bluuebunny/crossref_metadata_2025 huggingface dataset:
Fig S3 from World Trade Center Dust Exposure Promotes Cancer in PTEN-deficient Mouse Prostates
Authors: Wang Lin , Xu Yitian , Zhang Licheng , Kang Kyeongah , Kobryn Andriy , Portman Kensey , Gordon Ronald E , Pan Ping-Ying , Taioli Emanuela , Aaronson Stuart A , Chen Shu-Hsia , Mulholland David J
Published: April 2023

Fig. S3. A-B, Expression of P-AKT-S473 in the prostatic acini from WTC dust treated Pb-Cre+PtenL/Wt mice shown at low and high magnifications (A = early progression, B = later progression). C, P-AKT-S473 expression in Pb-Cre+PtenL/L GEM mice (HE bar = 250 μM, IHC bar = 100 μm). D, IF expression of PTEN and P-AKTS473 in Pb-Cre+PtenL/Wt GEM mice treated with WTC dust.
Supplementary Methods SM1 from Proteome Analysis of Pancreatic Tumors Implicates Extracellular Matrix in Patient Outcome
Authors: Silwal-Pandit Laxmi , Stålberg Stina M. , Johansson Henrik J. , Mermelekas Georgios , Lothe Inger Marie B. , Skrede Martina L. , Dalsgaard Astrid Marie , Nebdal Daniel J. H. , Helland Åslaug , Lingjærde Ole Christian , Labori Knut Jørgen , Skålhegg Bjørn S. , Lehtiö Janne , Kure Elin H.
Published: April 2023

Supplementary method describing HiRIEF-nanoLC-MS_MS based proteomics technology
Figure S3 from WEE1 Inhibition Augments CDC7 (DDK) Inhibitor–induced Cell Death in Ewing Sarcoma by Forcing Premature Mitotic Entry and Mitotic Catastrophe
Authors: Martin Jeffrey C. , Sims Jennie R. , Gupta Ajay , Bakin Andrei V. , Ohm Joyce Ellen
Published: April 2023

This figure includes supplementary data that shows CDK1 inhibition or nocodazole treatment inhibits mitotic entry/progression in Ewing cells.
Figure S2 from WEE1 Inhibition Augments CDC7 (DDK) Inhibitor–induced Cell Death in Ewing Sarcoma by Forcing Premature Mitotic Entry and Mitotic Catastrophe
Authors: Martin Jeffrey C. , Sims Jennie R. , Gupta Ajay , Bakin Andrei V. , Ohm Joyce Ellen
Published: April 2023

This figure includes supplementary data that shows that CDC7 (DDK) inhibition increases pCDK1 (Y15) and causes a cell cycle accumulation in Ewing cells.
Supplementary Table S1, Figures S1-S8 from A Ketogenic Diet in Combination with Gemcitabine Increases Survival in Pancreatic Cancer KPC Mice
Authors: Cortez Natalia E. , Rodriguez Lanzi Cecilia , Hong Brian V. , Xu Jihao , Wang Fangyi , Chen Shuai , Ramsey Jon J. , Pontifex Matthew G. , Müller Michael , Vauzour David , Vahmani Payam , Hwang Chang-il , Matsukuma Karen , Mackenzie Gerardo G.
Published: April 2023

Supplementary Table S1. Experimental diets composition. Supplementary Figure S1. A ketogenic diet plus gemcitabine extends median overall survival in KPC mice. Supplementary Figure S2. Histopathological analysis of necrosis (C) in pancreatic tumor isolated from female and male KPC mice treated with CD, KD, CG or KD. Supplementary Figure S3. Histopathological analysis of fibrosis in pancreatic tumor isolated from female and male KPC mice treated with CD, KD, CG or KD. Supplementary Figure S4. IL-10, IFN-γ and MCP-1 levels were measured in serum obtained from female and male KPC mice fed a CD, KD, CG or KG at euthanasia. Supplementary Figure S5. Effect of a ketogenic diet plus gemcitabine on AKT and ERK activation at endpoint. Supplementary Figure S6. Effect of a ketogenic diet plus gemcitabine on glycolytic pathway in pancreatic tumors. Supplementary Figure S7. A ketogenic diet plus gemcitabine affects the gut microbiota. Supplementary Figure S8. A ketogenic diet affects the gut microbiota.
Supplementary Table S1 from Drug–gene Interaction Screens Coupled to Tumor Data Analyses Identify the Most Clinically Relevant Cancer Vulnerabilities Driving Sensitivity to PARP Inhibition
Authors: Jamal Kunzah , Galbiati Alessandro , Armenia Joshua , Illuzzi Giuditta , Hall James , Bentouati Sabrina , Barrell Daniel , Ahdesmäki Miika , O'Connor Mark J. , Leo Elisabetta , Forment Josep V.
Published: April 2023

CRISPR-Cas9 loss-of-function screens analysed in this study.
Supplementary Figures 1-5, Tables 1-2 from Na+/H+-exchanger 1 Enhances Antitumor Activity of Engineered NK-92 Natural Killer Cells
Authors: Gong Yao-Yu , Shao Hongguang , Li Yu , Brafford Patricia , Stine Zachary E. , Sun Jing , Felsher Dean W. , Orange Jordan S. , Albelda Steven M. , Dang Chi V.
Published: April 2023

Supplementary Fig. S1. CA9 fails to enhance the cytolytic activity of NK-92 cells in vitro. Supplementary Fig. S2. NHE1 enhances in vitro cytotoxicity of NK-92 cells without affecting proliferation or survival. Supplementary Fig. S3. Representative three-dimensional (3D) reconstruction of confocal microscopic images of antibody-activated NK-92. Supplementary Fig. S4. NHE1 increases the protein expression of c-Myc in NK-92 cells. Supplementary Fig. S5. NHE1 enhances in vitro cytotoxicity of NK-92MI. Supplementary Table S1. Nucleotide sequence of codon-optimized, constitutively active human NHE1 cDNA. Supplementary Table S2. Differentially expressed genes between Na+/H+-exchanger 1 (NHE1)-expressing and empty vector NK-92 cells, ranked by log2(fold change).
Supplementary Methods from Uterine Lavage Identifies Cancer Mutations and Increased TP53 Somatic Mutation Burden in Individuals with Ovarian Cancer
Authors: Ghezelayagh Talayeh S. , Kohrn Brendan F. , Fredrickson Jeanne , Manhardt Enna , Radke Marc R. , Katz Ronit , Gray Heidi J. , Urban Renata R. , Pennington Kathryn P. , Liao John B. , Doll Kemi M. , Simons Elise J. , Burzawa Jennifer K. , Goff Barbara A. , Speiser Paul , Swisher Elizabeth M. , Norquist Barbara M. , Risques Rosa Ana
Published: April 2023

Supplementary Methods
Supplementary Figures 1-11 from Uterine Lavage Identifies Cancer Mutations and Increased TP53 Somatic Mutation Burden in Individuals with Ovarian Cancer
Authors: Ghezelayagh Talayeh S. , Kohrn Brendan F. , Fredrickson Jeanne , Manhardt Enna , Radke Marc R. , Katz Ronit , Gray Heidi J. , Urban Renata R. , Pennington Kathryn P. , Liao John B. , Doll Kemi M. , Simons Elise J. , Burzawa Jennifer K. , Goff Barbara A. , Speiser Paul , Swisher Elizabeth M. , Norquist Barbara M. , Risques Rosa Ana
Published: April 2023

S1. Experimental design

S2. Association between the variant allele frequency (VAF) of tumor mutations identified in uterine lavage with stage of the ovarian cancer (A) and preoperative CA-125 level (B)

S3. Gene distribution of the largest mutant clones identified in uterine lavage

S4. Correlations between Mutation Frequencies (MF) of genes commonly mutated in lavage DNA

S5. Comparison of Mutation Frequencies (MF) by patient group.

