heselmeyer-Haddad Kerstin , Ott Claudia , Kienle Peter , Galata Christian , Horisberger Karoline , Ried Thomas , Gaiser Timo
Published: April 2023

Supplementary Table S1. Genes included in OncoVar assay. Supplementary Table S2. Individual clinico-pathologic characteristics of patients with Crohn's disease associated colorectal carcinoma (CD-CRC). Supplementary Table S3. Individual clinico-pathologic characteristics of patients with sporadic mucinous colorectal cancer (MUC-CRC). Supplementary Table S4. Summary of fluorescence in situ hybridization (FISH) results. Supplementary Table S5. Tumor cell content and expected mutant allele fraction (MAF) of founding clones in Crohn's disease associated CRC and sporadic mucinous CRC. Supplementary Table S6. Epithelial cell content and expected mutant allele fraction (MAF) of founding clones in normal colonic mucosa, inflamed mucosa and dysplastic lesions from patients with Crohn's disease associated CRC. Supplementary Table S7. Analysis of microsatellite instability in non-dysplastic and dysplastic colonic mucosa. Supplementary Table S8. Summary of genome alterations in precursor lesions comprising non-dysplastic and dysplastic colonic mucosa.
Supplementary Table from Dynamics of Genome Alterations in Crohn's Disease–Associated Colorectal Carcinogenesis
Authors: Hirsch Daniela , Wangsa Darawalee , Zhu Yuelin J. , Hu Yue , Edelman Daniel C. , Meltzer Paul S. , Heselmeyer-Haddad Kerstin , Ott Claudia , Kienle Peter , Galata Christian , Horisberger Karoline , Ried Thomas , Gaiser Timo
Published: April 2023

Post filtering mutation data set.
Supplementary Figures from Dynamics of Genome Alterations in Crohn's Disease–Associated Colorectal Carcinogenesis
Authors: Hirsch Daniela , Wangsa Darawalee , Zhu Yuelin J. , Hu Yue , Edelman Daniel C. , Meltzer Paul S. , Heselmeyer-Haddad Kerstin , Ott Claudia , Kienle Peter , Galata Christian , Horisberger Karoline , Ried Thomas , Gaiser Timo
Published: April 2023

Supplementary Figure S1. Overview of tissue samples analyzed for each patient. Supplementary Figure S2. Topology and histomorphology of Crohn''s disease associated colorectal carcinomas (CD-CRCs; n = 32) from our cohort. Supplementary Figure S3. Representative histology images of Crohn''s disease associated colorectal carcinomas. Supplementary Figure S4. Analysis of microsatellite instability. Supplementary Figure S5. Association of microsatellite instability with carcinoma site and histomorphology in Crohn''s disease associated colorectal carcinomas (CD-CRCs; n = 32) from our cohort. Supplementary Figure S6. Frequency plots of copy number profiles reconstructed from the TCGA CRC dataset (Affymetrix SNP 6 data). Supplementary Figure S7. Frequency plot of copy number profiles reconstructed from targeted sequencing data. Supplementary Figure S8. Comparison of variant calling by MuTect and Strelka algorithms. Supplementary Figure S9. Number of genome alterations and base substitution patterns in Crohn''s disease associated CRCs compared to sporadic mucinous CRCs. Supplementary Figure S10. Graphical summary of TP53 mutations from Crohn''s disease associated CRCs (n = 29) and sporadic mucinous CRCs (n = 24). Supplementary Figure S11. Graphical summary of KRAS mutations from Crohn''s disease associated CRCs (n = 29) and sporadic mucinous CRCs (n = 24). Supplementary Figure S12. Graphical summary of APC mutations from Crohn''s disease associated CRCs (n = 29) and sporadic mucinous CRCs (n = 24). Supplementary Figure S13. Genomic alteration patterns in selected pathways in Crohn''s disease associated CRCs (n = 29). Supplementary Figure S14. Genomic alteration patterns in selected pathways in sporadic mucinous CRCs (n = 24). Supplementary Figure S15. Genome alterations during tumor progression in Crohn''s disease. Supplementary Figure S16. Overview of all detected mutations in patients with multiple synchronous lesions. Supplementary Figure S17. Patient C12 Supplementary Figure S18. Patient C26. Supplementary Figure S19. Patient C18. Supplementary Figure S20. Patient C05. Supplementary Figure S21. Patient C02. Supplementary Figure S22. Patient C11. Supplementary Figure S23. Patient C07 Supplementary Figure S24. Patient C06. Supplementary Figure S25. Mutant allele fractions by gene. Supplementary Figure S26-S29. Representative images of histology (H&E, left) and TP53 immunohistochemistry (right) in TP53-mutated and TP53 wild-type tissues comprising non-dysplastic (normal, inflamed) colonic mucosa and dysplasia.
Supplementary Data from Telomerase Activation and ATRX Mutations Are Independent Risk Factors for Metastatic Pheochromocytoma and Paraganglioma
Authors: Job Sylvie , Draskovic Irena , Burnichon Nelly , Buffet Alexandre , Cros Jérôme , Lépine Charles , Venisse Annabelle , Robidel Estelle , Verkarre Virginie , Meatchi Tchao , Sibony Mathilde , Amar Laurence , Bertherat Jérôme , de Reyniès Aurélien , Londoño-Vallejo Arturo , Favier Judith , Castro-Vega Luis Jaime , Gimenez-Roqueplo Anne-Paule
Published: April 2023