S6. Comparison of Mutation Frequency (MF) for individual genes in uterine lavages from patients with and without cancer

S7. Correlations between TP53 coding mutation frequency (MF) and age

S8. Distribution of driver and non-driver mutations identified in lavage DNA by gene and patient

S9. Mutation spectrum distribution of coding mutations detected in lavage DNA compared to ovarian cancer mutations reported in COSMIC

S10. Comparison of Variant Allele Frequency (VAF) of driver mutations in lavage DNA from patients with and without ovarian cancer

S11. Comparison of mutation burden (MB) of common ovarian cancer genes in lavage DNA from patients with and without ovarian cancer
Supplementary Data from A Phase I Study of Pelabresib (CPI-0610), a Small-Molecule Inhibitor of BET Proteins, in Patients with Relapsed or Refractory Lymphoma
Authors: Blum Kristie A. , Supko Jeffrey G. , Maris Michael B. , Flinn Ian W. , Goy Andre , Younes Anas , Bobba Suresh , Senderowicz Adrian M. , Efuni Sergey , Rippley Ronda , Colak Gozde , Trojer Patrick , Abramson Jeremy S.
Published: April 2023

Supplemental tables with the number of patients treated with number of cycles and the incidence of DLTs.
Supplementary Data Figures S1-S5 from Chemical, Molecular, and Single-nucleus Analysis Reveal Chondroitin Sulfate Proteoglycan Aberrancy in Fibrolamellar Carcinoma
Authors: Francisco Adam B. , Li Jine , Farghli Alaa R. , Kanke Matt , Shui Bo , Munn Paul R. , Grenier Jennifer K. , Soloway Paul D. , Wang Zhangjie , Reid Lola M. , Liu Jian , Sethupathy Praveen
Published: April 2023

All supplemental figures with legends.
Figures S1-7 from Evaluation of the DLL3-targeting Antibody–Drug Conjugate Rovalpituzumab Tesirine in Preclinical Models of Neuroblastoma
Authors: Krytska Kateryna , Casey Colleen E. , Pogoriler Jennifer , Martinez Daniel , Rathi Komal S. , Farrel Alvin , Berko Esther R. , Tsang Matthew , Sano Renata R. , Kendsersky Nathan , Erickson Stephen W. , Teicher Beverly A. , Isse Kumiko , Saunders Laura , Smith Malcolm A. , Maris John M. , Mossé Yael P.
Published: April 2023

Supplementary Figures 1-7 with legends included
Table S3 from Bintrafusp Alfa, an Anti-PD-L1:TGFβ Trap Fusion Protein, in Patients with ctDNA-positive, Liver-limited Metastatic Colorectal Cancer
Authors: Morris Van K. , Overman Michael J. , Lam Michael , Parseghian Christine M. , Johnson Benny , Dasari Arvind , Raghav Kanwal , Kee Bryan K. , Huey Ryan , Wolff Robert A. , Shen John Paul , Li June , Zorrilla Isabel , Tzeng Ching-Wei D. , Tran Cao Hop S. , Chun Yun Shin , Newhook Timothy E. , Vauthey Nicolas , Duose Dzifa , Luthra Raja , Haymaker Cara , Kopetz Scott
Published: April 2023

Supplemental Table S3
Supplementary Fig. S5 from Loss of Vascular Endothelial Glutaminase Inhibits Tumor Growth and Metastasis, and Increases Sensitivity to Chemotherapy
Authors: Ngwa Verra M. , Edwards Deanna N. , Hwang Yoonha , Karno Breelyn , Wang Xiaoyong , Yan Chi , Richmond Ann , Brantley-Sieders Dana M. , Chen Jin
Published: April 2023

This figure shows the quantification of lung metastases in WT or GLSECKO mice treated with Cisplatin. Representative images were shown in Figure 5E.
Supplementary Figure 3 from Protein Kinase C Alpha is a Central Node for Tumorigenic Transcriptional Networks in Human Prostate Cancer
Authors: Cooke Mariana , Zhang Xuyao , Zhang Suli , Eruslanov Evgeniy , Lal Priti , Daniel Reba E. , Feldman Michael D. , Abba Martin C. , Kazanietz Marcelo G.
Published: April 2023

Effect of treatment with Cdk4/6 and Cdk4 inhibitors in combination with PKCα RNAi silencing on prostate cancer cell viability.
Supplementary Data from The MDM2 Inhibitor Navtemadlin Arrests Mouse Melanoma Growth In Vivo and Potentiates Radiotherapy
Authors: Ingelshed Katrine , Spiegelberg Diana , Kannan Pavitra , Påvénius Linnéa , Hacheney Jessica , Jiang Long , Eisinger Silke , Lianoudaki Danai , Lama Dilraj , Castillo Francisca , Bosdotter Cecilia , Kretzschmar Warren W. , Al-Radi Omayma , Fritz Nicolas , Villablanca Eduardo J. , Karlsson Mikael C. I. , Wermeling Fredrik , Nestor Marika , Lane David P. , Sedimbi Saikiran K.
Published: April 2023

Complete list of proteins.
Figure S6 from The MDM2 Inhibitor Navtemadlin Arrests Mouse Melanoma Growth In Vivo and Potentiates Radiotherapy
Authors: Ingelshed Katrine , Spiegelberg Diana , Kannan Pavitra , Påvénius Linnéa , Hacheney Jessica , Jiang Long , Eisinger Silke , Lianoudaki Danai , Lama Dilraj , Castillo Francisca , Bosdotter Cecilia , Kretzschmar Warren W. , Al-Radi Omayma , Fritz Nicolas , Villablanca Eduardo J. , Karlsson Mikael C. I. , Wermeling Fredrik , Nestor Marika , Lane David P. , Sedimbi Saikiran K.
Published: April 2023

Flow data radiation + Navtemadlin combination.
Figure S1 from The MDM2 Inhibitor Navtemadlin Arrests Mouse Melanoma Growth In Vivo and Potentiates Radiotherapy
Authors: Ingelshed Katrine , Spiegelberg Diana , Kannan Pavitra , Påvénius Linnéa , Hacheney Jessica , Jiang Long , Eisinger Silke , Lianoudaki Danai , Lama Dilraj , Castillo Francisca , Bosdotter Cecilia , Kretzschmar Warren W. , Al-Radi Omayma , Fritz Nicolas , Villablanca Eduardo J. , Karlsson Mikael C. I. , Wermeling Fredrik , Nestor Marika , Lane David P. , Sedimbi Saikiran K.
Published: April 2023

Crispr deletion of p53 in clone 8.
Supplementary Table S1 from The Combination of Radiotherapy and Complement C3a Inhibition Potentiates Natural Killer cell Functions Against Pancreatic Cancer
Authors: Sodji Quaovi H. , Nambiar Dhanya K. , Viswanathan Vignesh , von Eyben Rie , Colburg Deana , Binkley Michael S. , Li Caiyun G. , Olcina Monica M. , Chang Daniel T. , Le Quynh-Thu , Giaccia Amato J.
Published: April 2023

Proportion of various immune cell type in TME of pancreatic cancer (TGCA).
Supplementary Figure S3 from ZL-1211 Exhibits Robust Antitumor Activity by Enhancing ADCC and Activating NK Cell–mediated Inflammation in CLDN18.2-High and -Low Expressing Gastric Cancer Models
Authors: Konno Hiroyasu , Lin Tracey , Wu Renyi , Dai Xinchuan , Li Shou , Wang Grace , Chen Min , Li Wenying , Wang Lina , Sun Bee-Chun , Luo Zhen , Huang Tom , Chen Yuping , Zhang John , Ye Qiuping , Bellovin David , Wan Bing , Kang Lishan , Szeto Christopher , Hsu Karl , Kabbarah Omar
Published: April 2023

Supplementary Figure 3 shows CLDN18.2 expression in gastric tumor cell lines and ZL-1211-induced CDC for the gastric tumor cell lines.
Supplementary Table S1 from Mitochondrial Matrix Protease ClpP Agonists Inhibit Cancer Stem Cell Function in Breast Cancer Cells by Disrupting Mitochondrial Homeostasis
Authors: Greer Yoshimi Endo , Hernandez Lidia , Fennell Emily M.J. , Kundu Manjari , Voeller Donna , Chari Raj , Gilbert Samuel F. , Gilbert Thomas S.K. , Ratnayake Shashikala , Tang Binwu , Hafner Markus , Chen Qingrong , Meerzaman Daoud , Iwanowicz Edwin , Annunziata Christina M. , Graves Lee M. , Lipkowitz Stanley
Published: April 2023

The list of materials and reagents used
Supplementary Methods and References from Mitochondrial Matrix Protease ClpP Agonists Inhibit Cancer Stem Cell Function in Breast Cancer Cells by Disrupting Mitochondrial Homeostasis
Authors: Greer Yoshimi Endo , Hernandez Lidia , Fennell Emily M.J. , Kundu Manjari , Voeller Donna , Chari Raj , Gilbert Samuel F. , Gilbert Thomas S.K. , Ratnayake Shashikala , Tang Binwu , Hafner Markus , Chen Qingrong , Meerzaman Daoud , Iwanowicz Edwin , Annunziata Christina M. , Graves Lee M. , Lipkowitz Stanley
Published: April 2023

Supplementary methods and references
Supplementary Figure S9 from Mitochondrial Matrix Protease ClpP Agonists Inhibit Cancer Stem Cell Function in Breast Cancer Cells by Disrupting Mitochondrial Homeostasis
Authors: Greer Yoshimi Endo , Hernandez Lidia , Fennell Emily M.J. , Kundu Manjari , Voeller Donna , Chari Raj , Gilbert Samuel F. , Gilbert Thomas S.K. , Ratnayake Shashikala , Tang Binwu , Hafner Markus , Chen Qingrong , Meerzaman Daoud , Iwanowicz Edwin , Annunziata Christina M. , Graves Lee M. , Lipkowitz Stanley
Published: April 2023

The effect of ClpP agonists on folate-mediated one carbon metabolism
Supplementary Figure S8 from Mitochondrial Matrix Protease ClpP Agonists Inhibit Cancer Stem Cell Function in Breast Cancer Cells by Disrupting Mitochondrial Homeostasis
Authors: Greer Yoshimi Endo , Hernandez Lidia , Fennell Emily M.J. , Kundu Manjari , Voeller Donna , Chari Raj , Gilbert Samuel F. , Gilbert Thomas S.K. , Ratnayake Shashikala , Tang Binwu , Hafner Markus , Chen Qingrong , Meerzaman Daoud , Iwanowicz Edwin , Annunziata Christina M. , Graves Lee M. , Lipkowitz Stanley
Published: April 2023

NAD+/NADH in CSC function
Supplementary Table ST5 from Expanding the Prostate Cancer Cell Line Repertoire with ACRJ-PC28, an AR-negative Neuroendocrine Cell Line Derived From an African-Caribbean Patient
Authors: Valentine Henkel , Aiken William , Morrison Belinda , Zhao Ziran , Fowle Holly , Wasserman Jason S. , Thompson Elon , Chin Warren , Young Mark , Clarke Shannique , Gibbs Denise , Harrison Sharon , McLaughlin Wayne , Kwok Tim , Jin Fang , Campbell Kerry S. , Horvath Anelia , Thompson Rory , Lee Norman H. , Zhou Yan , Graña Xavier , Ragin Camille , Badal Simone
Published: April 2023

Prostate cancer with neuroendocrine phenotype over-expresses MKI67, CD44, MYC, KLF4, MUC1, ENO2, POU5F1, EZH2, and SOX2. AR and KLK3 expression lost in neuroendocrine phenotype.
Supplementary Table ST4 from Expanding the Prostate Cancer Cell Line Repertoire with ACRJ-PC28, an AR-negative Neuroendocrine Cell Line Derived From an African-Caribbean Patient
Authors: Valentine Henkel , Aiken William , Morrison Belinda , Zhao Ziran , Fowle Holly , Wasserman Jason S. , Thompson Elon , Chin Warren , Young Mark , Clarke Shannique , Gibbs Denise , Harrison Sharon , McLaughlin Wayne , Kwok Tim , Jin Fang , Campbell Kerry S. , Horvath Anelia , Thompson Rory , Lee Norman H. , Zhou Yan , Graña Xavier , Ragin Camille , Badal Simone
Published: April 2023

Data from RNA-Seq analysis. Noteworthy were the gene ontologies with a high proportion of expressed genes, such as the nuclear compartment (28%), extracellular exosome compartment (15%), regulation of transcription (8%), apoptotic process (3%) and oxidation-reduction process (3%).
Supplemental Figure SF4: The cytotoxic effect of a Cannabis extract, THC_EX3 on the viability of ACRJ-CP28 and PC3 cell line. from Expanding the Prostate Cancer Cell Line Repertoire with ACRJ-PC28, an AR-negative Neuroendocrine Cell Line Derived From an African-Caribbean Patient
Authors: Valentine Henkel , Aiken William , Morrison Belinda , Zhao Ziran , Fowle Holly , Wasserman Jason S. , Thompson Elon , Chin Warren , Young Mark , Clarke Shannique , Gibbs Denise , Harrison Sharon , McLaughlin Wayne , Kwok Tim , Jin Fang , Campbell Kerry S. , Horvath Anelia , Thompson Rory , Lee Norman H. , Zhou Yan , Graña Xavier , Ragin Camille , Badal Simone
Published: April 2023

Cell viability was determined using the MTS assay and OD readings were taken a 409nm. Plots were generated in Microsoft Excel and each data point represents the average of three replicates. Experiments shown are representative of two independent experiments.
Supplementary Figure S1 from Mitochondrial Matrix Protease ClpP Agonists Inhibit Cancer Stem Cell Function in Breast Cancer Cells by Disrupting Mitochondrial Homeostasis
Authors: Greer Yoshimi Endo , Hernandez Lidia , Fennell Emily M.J. , Kundu Manjari , Voeller Donna , Chari Raj , Gilbert Samuel F. , Gilbert Thomas S.K. , Ratnayake Shashikala , Tang Binwu , Hafner Markus , Chen Qingrong , Meerzaman Daoud , Iwanowicz Edwin , Annunziata Christina M. , Graves Lee M. , Lipkowitz Stanley
Published: April 2023