Supplementary Data
Table S3 from CD45+CD326+ Cells are Predictive of Poor Prognosis in Non–Small Cell Lung Cancer Patients
Authors: Ishizawa Kota , Yamanaka Mie , Saiki Yuriko , Miyauchi Eisaku , Fukushige Shinichi , Akaishi Tetsuya , Asao Atsuko , Mimori Takahiro , Saito Ryota , Tojo Yutaka , Yamashita Riu , Abe Michiaki , Sakurada Akira , Pham Nhu-An , Li Ming , Okada Yoshinori , Ishii Tadashi , Ishii Naoto , Kobayashi Seiichi , Nagasaki Masao , Ichinose Masakazu , Tsao Ming-Sound , Horii Akira
Published: April 2023

Table S3. Summary of mutations detected in this study
Table S2 from CD45+CD326+ Cells are Predictive of Poor Prognosis in Non–Small Cell Lung Cancer Patients
Authors: Ishizawa Kota , Yamanaka Mie , Saiki Yuriko , Miyauchi Eisaku , Fukushige Shinichi , Akaishi Tetsuya , Asao Atsuko , Mimori Takahiro , Saito Ryota , Tojo Yutaka , Yamashita Riu , Abe Michiaki , Sakurada Akira , Pham Nhu-An , Li Ming , Okada Yoshinori , Ishii Tadashi , Ishii Naoto , Kobayashi Seiichi , Nagasaki Masao , Ichinose Masakazu , Tsao Ming-Sound , Horii Akira
Published: April 2023

Table S2. Nucleotide sequences of the primers and PCR conditions
Supplementary Tables S7-S8 from Mutational Analysis Identifies Therapeutic Biomarkers in Inflammatory Bowel Disease–Associated Colorectal Cancers
Authors: Din Shahida , Wong Kim , Mueller Mike F. , Oniscu Anca , Hewinson James , Black Catherine J. , Miller Martin L. , Jiménez-Sánchez Alejandro , Rabbie Roy , Rashid Mamunar , Satsangi Jack , Adams David J. , Arends Mark J.
Published: April 2023

Supplementary Table S7 Somatic variants in IBD-CRC samples. Shown are variants found in coding regions and splice sites of Ensembl canonical transcripts only. Supplementary Table S8 Somatic variants in IBD-CRC samples. Shown are all variants coding regions and splice sites in all Ensembl transcripts and variant consequences for each transcript.
Supplementary Data from Circulating Tumor Cells Are Associated with Recurrent Disease in Patients with Early-Stage Non–Small Cell Lung Cancer Treated with Stereotactic Body Radiotherapy
Authors: Frick Melissa A. , Feigenberg Steven J. , Jean-Baptiste Samuel R. , Aguarin Louise A. , Mendes Amberly , Chinniah Chimbu , Swisher-McClure Sam , Berman Abigail , Levin William , Cengel Keith A. , Hahn Stephen M. , Dorsey Jay F. , Simone Charles B. , Kao Gary D.
Published: April 2023

Supplementary Tables and Figures
Table S1 from Radiation with STAT3 Blockade Triggers Dendritic Cell–T cell Interactions in the Glioma Microenvironment and Therapeutic Efficacy
Authors: Ott Martina , Kassab Cynthia , Marisetty Anantha , Hashimoto Yuuri , Wei Jun , Zamler Daniel , Leu Jia-Shiun , Tomaszowski Karl-Heinz , Sabbagh Aria , Fang Dexing , Gupta Pravesh , Priebe Waldemar , Zielinski Rafal J. , Burks Jared K. , Long James P. , Kong Ling-Yuan , Fuller Gregory N. , DeGroot John , Sulman Erik P. , Heimberger Amy B.
Published: April 2023

Table S1 shows KINOMEscan profiling of WP1066.
Supplementary Tables 1-6 from ERK Mutations and Amplification Confer Resistance to ERK-Inhibitor Therapy
Authors: Jaiswal Bijay S. , Durinck Steffen , Stawiski Eric W. , Yin Jianping , Wang Weiru , Lin Eva , Moffat John , Martin Scott E. , Modrusan Zora , Seshagiri Somasekar
Published: April 2023

Supplementary Table S1: X-ray crystallography data processing and structure refinement statistics Supplementary Table S2: BRAF and RAS mutational status of cell lines used in the study Supplementary Table: S3: Cellular IC50 (nM) of parental and ERKi-resistant lines to ERK inhibitors Supplementary Table S4: Mutations found in ERKi- resistant lines. Supplementary Table-S5- Copy number (log2 ratio) in ERKi-R lines compare to parental cell lines. Supplementary Table S6: Gene expression (RPKM) in parental and ERKi-R cells
Figure S5 from Radiation with STAT3 Blockade Triggers Dendritic Cell–T cell Interactions in the Glioma Microenvironment and Therapeutic Efficacy
Authors: Ott Martina , Kassab Cynthia , Marisetty Anantha , Hashimoto Yuuri , Wei Jun , Zamler Daniel , Leu Jia-Shiun , Tomaszowski Karl-Heinz , Sabbagh Aria , Fang Dexing , Gupta Pravesh , Priebe Waldemar , Zielinski Rafal J. , Burks Jared K. , Long James P. , Kong Ling-Yuan , Fuller Gregory N. , DeGroot John , Sulman Erik P. , Heimberger Amy B.
Published: April 2023

Figure S5 shows heat maps from brain immune cells.
Figure S3 from Radiation with STAT3 Blockade Triggers Dendritic Cell–T cell Interactions in the Glioma Microenvironment and Therapeutic Efficacy
Authors: Ott Martina , Kassab Cynthia , Marisetty Anantha , Hashimoto Yuuri , Wei Jun , Zamler Daniel , Leu Jia-Shiun , Tomaszowski Karl-Heinz , Sabbagh Aria , Fang Dexing , Gupta Pravesh , Priebe Waldemar , Zielinski Rafal J. , Burks Jared K. , Long James P. , Kong Ling-Yuan , Fuller Gregory N. , DeGroot John , Sulman Erik P. , Heimberger Amy B.
Published: April 2023

Figure S3 shows survival curves for two independent mouse experiments.
Supplemental legend from ERK Mutations and Amplification Confer Resistance to ERK-Inhibitor Therapy
Authors: Jaiswal Bijay S. , Durinck Steffen , Stawiski Eric W. , Yin Jianping , Wang Weiru , Lin Eva , Moffat John , Martin Scott E. , Modrusan Zora , Seshagiri Somasekar
Published: April 2023

Supplemental legend
Table S1-S6, and Figure S1-S4 from Evolutionary Expression of HER2 Conferred by Chromosome Aneuploidy on Circulating Gastric Cancer Cells Contributes to Developing Targeted and Chemotherapeutic Resistance
Authors: Li Yilin , Zhang Xiaotian , Liu Dan , Gong Jifang , Wang Daisy Dandan , Li Shan , Peng Zhi , Li Yanyan , Wang Xiaojuan , Lin Peter Ping , Li Min , Shen Lin
Published: April 2023

Table S1. Clinical characteristics of assessable patients; Table S2. Cox analysis for prediction of progression-free survival (PFS) and overall survival (OS) in an histo-pathlogical HER2 positive (hHER2+) cohort; Table S3. Cox analysis for prediction of PFS and OS in an histo-pathological HER2 negative (hHER2-) cohort; Table S4. Quantified variation of HER2+/triploid CTCs and its correlation to prognosis; Table S5. Quantified variation of HER2+/tetraploid CTCs and its correlation to prognosis; Table S6. Cox analysis for prediction of PFS and OS for variation of HER2+/multiploid circulating tumor cells (CTCs); Figure S1. CONSORT flow chart; Figure S2. Quantification of HER2 expression on CTCs (cHER2) in gastric cancer (GC); Figure S3. Threshold of pre-therapeutic cHER2+ CTCs for predicting OS in the hHER2+ and hHER2- cohorts of patients with GC; Figure S4. Quantitative variation of aneuploid CTCs is in accordance with variation of HER2+ CTCs in patients from pre-therapy to progression.
Tables S2A and S2B from Lineage-Specific Alterations in Gynecologic Neoplasms with Choriocarcinomatous Differentiation: Implications for Origin and Therapeutics
Authors: Xing Deyin , Zheng Gang , Pallavajjala Aparna , Schoolmeester J. Kenneth , Liu Yuehua , Haley Lisa , Hu Yan , Liu Li , Logan Lisa , Lin Yuan , Pearce Kathryn E. , Sattler Christopher A. , Tsai Ya Chea , Vang Russell , Hung Chien-Fu , Wu T.-C. , Ronnett Brigitte M.
Published: April 2023

Supplementary Tables S2A and S2B
Table S4 from Lineage-Specific Alterations in Gynecologic Neoplasms with Choriocarcinomatous Differentiation: Implications for Origin and Therapeutics
Authors: Xing Deyin , Zheng Gang , Pallavajjala Aparna , Schoolmeester J. Kenneth , Liu Yuehua , Haley Lisa , Hu Yan , Liu Li , Logan Lisa , Lin Yuan , Pearce Kathryn E. , Sattler Christopher A. , Tsai Ya Chea , Vang Russell , Hung Chien-Fu , Wu T.-C. , Ronnett Brigitte M.
Published: April 2023