The effect of ClpP agonists on cell viability and OxPhos in breast cancer cells
Supplementary Figure 2 from A Phase II Study Investigating Cabozantinib in Patients with Refractory Metastatic Colorectal Cancer (AGICC 17CRC01)
Authors: Scott Aaron J. , Basu Mallick Atrayee , Dotan Efrat , Cohen Steven J. , Gold Philip J. , Hochster Howard S. , Subramaniam Somasundaram , Barzi Afsaneh , Watts George S. , Blatchford Patrick J. , Messersmith Wells A.
Published: April 2023

Waterfall plot for maximum treatment response.
Supplementary Table S1 from Real-world Studies Link NSAID Use to Improved Overall Lung Cancer Survival
Authors: Roszik Jason , Lee J. Jack , Wu Yi-Hung , Liu Xi , Kawakami Masanori , Kurie Jonathan M. , Belouali Anas , Boca Simina M. , Gupta Samir , Beckman Robert A. , Madhavan Subha , Dmitrovsky Ethan
Published: April 2023

Supplemental Table 1. Nonsteroidal anti-inflammatory drugs analyzed by Natural Language Processing (NLP).
Supplementary Figure S5 from Real-world Studies Link NSAID Use to Improved Overall Lung Cancer Survival
Authors: Roszik Jason , Lee J. Jack , Wu Yi-Hung , Liu Xi , Kawakami Masanori , Kurie Jonathan M. , Belouali Anas , Boca Simina M. , Gupta Samir , Beckman Robert A. , Madhavan Subha , Dmitrovsky Ethan
Published: April 2023

Supplemental Figure 5. The Kaplan-Meier analysis of overall lung cancer survival by NSAID type in (A) the MD Anderson Cancer Center database (MD Anderson cohort) and (B) the Georgetown cohort. Patients who used multiple NSAID types were excluded from this analysis.
Supplementary Figures S1-S10 and Supplementary Information from Smoking-associated Downregulation of FILIP1L Enhances Lung Adenocarcinoma Progression Through Mucin Production, Inflammation, and Fibrosis
Authors: Kwon Mijung , Rubio Genesaret , Wang Haitao , Riedlinger Gregory , Adem Asha , Zhong Hua , Slegowski Daniel , Post-Zwicker Louisa , Chidananda Anshruta , Schrump David S. , Pine Sharon R. , Libutti Steven K.
Published: April 2023

Supplementary Figures and Supplementary information
Extended Dataset 3 from DDR2 Coordinates EMT and Metabolic Reprogramming as a Shared Effector of FOXQ1 and SNAI1
Authors: Mitchell Allison V. , Wu Jason , Meng Fanyan , Dong Lun , Block C. James , Song Won-min , Zhang Bin , Li Jing , Wu Guojun
Published: April 2023

Metabolomics analysis of comparison between BT549_NT and BT549_shDDR2 cell models
Extended Dataset 2 from DDR2 Coordinates EMT and Metabolic Reprogramming as a Shared Effector of FOXQ1 and SNAI1
Authors: Mitchell Allison V. , Wu Jason , Meng Fanyan , Dong Lun , Block C. James , Song Won-min , Zhang Bin , Li Jing , Wu Guojun
Published: April 2023

Metabolomics analysis of comparison between HMLE_FOXQ1 and HMLE_FOXQ1_shDDR2 cell models
Figure S3 from Tumor Cell Extrinsic Synaptogyrin 3 Expression as a Diagnostic and Prognostic Biomarker in Head and Neck Cancer
Authors: Murphy Ryan M. , Tasoulas Jason , Porrello Alessandro , Carper Miranda B. , Tsai Yi-Hsuan , Coffey Alisha R. , Kumar Sunil , Zeng Peter YF. , Schrank Travis P. , Midkiff Bentley R. , Cohen Stephanie , Salazar Ashley H. , Hayward Michele C. , Hayes D. Neil , Olshan Andrew , Gupta Gaorav P. , Nichols Anthony C. , Yarbrough Wendell G. , Pecot Chad V. , Amelio Antonio L.
Published: April 2023

Additional multiplex staining coexpression and ROI quantification.
Figure S1 from Tumor Cell Extrinsic Synaptogyrin 3 Expression as a Diagnostic and Prognostic Biomarker in Head and Neck Cancer
Authors: Murphy Ryan M. , Tasoulas Jason , Porrello Alessandro , Carper Miranda B. , Tsai Yi-Hsuan , Coffey Alisha R. , Kumar Sunil , Zeng Peter YF. , Schrank Travis P. , Midkiff Bentley R. , Cohen Stephanie , Salazar Ashley H. , Hayward Michele C. , Hayes D. Neil , Olshan Andrew , Gupta Gaorav P. , Nichols Anthony C. , Yarbrough Wendell G. , Pecot Chad V. , Amelio Antonio L.
Published: April 2023

HPV(+) and HPV(-) HNSC are characterized by distinct immunogenomic signatures.
Table S2 from Pathway-based Approach Reveals Differential Sensitivity to E2F1 Inhibition in Glioblastoma
Authors: Alvarado Alvaro G. , Tessema Kaleab , Muthukrishnan Sree Deepthi , Sober Mackenzie , Kawaguchi Riki , Laks Dan R. , Bhaduri Aparna , Swarup Vivek , Nathanson David A. , Geschwind Daniel H. , Goldman Steven A. , Kornblum Harley I.
Published: April 2023

GO terms and TF enriched in modules associated with GS clusters
Supplementary Table 2 from Mavorixafor, an Orally Bioavailable CXCR4 Antagonist, Increases Immune Cell Infiltration and Inflammatory Status of Tumor Microenvironment in Patients with Melanoma
Authors: Andtbacka Robert H.I. , Wang Yan , Pierce Robert H. , Campbell Jean S. , Yushak Melinda , Milhem Mohammed , Ross Merrick , Niland Katie , Arbeit Robert D. , Parasuraman Sudha , Bickley Kris , Yeung Cecilia CS , Aicher Lauri D. , Smythe Kimberly S. , Gan Lu
Published: April 2023

Serum cytokine and chemokine changes at the end of the 3-week monotherapy period compared to baseline.
Supplementary Figure 2 from Mavorixafor, an Orally Bioavailable CXCR4 Antagonist, Increases Immune Cell Infiltration and Inflammatory Status of Tumor Microenvironment in Patients with Melanoma
Authors: Andtbacka Robert H.I. , Wang Yan , Pierce Robert H. , Campbell Jean S. , Yushak Melinda , Milhem Mohammed , Ross Merrick , Niland Katie , Arbeit Robert D. , Parasuraman Sudha , Bickley Kris , Yeung Cecilia CS , Aicher Lauri D. , Smythe Kimberly S. , Gan Lu
Published: April 2023

Depiction of T cell clone mobilization from peripheral blood to melanoma site on day 1 and at EOT.
Figure S5 from Pathway-based Approach Reveals Differential Sensitivity to E2F1 Inhibition in Glioblastoma
Authors: Alvarado Alvaro G. , Tessema Kaleab , Muthukrishnan Sree Deepthi , Sober Mackenzie , Kawaguchi Riki , Laks Dan R. , Bhaduri Aparna , Swarup Vivek , Nathanson David A. , Geschwind Daniel H. , Goldman Steven A. , Kornblum Harley I.
Published: April 2023

E2F1 targeting with multiple sgRNA validate its role in sphere formation capacity in
a subset of samples
Supplemental Table S8 from Real-world Validation of TMB and Microsatellite Instability as Predictive Biomarkers of Immune Checkpoint Inhibitor Effectiveness in Advanced Gastroesophageal Cancer
Authors: Graf Ryon P. , Fisher Virginia , Creeden James , Schrock Alexa B. , Ross Jeffrey S. , Nimeiri Halla , Oxnard Geoffrey R. , Klempner Samuel J.
Published: April 2023

TMB and PD-L1 status and strata in the 2L and sequential cohorts.
Figure S1 from Pathway-based Approach Reveals Differential Sensitivity to E2F1 Inhibition in Glioblastoma
Authors: Alvarado Alvaro G. , Tessema Kaleab , Muthukrishnan Sree Deepthi , Sober Mackenzie , Kawaguchi Riki , Laks Dan R. , Bhaduri Aparna , Swarup Vivek , Nathanson David A. , Geschwind Daniel H. , Goldman Steven A. , Kornblum Harley I.
Published: April 2023

Consensus clustering identifies three clusters for the TCGA dataset
Supplemental Table S6 from Real-world Validation of TMB and Microsatellite Instability as Predictive Biomarkers of Immune Checkpoint Inhibitor Effectiveness in Advanced Gastroesophageal Cancer
Authors: Graf Ryon P. , Fisher Virginia , Creeden James , Schrock Alexa B. , Ross Jeffrey S. , Nimeiri Halla , Oxnard Geoffrey R. , Klempner Samuel J.
Published: April 2023

Summary of TMB ranges per cohort and PD-L1. The median and interquartile range of TMB is shown per group within the cohorts, grouped by PD-L1 status.
Supplemental Table S5 from Real-world Validation of TMB and Microsatellite Instability as Predictive Biomarkers of Immune Checkpoint Inhibitor Effectiveness in Advanced Gastroesophageal Cancer
Authors: Graf Ryon P. , Fisher Virginia , Creeden James , Schrock Alexa B. , Ross Jeffrey S. , Nimeiri Halla , Oxnard Geoffrey R. , Klempner Samuel J.
Published: April 2023

Summary of TMB ranges per cohort and MSI (TMB10+ only). The median and interquartile range of TMB is shown per group within the cohorts, grouped by MSI status.
Supplemental Table S4 from Real-world Validation of TMB and Microsatellite Instability as Predictive Biomarkers of Immune Checkpoint Inhibitor Effectiveness in Advanced Gastroesophageal Cancer
Authors: Graf Ryon P. , Fisher Virginia , Creeden James , Schrock Alexa B. , Ross Jeffrey S. , Nimeiri Halla , Oxnard Geoffrey R. , Klempner Samuel J.
Published: April 2023

Summary of TMB ranges per cohort and MSI. The median and interquartile range of TMB is shown per group within the cohorts, grouped by MSI status.
Figure S6 from Real-world Validation of TMB and Microsatellite Instability as Predictive Biomarkers of Immune Checkpoint Inhibitor Effectiveness in Advanced Gastroesophageal Cancer
Authors: Graf Ryon P. , Fisher Virginia , Creeden James , Schrock Alexa B. , Ross Jeffrey S. , Nimeiri Halla , Oxnard Geoffrey R. , Klempner Samuel J.
Published: April 2023

Unadjusted 1st line treatment-TMB interaction models from Supplemental Figure 3. The (A) TTNT and (B) OS interaction models are shown for for propensity adjusted analyses in Supplemental Figure 3.
Figure S5 from Real-world Validation of TMB and Microsatellite Instability as Predictive Biomarkers of Immune Checkpoint Inhibitor Effectiveness in Advanced Gastroesophageal Cancer
Authors: Graf Ryon P. , Fisher Virginia , Creeden James , Schrock Alexa B. , Ross Jeffrey S. , Nimeiri Halla , Oxnard Geoffrey R. , Klempner Samuel J.
Published: April 2023

Sequential TTNT treatment-TMB interaction model from Figure 3. The treatment interaction model from Figure 3C is shown numerically.
Supplementary Data S3 from On the Choice of Longitudinal Models for the Analysis of Antitumor Efficacy in Mouse Clinical Trials of Patient-derived Xenograft Models
Authors: Savel Hélène , Barbier Sandrine , Proust-Lima Cécile , Rondeau Virginie , Thiébaut Rodolphe , Meyer-Losic Florence , Richert Laura
Published: April 2023

Linear mixed-effects regression model
Supplementary Data S1 from On the Choice of Longitudinal Models for the Analysis of Antitumor Efficacy in Mouse Clinical Trials of Patient-derived Xenograft Models
Authors: Savel Hélène , Barbier Sandrine , Proust-Lima Cécile , Rondeau Virginie , Thiébaut Rodolphe , Meyer-Losic Florence , Richert Laura
Published: April 2023

Definition of summary measures of tumor growths used MCT endpoints in the literature.
Supplementary Data from Multicenter Phase II Trial of the PARP Inhibitor Olaparib in Recurrent IDH1- and IDH2-mutant Glioma
Authors: Fanucci Kristina , Pilat Mary Jo , Shyr Derek , Shyr Yu , Boerner Scott , Li Jing , Durecki Diane , Drappatz Jan , Puduvalli Vinay , Lieberman Frank Scott , Gonzalez Javier , Giglio Pierre , Ivy S. Percy , Bindra Ranjit S. , Omuro Antonio , LoRusso Patricia
Published: April 2023

Definition of Progression, Tumor Classification, and Eligibility Criteria, retreatment criteria
Fig. S5 from Targeting Lymphoma-associated Macrophage Expansion via CSF1R/JAK Inhibition is a Therapeutic Vulnerability in Peripheral T-cell Lymphomas
Authors: Gao Xin , Kady Nermin , Wang Chenguang , Abdelrahman Suhaib , Gann Peter , Sverdlov Maria , Wolfe Ashley , Brown Noah , Reneau John , Robida Aaron M. , Murga-Zamalloa Carlos , Wilcox Ryan A.
Published: April 2023

Macrophage depletion in MaFIA mice.
Fig. S2 from Targeting Lymphoma-associated Macrophage Expansion via CSF1R/JAK Inhibition is a Therapeutic Vulnerability in Peripheral T-cell Lymphomas
Authors: Gao Xin , Kady Nermin , Wang Chenguang , Abdelrahman Suhaib , Gann Peter , Sverdlov Maria , Wolfe Ashley , Brown Noah , Reneau John , Robida Aaron M. , Murga-Zamalloa Carlos , Wilcox Ryan A.
Published: April 2023

PTCL associated neutrophil and eosinophil expansion.
Data File DS3 from Targeting Lymphoma-associated Macrophage Expansion via CSF1R/JAK Inhibition is a Therapeutic Vulnerability in Peripheral T-cell Lymphomas
Authors: Gao Xin , Kady Nermin , Wang Chenguang , Abdelrahman Suhaib , Gann Peter , Sverdlov Maria , Wolfe Ashley , Brown Noah , Reneau John , Robida Aaron M. , Murga-Zamalloa Carlos , Wilcox Ryan A.
Published: April 2023