Supplementary Table S4
Figure S5 from Lineage-Specific Alterations in Gynecologic Neoplasms with Choriocarcinomatous Differentiation: Implications for Origin and Therapeutics
Authors: Xing Deyin , Zheng Gang , Pallavajjala Aparna , Schoolmeester J. Kenneth , Liu Yuehua , Haley Lisa , Hu Yan , Liu Li , Logan Lisa , Lin Yuan , Pearce Kathryn E. , Sattler Christopher A. , Tsai Ya Chea , Vang Russell , Hung Chien-Fu , Wu T.-C. , Ronnett Brigitte M.
Published: April 2023

Supplementary Figure S5
Table S7 from The MD Anderson Prostate Cancer Patient-derived Xenograft Series (MDA PCa PDX) Captures the Molecular Landscape of Prostate Cancer and Facilitates Marker-driven Therapy Development
Authors: Palanisamy Nallasivam , Yang Jun , Shepherd Peter D.A. , Li-Ning-Tapia Elsa M. , Labanca Estefania , Manyam Ganiraju C. , Ravoori Murali K. , Kundra Vikas , Araujo John C. , Efstathiou Eleni , Pisters Louis L. , Wan Xinhai , Wang Xuemei , Vazquez Elba S. , Aparicio Ana M. , Carskadon Shannon L. , Tomlins Scott A. , Kunju Lakshmi P. , Chinnaiyan Arul M. , Broom Bradley M. , Logothetis Christopher J. , Troncoso Patricia , Navone Nora M.
Published: April 2023

Rearrangements, amplifications, and deletions detected by array CGH
Figure S3 from Lineage-Specific Alterations in Gynecologic Neoplasms with Choriocarcinomatous Differentiation: Implications for Origin and Therapeutics
Authors: Xing Deyin , Zheng Gang , Pallavajjala Aparna , Schoolmeester J. Kenneth , Liu Yuehua , Haley Lisa , Hu Yan , Liu Li , Logan Lisa , Lin Yuan , Pearce Kathryn E. , Sattler Christopher A. , Tsai Ya Chea , Vang Russell , Hung Chien-Fu , Wu T.-C. , Ronnett Brigitte M.
Published: April 2023

Supplementary Figure S3
Table S5 from The MD Anderson Prostate Cancer Patient-derived Xenograft Series (MDA PCa PDX) Captures the Molecular Landscape of Prostate Cancer and Facilitates Marker-driven Therapy Development
Authors: Palanisamy Nallasivam , Yang Jun , Shepherd Peter D.A. , Li-Ning-Tapia Elsa M. , Labanca Estefania , Manyam Ganiraju C. , Ravoori Murali K. , Kundra Vikas , Araujo John C. , Efstathiou Eleni , Pisters Louis L. , Wan Xinhai , Wang Xuemei , Vazquez Elba S. , Aparicio Ana M. , Carskadon Shannon L. , Tomlins Scott A. , Kunju Lakshmi P. , Chinnaiyan Arul M. , Broom Bradley M. , Logothetis Christopher J. , Troncoso Patricia , Navone Nora M.
Published: April 2023

Table S5. List of 3022 genes differentially regulated between MDA PCa 146-10 and MDA PCa 146-12
Table S4 from The MD Anderson Prostate Cancer Patient-derived Xenograft Series (MDA PCa PDX) Captures the Molecular Landscape of Prostate Cancer and Facilitates Marker-driven Therapy Development
Authors: Palanisamy Nallasivam , Yang Jun , Shepherd Peter D.A. , Li-Ning-Tapia Elsa M. , Labanca Estefania , Manyam Ganiraju C. , Ravoori Murali K. , Kundra Vikas , Araujo John C. , Efstathiou Eleni , Pisters Louis L. , Wan Xinhai , Wang Xuemei , Vazquez Elba S. , Aparicio Ana M. , Carskadon Shannon L. , Tomlins Scott A. , Kunju Lakshmi P. , Chinnaiyan Arul M. , Broom Bradley M. , Logothetis Christopher J. , Troncoso Patricia , Navone Nora M.
Published: April 2023

Ranked expression of genes in MDA PCa 144-13 vs MDA PCa 144-4
Figure S1 from Lineage-Specific Alterations in Gynecologic Neoplasms with Choriocarcinomatous Differentiation: Implications for Origin and Therapeutics
Authors: Xing Deyin , Zheng Gang , Pallavajjala Aparna , Schoolmeester J. Kenneth , Liu Yuehua , Haley Lisa , Hu Yan , Liu Li , Logan Lisa , Lin Yuan , Pearce Kathryn E. , Sattler Christopher A. , Tsai Ya Chea , Vang Russell , Hung Chien-Fu , Wu T.-C. , Ronnett Brigitte M.
Published: April 2023

Supplementary Figure S1
Supplementary Data from Biomarkers and Bone Imaging Dynamics Associated with Clinical Outcomes of Oral Cabozantinib Therapy in Metastatic Castrate-Resistant Prostate Cancer
Authors: Vaishampayan Ulka N. , Podgorski Izabela , Heilbrun Lance K. , Lawhorn-Crews Jawana M. , Dobson Kimberlee C. , Boerner Julie , Stark Karri , Smith Daryn W. , Heath Elisabeth I. , Fontana Joseph A. , Shields Anthony F.
Published: April 2023

Table S1. Baseline patient characteristics Table S2 Rank Correlations of Percent Change in Imaging with Percent Change in Bone Markers
Table S3 from Chimeric Antigen Receptor-Glypican-3 T-Cell Therapy for Advanced Hepatocellular Carcinoma: Results of Phase I Trials
Authors: Shi Donghua , Shi Yaoping , Kaseb Ahmed O. , Qi Xingxing , Zhang Yuan , Chi Jiachang , Lu Qing , Gao Huiping , Jiang Hua , Wang Huamao , Yuan Daijing , Ma Hong , Wang Hongyang , Li Zonghai , Zhai Bo
Published: April 2023

The status of HBV and treatment in patients on the study
Supplementary Methods from The MD Anderson Prostate Cancer Patient-derived Xenograft Series (MDA PCa PDX) Captures the Molecular Landscape of Prostate Cancer and Facilitates Marker-driven Therapy Development
Authors: Palanisamy Nallasivam , Yang Jun , Shepherd Peter D.A. , Li-Ning-Tapia Elsa M. , Labanca Estefania , Manyam Ganiraju C. , Ravoori Murali K. , Kundra Vikas , Araujo John C. , Efstathiou Eleni , Pisters Louis L. , Wan Xinhai , Wang Xuemei , Vazquez Elba S. , Aparicio Ana M. , Carskadon Shannon L. , Tomlins Scott A. , Kunju Lakshmi P. , Chinnaiyan Arul M. , Broom Bradley M. , Logothetis Christopher J. , Troncoso Patricia , Navone Nora M.
Published: April 2023

Supplementary Methods
Supplementary Figure 4 from RNA Splicing Alterations Induce a Cellular Stress Response Associated with Poor Prognosis in Acute Myeloid Leukemia
Authors: Anande Govardhan , Deshpande Nandan P. , Mareschal Sylvain , Batcha Aarif M.N. , Hampton Henry R. , Herold Tobias , Lehmann Soren , Wilkins Marc R. , Wong Jason W.H. , Unnikrishnan Ashwin , Pimanda John E.
Published: April 2023

Supplementary Figure 4, related to main Figure 5. Data pertaining to independent validation in the BEAT-AML cohort.
Figure S4 from The MD Anderson Prostate Cancer Patient-derived Xenograft Series (MDA PCa PDX) Captures the Molecular Landscape of Prostate Cancer and Facilitates Marker-driven Therapy Development
Authors: Palanisamy Nallasivam , Yang Jun , Shepherd Peter D.A. , Li-Ning-Tapia Elsa M. , Labanca Estefania , Manyam Ganiraju C. , Ravoori Murali K. , Kundra Vikas , Araujo John C. , Efstathiou Eleni , Pisters Louis L. , Wan Xinhai , Wang Xuemei , Vazquez Elba S. , Aparicio Ana M. , Carskadon Shannon L. , Tomlins Scott A. , Kunju Lakshmi P. , Chinnaiyan Arul M. , Broom Bradley M. , Logothetis Christopher J. , Troncoso Patricia , Navone Nora M.
Published: April 2023

Whole-genome analysis of copy number changes in MDA PCa 144 PDXs
Figure S6 from Local Phototherapy Synergizes with Immunoadjuvant for Treatment of Pancreatic Cancer through Induced Immunogenic Tumor Vaccine
Authors: Zhou Feifan , Yang Jingxuan , Zhang Yuqing , Liu Mingyang , Lang Mark L. , Li Min , Chen Wei R.
Published: April 2023

Efficacy of PTT+GC on orthotopic pancreatic tumors using male mice
Supplementary Figure S7 from Telomerase Reverse Transcriptase Promoter Mutations Identify a Genomically Defined and Highly Aggressive Human Pleural Mesothelioma Subgroup
Authors: Pirker Christine , Bilecz Agnes , Grusch Michael , Mohr Thomas , Heidenreich Barbara , Laszlo Viktoria , Stockhammer Paul , Lötsch-Gojo Daniela , Gojo Johannes , Gabler Lisa , Spiegl-Kreinecker Sabine , Dome Balazs , Steindl Ariane , Klikovits Thomas , Hoda Mir Alireza , Jakopovic Marko , Samarzija Miroslav , Mohorcic Katja , Kern Izidor , Kiesel Barbara , Brcic Luka , Oberndorfer Felicitas , Müllauer Leonhard , Klepetko Walter , Schmidt Wolfgang M. , Kumar Rajiv , Hegedus Balazs , Berger Walter
Published: April 2023