Agents used in high-throughput screen
Supplementary Figure S3 from Targeting Tumor Angiogenesis with the Selective VEGFR-3 Inhibitor EVT801 in Combination with Cancer Immunotherapy
Authors: Paillasse Michael R. , Esquerré Michael , Bertrand Florie A. , Poussereau-Pomié Céline , Pichery Mélanie , Visentin Virgile , Gueguen-Dorbes Geneviève , Gaujarengues Florence , Barron Pauline , Badet Gaelle , Briaux Anne , Ancey Pierre-Benoit , Sibrac David , Erdociain Eric , Özcelik Dennis , Meneyrol Jérôme , Martin Valérie , Gomez-Brouchet Anne , Selves Janik , Rochaix Philippe , Battistella Maxime , Lebbé Céleste , Delord Jean-Pierre , Dol-Gleizes Frédérique , Bono Françoise , Blanc Isabelle , Alam Antoine , Hunneyball Ian , Whittaker Mark , Fons Pierre
Published: April 2023

Supplementary Figure S3 shows the expression of VEGFR3 altogether with vascular and lymphatic markers in primary kidney tumors
Supplementary Figure S1 from Targeting Tumor Angiogenesis with the Selective VEGFR-3 Inhibitor EVT801 in Combination with Cancer Immunotherapy
Authors: Paillasse Michael R. , Esquerré Michael , Bertrand Florie A. , Poussereau-Pomié Céline , Pichery Mélanie , Visentin Virgile , Gueguen-Dorbes Geneviève , Gaujarengues Florence , Barron Pauline , Badet Gaelle , Briaux Anne , Ancey Pierre-Benoit , Sibrac David , Erdociain Eric , Özcelik Dennis , Meneyrol Jérôme , Martin Valérie , Gomez-Brouchet Anne , Selves Janik , Rochaix Philippe , Battistella Maxime , Lebbé Céleste , Delord Jean-Pierre , Dol-Gleizes Frédérique , Bono Françoise , Blanc Isabelle , Alam Antoine , Hunneyball Ian , Whittaker Mark , Fons Pierre
Published: April 2023

Supplementary Figure S1 shows that EVT801 metabolite is a selective VEGFR-3 inhibitor
Figure S5 from Nanoparticle STING Agonist Reprograms the Bone Marrow to an Antitumor Phenotype and Protects Against Bone Destruction
Authors: Florian David C. , Bennett Natalie E. , Odziomek Mateusz , Baljon Jessalyn J. , Wehbe Mohamed , Merkel Alyssa R. , Fischer Melissa A. , Savona Michael R. , Rhoades Julie A. , Guelcher Scott A. , Wilson John T.
Published: April 2023

Supplementary Figure 5: TRAP+ Osteoclasts in treated versus untreated tibiae.
Supplementary Table 4 from The Splicing Factor PTBP1 Represses TP63 γ Isoform Production in Squamous Cell Carcinoma
Authors: Taylor William , Deschamps Stéphane , Reboutier David , Paillard Luc , Méreau Agnès , Audic Yann
Published: April 2023

GO term enrichment analysis
Supplementary Table 3 from The Splicing Factor PTBP1 Represses TP63 γ Isoform Production in Squamous Cell Carcinoma
Authors: Taylor William , Deschamps Stéphane , Reboutier David , Paillard Luc , Méreau Agnès , Audic Yann
Published: April 2023

Differential gene expression
Supplementary Figure 2 from The Splicing Factor PTBP1 Represses TP63 γ Isoform Production in Squamous Cell Carcinoma
Authors: Taylor William , Deschamps Stéphane , Reboutier David , Paillard Luc , Méreau Agnès , Audic Yann
Published: April 2023

TP63 isoforms splicing in patients segregated by HPV status
Supplementary Figure S9 from The WAVE2/miR-29/Integrin-β1 Oncogenic Signaling Axis Promotes Tumor Growth and Metastasis in Triple-negative Breast Cancer
Authors: Rana Priyanka S. , Wang Wei , Markovic Vesna , Szpendyk Justin , Chan Ernest Ricky , Sossey-Alaoui Khalid
Published: April 2023

Western Blot analyses confirming exogenous expression of HA-tagged WAVE2 in HEK-293 cells.
Supplementary Table ST1. from Novel Paired Normal Prostate and Prostate Cancer Model Cell Systems Derived from African American Patients
Authors: Jung Mira , Kowalczyk Keith , Hankins Ryan , Bandi Gaurav , Kallakury Bhaskar , Carrasquilla Michael A. , Banerjee Partha P. , Grindrod Scott , Dritschilo Anatoly
Published: April 2023

Table S1. Clinical characterization of prostate cancer patients.
Supplementary Figure S1 from The WAVE2/miR-29/Integrin-β1 Oncogenic Signaling Axis Promotes Tumor Growth and Metastasis in Triple-negative Breast Cancer
Authors: Rana Priyanka S. , Wang Wei , Markovic Vesna , Szpendyk Justin , Chan Ernest Ricky , Sossey-Alaoui Khalid
Published: April 2023

Relationship between WAVE2 expression levels and breast Cancer subtypes and disease outcome.
Supplementary Data File SD1 from The WAVE2/miR-29/Integrin-β1 Oncogenic Signaling Axis Promotes Tumor Growth and Metastasis in Triple-negative Breast Cancer
Authors: Rana Priyanka S. , Wang Wei , Markovic Vesna , Szpendyk Justin , Chan Ernest Ricky , Sossey-Alaoui Khalid
Published: April 2023

Raw RNA-seq Data of control vs W2-KO MDA-MB-231 cells
Supplemental Figure SF2 from Incorporating RNA-based Risk Scores for Genomic Instability to Predict Breast Cancer Recurrence and Immunogenicity in a Diverse Population
Authors: Hamilton Alina M. , Van Alsten Sarah C. , Gao Xiaohua , Nsonwu-Farley Joseph , Calhoun Benjamin C. , Love Michael I. , Troester Melissa A. , Hoadley Katherine A.
Published: April 2023

Supplemental figure 2 displays unadjusted adaptive and innate scores according TP53, HRD and PD-L1 status, stratified by estrogen receptor status.
Supplementary Data File S2 from Multiregional Sequencing Analysis Reveals Extensive Genetic Heterogeneity in Gastric Tumors from Latinos
Authors: Toal Ted W. , Estrada-Florez Ana P. , Polanco-Echeverry Guadalupe M. , Sahasrabudhe Ruta M. , Lott Paul C. , Suarez-Olaya John J. , Guevara-Tique Alix A. , Rocha Sienna , Morales-Arana Alexa , Castro-Valencia Fabian , Urayama Shiro , Kirane Amanda , Wei Dongguang , Rios-Sarabia Nora , Medrano Rafael , Mantilla Alejandra , Echeverry de Polanco Magdalena , Torres Javier , Bohorquez-Lozano Mabel E. , Carvajal-Carmona Luis G.
Published: April 2023

Spreadsheet of sample mean sequencing depths
Table TS2 from Intertumoral Differences Dictate the Outcome of TGF-β Blockade on the Efficacy of Viro-Immunotherapy
Authors: Groeneveldt Christianne , van Ginkel Jurriaan Q. , Kinderman Priscilla , Sluijter Marjolein , Griffioen Lisa , Labrie Camilla , van den Wollenberg Diana J.M. , Hoeben Rob C. , van der Burg Sjoerd H. , ten Dijke Peter , Hawinkels Lukas J.A.C. , van Hall Thorbald , van Montfoort Nadine
Published: April 2023