Supplementary Figure S7. Coding variants detected in MPM cell cultures and their relation to TERT promoter status.
Supplementary Figure S2 from Telomerase Reverse Transcriptase Promoter Mutations Identify a Genomically Defined and Highly Aggressive Human Pleural Mesothelioma Subgroup
Authors: Pirker Christine , Bilecz Agnes , Grusch Michael , Mohr Thomas , Heidenreich Barbara , Laszlo Viktoria , Stockhammer Paul , Lötsch-Gojo Daniela , Gojo Johannes , Gabler Lisa , Spiegl-Kreinecker Sabine , Dome Balazs , Steindl Ariane , Klikovits Thomas , Hoda Mir Alireza , Jakopovic Marko , Samarzija Miroslav , Mohorcic Katja , Kern Izidor , Kiesel Barbara , Brcic Luka , Oberndorfer Felicitas , Müllauer Leonhard , Klepetko Walter , Schmidt Wolfgang M. , Kumar Rajiv , Hegedus Balazs , Berger Walter
Published: April 2023

Supplementary Figure S2. C-reactive protein (CRP) levels of MPM patients and their relation to TERT promoter status in the tumor.
Appendix 1 from Metformin Targets Mitochondrial Glycerophosphate Dehydrogenase to Control Rate of Oxidative Phosphorylation and Growth of Thyroid Cancer In Vitro and In Vivo
Authors: Thakur Shilpa , Daley Brianna , Gaskins Kelli , Vasko Vasyl V. , Boufraqech Myriem , Patel Dhaval , Sourbier Carole , Reece Jeff , Cheng Sheue-Yann , Kebebew Electron , Agarwal Sunita , Klubo-Gwiezdzinska Joanna
Published: April 2023

TCGA normal vs tumor raw data
APPENDIX 2 from Metformin Targets Mitochondrial Glycerophosphate Dehydrogenase to Control Rate of Oxidative Phosphorylation and Growth of Thyroid Cancer In Vitro and In Vivo
Authors: Thakur Shilpa , Daley Brianna , Gaskins Kelli , Vasko Vasyl V. , Boufraqech Myriem , Patel Dhaval , Sourbier Carole , Reece Jeff , Cheng Sheue-Yann , Kebebew Electron , Agarwal Sunita , Klubo-Gwiezdzinska Joanna
Published: April 2023

STR PROFILE
Table S1 from KRAS G12C NSCLC Models Are Sensitive to Direct Targeting of KRAS in Combination with PI3K Inhibition
Authors: Misale Sandra , Fatherree Jackson P. , Cortez Eliane , Li Chendi , Bilton Samantha , Timonina Daria , Myers David T. , Lee Dana , Gomez-Caraballo Maria , Greenberg Max , Nangia Varuna , Greninger Patricia , Egan Regina K. , McClanaghan Joseph , Stein Giovanna T. , Murchie Ellen , Zarrinkar Patrick P. , Janes Matthew R. , Li Lian-Sheng , Liu Yi , Hata Aaron N. , Benes Cyril H.
Published: April 2023

Supplementary Table 1
Table S3 from Adenocarcinoma of the Uterine Cervix Shows Impaired Recruitment of cDC1 and CD8+ T Cells and Elevated β-Catenin Activation Compared with Squamous Cell Carcinoma
Authors: Rotman Jossie , Heeren A. Marijne , Gassama Awa A. , Lougheed Sinead M. , Pocorni Noëlle , Stam Anita G.M. , Bleeker Maaike C.G. , Zijlmans Henry J.M.A.A , Mom Constantijne H. , Kenter Gemma G. , Jordanova Ekaterina S. , de Gruijl Tanja D.
Published: April 2023

Antibody and CBA bead specifications
Table S1 from Adenocarcinoma of the Uterine Cervix Shows Impaired Recruitment of cDC1 and CD8+ T Cells and Elevated β-Catenin Activation Compared with Squamous Cell Carcinoma
Authors: Rotman Jossie , Heeren A. Marijne , Gassama Awa A. , Lougheed Sinead M. , Pocorni Noëlle , Stam Anita G.M. , Bleeker Maaike C.G. , Zijlmans Henry J.M.A.A , Mom Constantijne H. , Kenter Gemma G. , Jordanova Ekaterina S. , de Gruijl Tanja D.
Published: April 2023

Clinical characteristics of the AC study population
Supp Figure S2 from Serum Alpha-fetoprotein Levels and Clinical Outcomes in the Phase III CELESTIAL Study of Cabozantinib versus Placebo in Patients with Advanced Hepatocellular Carcinoma
Authors: Kelley Robin Kate , Meyer Tim , Rimassa Lorenza , Merle Philippe , Park Joong-Won , Yau Thomas , Chan Stephen L. , Blanc Jean-Frederic , Tam Vincent C. , Tran Albert , Dadduzio Vincenzo , Markby David W. , Kaldate Rajesh , Cheng Ann-Lii , El-Khoueiry Anthony B. , Abou-Alfa Ghassan K.
Published: April 2023

Figure S2. Forest plots of overall survival and progression-free survival by AFP control/response/progression in the cabozantinib group.
Supplemental Tables 2-4 from Integrative Molecular Characterization of Resistance to Neoadjuvant Chemoradiation in Rectal Cancer
Authors: Kamran Sophia C. , Lennerz Jochen K. , Margolis Claire A. , Liu David , Reardon Brendan , Wankowicz Stephanie A. , Van Seventer Emily E. , Tracy Adam , Wo Jennifer Y. , Carter Scott L. , Willers Henning , Corcoran Ryan B. , Hong Theodore S. , Van Allen Eliezer M.
Published: April 2023

Supplemental Table 2: Clinical Characteristics Supplemental Table 3: Sequencing Characteristics Supplemental Table 4: IHC Staining Results
Supplementary Figure from Impact of BRAF Mutation Class on Disease Characteristics and Clinical Outcomes in BRAF-mutant Lung Cancer
Authors: Dagogo-Jack Ibiayi , Martinez Pablo , Yeap Beow Y. , Ambrogio Chiara , Ferris Lorin A. , Lydon Christine , Nguyen Tom , Jessop Nicholas A. , Iafrate A. John , Johnson Bruce E. , Lennerz Jochen K. , Shaw Alice T. , Awad Mark M.
Published: April 2023

Overlap between BRAF and NF1 Genetic Alterations
Supplementary from Genomic Methods Identify Homologous Recombination Deficiency in Pancreas Adenocarcinoma and Optimize Treatment Selection
Authors: Park Wungki , Chen Jiapeng , Chou Joanne F. , Varghese Anna M. , Yu Kenneth H. , Wong Winston , Capanu Marinela , Balachandran Vinod , McIntyre Caitlin A. , El Dika Imane , Khalil Danny N. , Harding James J. , Ghalehsari Nima , McKinnell Zoe , Chalasani Sree B. , Makarov Vladimir , Selenica Pier , Pei Xin , Lecomte Nicolas , Kelsen David P. , Abou-Alfa Ghassan K. , Robson Mark E. , Zhang Liying , Berger Michael F. , Schultz Nikolaus , Chan Timothy A. , Powell Simon N. , Reis-Filho Jorge S. , Iacobuzio-Donahue Christine A. , Riaz Nadeem , O'Reilly Eileen M.
Published: April 2023

Supplementary Data 1-8
Figure S1 from ΔNp63γ/SRC/Slug Signaling Axis Promotes Epithelial-to-Mesenchymal Transition in Squamous Cancers
Authors: Srivastava Kirtiman , Pickard Adam , Craig Stephanie G. , Quinn Gerard P. , Lambe Shauna M. , James Jacqueline A. , McDade Simon S. , McCance Dennis J.
Published: April 2023

Figure S1 shows comparison of mRNA expression of E-cadherin (CHD1), N-cadherin (CDH2), vimentin (VIM), fibronectin (FN1), ZEB1 and ZEB2 mRNA levels in normal tissue (n=44), human papilloma virus (HPV)+ve (n=36) and HPV-ve (n=241) HNSCC in the TCGA RNA-seq cohort. Data represented as mean{plus minus}s.e.m. and statistical significance defined as ***P<0.001, **P<0.01, and *P<0.05 when calculated by Welch's t-test when compared to the normals.
Table S6 from The Influence of Immune Heterogeneity on the Effectiveness of Immune Checkpoint Inhibitors in Multifocal Hepatocellular Carcinomas
Authors: Huang Manling , He Minghui , Guo Yu , Li Heping , Shen Shunli , Xie Yubin , Li Xiaoxing , Xiao Han , Fang Lujing , Li Dongming , Peng Baogang , Liang Lijian , Yu Jun , Kuang Ming , Xu Lixia , Peng Sui
Published: April 2023

Table S6 shows detailed information of copy number alterations in the six HCC patients with WGS analysis.
Supplementary Data from Discovery and Therapeutic Exploitation of Mechanisms of Resistance to MET Inhibitors in Glioblastoma
Authors: Cruickshanks Nichola , Zhang Ying , Hine Sarah , Gibert Myron , Yuan Fang , Oxford Madison , Grello Cassandra , Pahuski Mary , Dube Collin , Guessous Fadila , Wang Baomin , Deveau Ciana , Saoud Karim , Gallagher Isela , Wulfkuhle Julia , Schiff David , Phan See , Petricoin Emanuel , Abounader Roger
Published: April 2023