Table S2. List of primers used for RT-qPCR analysis.
Supplementary Methods SM1 from Intertumoral Differences Dictate the Outcome of TGF-β Blockade on the Efficacy of Viro-Immunotherapy
Authors: Groeneveldt Christianne , van Ginkel Jurriaan Q. , Kinderman Priscilla , Sluijter Marjolein , Griffioen Lisa , Labrie Camilla , van den Wollenberg Diana J.M. , Hoeben Rob C. , van der Burg Sjoerd H. , ten Dijke Peter , Hawinkels Lukas J.A.C. , van Hall Thorbald , van Montfoort Nadine
Published: April 2023

Supplementary Methods 1. Methods for immunohistochemistry, Western Blotting, TGF-β1 ELISA and in vitro assays.
Table TS1 from Combination of a New Oral Demethylating Agent, OR2100, and Venetoclax for Treatment of Acute Myeloid Leukemia
Authors: Kamachi Kazuharu , Ureshino Hiroshi , Watanabe Tatsuro , Yoshida-Sakai Nao , Fukuda-Kurahashi Yuki , Kawasoe Kazunori , Hoshiko Toshimi , Yamamoto Yuta , Kurahashi Yuki , Kimura Shinya
Published: April 2023

IC50 in acute myeloid leukemia cell lines (µM)
Figure S3 from Intertumoral Differences Dictate the Outcome of TGF-β Blockade on the Efficacy of Viro-Immunotherapy
Authors: Groeneveldt Christianne , van Ginkel Jurriaan Q. , Kinderman Priscilla , Sluijter Marjolein , Griffioen Lisa , Labrie Camilla , van den Wollenberg Diana J.M. , Hoeben Rob C. , van der Burg Sjoerd H. , ten Dijke Peter , Hawinkels Lukas J.A.C. , van Hall Thorbald , van Montfoort Nadine
Published: April 2023

Figure S3. TGF-β addition or blockade does not affect reovirus replication in KPC3 and MC38 cells in vitro.
Figure S2 from Intertumoral Differences Dictate the Outcome of TGF-β Blockade on the Efficacy of Viro-Immunotherapy
Authors: Groeneveldt Christianne , van Ginkel Jurriaan Q. , Kinderman Priscilla , Sluijter Marjolein , Griffioen Lisa , Labrie Camilla , van den Wollenberg Diana J.M. , Hoeben Rob C. , van der Burg Sjoerd H. , ten Dijke Peter , Hawinkels Lukas J.A.C. , van Hall Thorbald , van Montfoort Nadine
Published: April 2023

Figure S2. Late TGF-β blockade does not affect tumor outgrowth.
Figure S1 from Intertumoral Differences Dictate the Outcome of TGF-β Blockade on the Efficacy of Viro-Immunotherapy
Authors: Groeneveldt Christianne , van Ginkel Jurriaan Q. , Kinderman Priscilla , Sluijter Marjolein , Griffioen Lisa , Labrie Camilla , van den Wollenberg Diana J.M. , Hoeben Rob C. , van der Burg Sjoerd H. , ten Dijke Peter , Hawinkels Lukas J.A.C. , van Hall Thorbald , van Montfoort Nadine
Published: April 2023

Figure S1. Inhibition of TGF-β signaling by the monoclonal antibody 1D11.
Supplementary Tables S1-S4 from Clinical Pharmacology and Determinants of Response to UCART19, an Allogeneic Anti-CD19 CAR-T Cell Product, in Adult B-cell Acute Lymphoblastic Leukemia
Authors: Dupouy Sandra , Marchiq Ibtissam , Derippe Thibaud , Almena-Carrasco Maria , Jozwik Agnieszka , Fouliard Sylvain , Adimy Yasmina , Geronimi Julia , Graham Charlotte , Jain Nitin , Maus Marcela V. , Mohty Mohamad , Boissel Nicolas , Teshima Takanori , Kato Koji , Benjamin Reuben , Balandraud Svetlana
Published: April 2023

Table S1: Representativeness of CALM study participants; Table S2: UCART19 dose and cellular kinetics analysis; Table S3: Characteristics of UCART19 PBMC donors; Table S4: Impact of UCART19 and alemtuzumab doses on UCART19 expansion.
Supplementary Materials & Methods SM1 from Clinical Pharmacology and Determinants of Response to UCART19, an Allogeneic Anti-CD19 CAR-T Cell Product, in Adult B-cell Acute Lymphoblastic Leukemia
Authors: Dupouy Sandra , Marchiq Ibtissam , Derippe Thibaud , Almena-Carrasco Maria , Jozwik Agnieszka , Fouliard Sylvain , Adimy Yasmina , Geronimi Julia , Graham Charlotte , Jain Nitin , Maus Marcela V. , Mohty Mohamad , Boissel Nicolas , Teshima Takanori , Kato Koji , Benjamin Reuben , Balandraud Svetlana
Published: April 2023

Additional information regarding the CALM study (including study population and summary results) and UCART19 product characterization.
Figure S1 from Combination of a New Oral Demethylating Agent, OR2100, and Venetoclax for Treatment of Acute Myeloid Leukemia
Authors: Kamachi Kazuharu , Ureshino Hiroshi , Watanabe Tatsuro , Yoshida-Sakai Nao , Fukuda-Kurahashi Yuki , Kawasoe Kazunori , Hoshiko Toshimi , Yamamoto Yuta , Kurahashi Yuki , Kimura Shinya
Published: April 2023

Figure S1. Cell growth inhibition by hypomethylating agent monotherapy in acute myeloid leikemia (AML).
Supplementary Figure SF1 from Mouse IgG2a Isotype Therapeutic Antibodies Elicit Superior Tumor Growth Control Compared with mIgG1 or mIgE
Authors: Vukovic Natasa , Segués Aina , Huang Shuyu , Waterfall Martin , Sijts Alice J.A.M. , Zaiss Dietmar M.
Published: April 2023

Quality control of anti-Thy1.1 antibodies.
Supplementary Figure S9 from IL9 Polarizes Macrophages to M1 and Induces the Infiltration of Antitumor Immune Cells via MIP-1 and CXCR3 Chemokines
Authors: Do-Thi Van Anh , Park Sang Min , Park Song Mi , Jeong Hye Jin , Cho Geunyoung , An Hyun-Jung , Kim Young Sang , Lee Hayyoung , Lee Jie-Oh
Published: April 2023

Bodyweight change of the tumor-implanted mice in Figure 6
Supplementary Figure S3 from IL9 Polarizes Macrophages to M1 and Induces the Infiltration of Antitumor Immune Cells via MIP-1 and CXCR3 Chemokines
Authors: Do-Thi Van Anh , Park Sang Min , Park Song Mi , Jeong Hye Jin , Cho Geunyoung , An Hyun-Jung , Kim Young Sang , Lee Hayyoung , Lee Jie-Oh
Published: April 2023

IL-9 promotes M1 polarization of macrophages in vitro
Supplementary Figure S4 from Trends of Ovarian Cancer Incidence by Histotype and Race/Ethnicity in the United States 1992–2019
Authors: Phung Minh Tung , Pearce Celeste Leigh , Meza Rafael , Jeon Jihyoun
Published: April 2023

Supplementary Figure 4 shows age-standardized incidence rate (per 1,000,000) of high-grade serous ovarian cancer by race/ethnicity. The incidence in the left panel did not include high-grade endometrioid cancer. The incidence in the right panel included high-grade endometrioid cancer in high-grade serous cancer.
Supplementary Figure S2 from Trends of Ovarian Cancer Incidence by Histotype and Race/Ethnicity in the United States 1992–2019
Authors: Phung Minh Tung , Pearce Celeste Leigh , Meza Rafael , Jeon Jihyoun
Published: April 2023

Supplementary Figure 2 shows age effects in the age-cohort models, SEER-12, 1992-2019
Supplemental Table 7 from Association Between Recreational Physical Activity and mTOR Signaling Pathway Protein Expression in Breast Tumor Tissue
Authors: Cheng Ting-Yuan David , Zhang Runzhi , Gong Zhihong , Qin Bo , Cannioto Rikki A. , Datta Susmita , Zhang Weizhou , Omilian Angela R. , Yao Song , Khoury Thaer , Hong Chi-Chen , Bandera Elisa V. , Ambrosone Christine B.
Published: April 2023

Supplemental Table 7 reported stratified analysis for Black and White race.
Supplemental Table 6 from Association Between Recreational Physical Activity and mTOR Signaling Pathway Protein Expression in Breast Tumor Tissue
Authors: Cheng Ting-Yuan David , Zhang Runzhi , Gong Zhihong , Qin Bo , Cannioto Rikki A. , Datta Susmita , Zhang Weizhou , Omilian Angela R. , Yao Song , Khoury Thaer , Hong Chi-Chen , Bandera Elisa V. , Ambrosone Christine B.
Published: April 2023

Supplemental Table 6 reports the association without adjusting diabetes history as a sensitivity analysis.
Supplemental Table 1 from Association Between Recreational Physical Activity and mTOR Signaling Pathway Protein Expression in Breast Tumor Tissue
Authors: Cheng Ting-Yuan David , Zhang Runzhi , Gong Zhihong , Qin Bo , Cannioto Rikki A. , Datta Susmita , Zhang Weizhou , Omilian Angela R. , Yao Song , Khoury Thaer , Hong Chi-Chen , Bandera Elisa V. , Ambrosone Christine B.
Published: April 2023

Supplemental Table 1 shows the distribution of protein expression in H-score
Supplementary Figure SF4 from Analysis of N-linked Glycan Alterations in Tissue and Serum Reveals Promising Biomarkers for Intrahepatic Cholangiocarcinoma
Authors: Ochoa-Rios Shaaron , Blaschke Calvin R.K. , Wang Mengjun , Peterson Kendell D. , DelaCourt Andrew , Grauzam Stéphane Elie , Lewin David , Angel Peggi , Roberts Lewis R. , Drake Richard , Mehta Anand S.
Published: April 2023

A. Scatterplots and correlations between N-glycans of interest (1339, 1257, 2158) and clinical information available (ALT, AST, ALK, and AFP). B. Multivariate model-Multiple logistic regression in CCA and PSC serum samples (n=40). Model 1: three N-glycans of interest and clinical information available (left panel). Model 2: Only the three N-glycans of interest (right panel). C. ROC curve of the combination of glycans and clinical information (red-solid line) and only glycans (green-dashed line) (left), classification performance table of the two models in B. p=0.5731, Delong’s test between model 1 and 2. CA19-9, ALT, AST, ALK, and AFP values were log-transformed for plotting and modeling convenience. logALT was removed from the multiple logistic regression analysis due to a high value of Variance inflation factor (VIF).
Supplementary Figure FS1 from Quantitative, Spatially Defined Expression of Leukocyte-associated Immunoglobulin-like Receptor in Non–small Cell Lung Cancer
Authors: Aung Thazin N. , Gavrielatou Niki , Vathiotis Ioannis A. , Fernandez Aileen I. , Shafi Saba , Yaghoobi Vesal , Burela Sneha , MacNeil Tyler , Ahmed Fahad Shabbir , Myint Han , Flies Dallas B. , Langermann Solomon , Rimm David L.
Published: April 2023

Antibody Validation. (A) LAIR-1 mean RNA expression across nine tumor types. Representative QIF images of antibody validation using four different anti-LAIR-1 antibody clones (B) E7X61, (C) NKT25, (D) 1A10 and (E) 1E4 targeting non-overlapping epitopes in a lung test array (YTMA–295) containing 35 lung tumor cores. CK: green, LAIR-1: red, DAPI: blue. Three clones NKT25, 1A10 and 1E4 were tested earlier in the experiment hence the serial TMA sections and E7X61 was tested in a TMA a few sections away from the earlier tested TMAs later at the stage of the experiment. The fluorescent channels where each marker was acquired were shown in brackets. (F) Correlation of LAIR-1 protein expression scores measured by AQUA between four antibody clones. (G) Correlation plot showing the good reproducibility of staining by 1E4 clone between two independent experiments. (H) Correlation plot showing high expression LAIR-1 in both tumor and stroma.
Supplementary Figure S4 from The Ubiquitin-specific Protease USP36 Associates with the Microprocessor Complex and Regulates miRNA Biogenesis by SUMOylating DGCR8
Authors: Li Yanping , Carey Timothy S. , Feng Catherine H. , Zhu Hong-Ming , Sun Xiao-Xin , Dai Mu-Shui
Published: April 2023

Supplementary Fig. S4 shows the effects of USP36 on DGCR8 ubiquitination and that USP36 SUMOylation of DGCR8 does not depend on its DUB activity.
Supplemental Figure 2 from Digital spatial profiling links beta-2-microglobulin expression with immune checkpoint blockade outcomes in head and neck squamous cell carcinoma
Authors: Gavrielatou Niki , Vathiotis Ioannis A. , Aung Thazin Nwe , Shafi Saba , Burela Sneha , Fernandez Aileen I. , Moutafi Myrto , Burtness Barbara A. , Economopoulou Panagiota , Anastasiou Maria , Foukas Periklis , Psyrri Amanda , Rimm David L.
Published: April 2023

b2m expression range, multivariate analysis of pfs and os and association with response and disease control in Athens cohort
Supplementary Figure S2 from Whole-genome and epigenomic landscapes of malignant gastrointestinal stromal tumors harboring KIT exon 11 557–558 deletion mutations
Authors: Ohshima Keiichi , Nagashima Takeshi , Fujiya Keiichi , Hatakeyama Keiichi , Watanabe Yuko , Morimoto Kimiko , Kamada Fukumi , Shimoda Yuji , Ohnami Sumiko , Naruoka Akane , Serizawa Masakuni , Ohnami Shumpei , Kenmotsu Hirotsugu , Shiomi Akio , Tsubosa Yasuhiro , Bando Etsuro , Sugiura Teiichi , Sugino Takashi , Terashima Masanori , Uesaka Katsuhiko , Urakami Kenichi , Akiyama Yasuto , Yamaguchi Ken
Published: April 2023

KIT exon 11 mutations detected in 30 GIST samples.
Supplementary Figure S1 from Whole-genome and epigenomic landscapes of malignant gastrointestinal stromal tumors harboring KIT exon 11 557–558 deletion mutations
Authors: Ohshima Keiichi , Nagashima Takeshi , Fujiya Keiichi , Hatakeyama Keiichi , Watanabe Yuko , Morimoto Kimiko , Kamada Fukumi , Shimoda Yuji , Ohnami Sumiko , Naruoka Akane , Serizawa Masakuni , Ohnami Shumpei , Kenmotsu Hirotsugu , Shiomi Akio , Tsubosa Yasuhiro , Bando Etsuro , Sugiura Teiichi , Sugino Takashi , Terashima Masanori , Uesaka Katsuhiko , Urakami Kenichi , Akiyama Yasuto , Yamaguchi Ken
Published: April 2023

Circos plots of the 30 GIST genomes in our study cohort.