Supplementary Data
Table S1 from Rhabdoid Tumors Are Sensitive to the Protein-Translation Inhibitor Homoharringtonine
Authors: Howard Thomas P. , Oberlick Elaine M. , Rees Matthew G. , Arnoff Taylor E. , Pham Minh-Tam , Brenan Lisa , DoCarmo Mariana , Hong Andrew L. , Kugener Guillaume , Chou Hsien-Chao , Drosos Yiannis , Mathias Kaeli M. , Ramos Pilar , Seashore-Ludlow Brinton , Giacomelli Andrew O. , Wang Xiaofeng , Freeman Burgess B. , Blankenship Kaley , Hoffmann Lauren , Tiv Hong L. , Gokhale Prafulla C. , Johannessen Cory M. , Stewart Elizabeth A. , Schreiber Stuart L. , Hahn William C. , Roberts Charles W.M.
Published: April 2023

Cell line sources, information, and growth conditions
Figure S1 from Immune Activation in Patients with Locally Advanced Cervical Cancer Treated with Ipilimumab Following Definitive Chemoradiation (GOG-9929)
Authors: Da Silva Diane M. , Enserro Danielle M. , Mayadev Jyoti S. , Skeate Joseph G. , Matsuo Koji , Pham Huyen Q. , Lankes Heather A. , Moxley Katherine M. , Ghamande Sharad A. , Lin Yvonne G. , Schilder Russell J. , Birrer Michael J. , Kast W. Martin
Published: April 2023

Figure S1 shows the association of T cell subsets and T cell activation status with clinical response.
Supplementary Data from Modeling the Impact of Cardiopulmonary Irradiation on Overall Survival in NRG Oncology Trial RTOG 0617
Authors: Thor Maria , Deasy Joseph O. , Hu Chen , Gore Elizabeth , Bar-Ad Voichita , Robinson Clifford , Wheatley Matthew , Oh Jung Hun , Bogart Jeffrey , Garces Yolanda I. , Kavadi Vivek S. , Narayan Samir , Iyengar Puneeth , Witt Jacob S. , Welsh James W. , Koprowski Cristopher D. , Larner James M. , Xiao Ying , Bradley Jeffrey
Published: April 2023

The study analysis plan, Figures S1-S6, Table S1
Supplementary Figure 3 from Safety and Clinical Activity of MEDI1873, a Novel GITR Agonist, in Advanced Solid Tumors
Authors: Balmanoukian Ani S. , Infante Jeffrey R. , Aljumaily Raid , Naing Aung , Chintakuntlawar Ashish V. , Rizvi Naiyer A. , Ross Helen J. , Gordon Michael , Mallinder Philip R. , Elgeioushi Nairouz , González-García Ignacio , Standifer Nathan , Cann Jennifer , Durham Nicholas , Rahimian Shahram , Kumar Rakesh , Denlinger Crystal S.
Published: April 2023

(A) Changes from baseline were measured in peripheral CD4+ Ki67+ T cells in the 25 mg, 75 mg, 250 mg, and 500 mg cohorts. (B) The associations between peripheral IFNy and GITR. GITR molecule equivalents of soluble fluorescence (MESF) were assessed.
Supplementary Figure 2 from Differentiation Syndrome with Ivosidenib and Enasidenib Treatment in Patients with Relapsed or Refractory IDH-Mutated AML: A U.S. Food and Drug Administration Systematic Analysis
Authors: Norsworthy Kelly J. , Mulkey Flora , Scott Emma C. , Ward Ashley F. , Przepiorka Donna , Charlab Rosane , Dorff Sarah E. , Deisseroth Albert , Kazandjian Dickran , Sridhara Rajeshwari , Beaver Julia A. , Farrell Ann T. , de Claro R. Angelo , Pazdur Richard
Published: April 2023

Supplementary Figure 2. Relative risk of DS for frequently co-mutated genes.
Supplementary Figure 1 from Safety and Clinical Activity of MEDI1873, a Novel GITR Agonist, in Advanced Solid Tumors
Authors: Balmanoukian Ani S. , Infante Jeffrey R. , Aljumaily Raid , Naing Aung , Chintakuntlawar Ashish V. , Rizvi Naiyer A. , Ross Helen J. , Gordon Michael , Mallinder Philip R. , Elgeioushi Nairouz , González-García Ignacio , Standifer Nathan , Cann Jennifer , Durham Nicholas , Rahimian Shahram , Kumar Rakesh , Denlinger Crystal S.
Published: April 2023

Visits after Day 57 were excluded for visual purposes. The excluded visits were: Days 71, 85, 99, 127, 155, 183, 211, 239, 267, 295, 323 and 351.
Supplementary Figure 1 from Angiogenic and Immune-Related Biomarkers and Outcomes Following Axitinib/Pembrolizumab Treatment in Patients with Advanced Renal Cell Carcinoma
Authors: Martini Jean-François , Plimack Elizabeth R. , Choueiri Toni K. , McDermott David F. , Puzanov Igor , Fishman Mayer N. , Cho Daniel C. , Vaishampayan Ulka , Rosbrook Bradley , Fernandez Kathrine C. , Tarazi Jamal C. , George Saby , Atkins Michael B.
Published: April 2023

Supplementary Figure 1