bluuebunny/crossref_metadata_2025 huggingface dataset:
Video 1 from MAP4K3/GLK Promotes Lung Cancer Metastasis by Phosphorylating and Activating IQGAP1
Authors: Chuang Huai-Chia , Chang Chih-Chi , Teng Chiao-Fang , Hsueh Chia-Hsin , Chiu Li-Li , Hsu Pu-Ming , Lee Ming-Ching , Hsu Chung-Ping , Chen Yi-Rong , Liu Yi-Chung , Lyu Ping-Chiang , Tan Tse-Hua
Published: March 2023

Cell tracking in time-lapse microscopy images of primary lung epithelial cells from wild-type (WT), GLK-deficient (KO), and GLK transgenic (Polâ…¡-GLK)) mice. The tracked path of the mGFP-positive cell is shown as the line.
Supplementary file from MAP4K3/GLK Promotes Lung Cancer Metastasis by Phosphorylating and Activating IQGAP1
Authors: Chuang Huai-Chia , Chang Chih-Chi , Teng Chiao-Fang , Hsueh Chia-Hsin , Chiu Li-Li , Hsu Pu-Ming , Lee Ming-Ching , Hsu Chung-Ping , Chen Yi-Rong , Liu Yi-Chung , Lyu Ping-Chiang , Tan Tse-Hua
Published: March 2023

Supplementary Methods, Figures, and Movies - Supplementary File accompanying the manuscript provides additional details regarding the methods of immunoblotting, cell migration and proliferation assays, time-lapse live cell imaging, FRET, and in vitro kinase assays. Additionally, we also provide IHC data of mouse tissues (Fig. S1), cell migration assays using primary lung cells or lung cancer cell lines (Fig. S2-S6), PLA data (Fig. S7), as well as five N-SIM movies (Movies S1-S5).
Supplementary Figs S7,8 from ERBB3 and IGF1R Signaling Are Required for Nrf2-Dependent Growth in KEAP1-Mutant Lung Cancer
Authors: Vartanian Steffan , Lee James , Klijn Christiaan , Gnad Florian , Bagniewska Maria , Schaefer Gabriele , Zhang Donglu , Tan Jenille , Watson Sara A. , Liu Liling , Chen Honglin , Liang Yuxin , Watanabe Colin , Cuellar Trinna , Kan David , Hartmaier Ryan J. , Lau Ted , Costa Michael R. , Martin Scott E. , Merchant Mark , Haley Benjamin , Stokoe David
Published: March 2023

Figure S7,8. Effects of different compounds cell viability and genes included in CRISPR library
Supplementary Figs S5,6 from ERBB3 and IGF1R Signaling Are Required for Nrf2-Dependent Growth in KEAP1-Mutant Lung Cancer
Authors: Vartanian Steffan , Lee James , Klijn Christiaan , Gnad Florian , Bagniewska Maria , Schaefer Gabriele , Zhang Donglu , Tan Jenille , Watson Sara A. , Liu Liling , Chen Honglin , Liang Yuxin , Watanabe Colin , Cuellar Trinna , Kan David , Hartmaier Ryan J. , Lau Ted , Costa Michael R. , Martin Scott E. , Merchant Mark , Haley Benjamin , Stokoe David
Published: March 2023

Figure S5,6. Effects of Nrf2 knockdown in different growth conditions
Supplementary Figs S12-14 from ERBB3 and IGF1R Signaling Are Required for Nrf2-Dependent Growth in KEAP1-Mutant Lung Cancer
Authors: Vartanian Steffan , Lee James , Klijn Christiaan , Gnad Florian , Bagniewska Maria , Schaefer Gabriele , Zhang Donglu , Tan Jenille , Watson Sara A. , Liu Liling , Chen Honglin , Liang Yuxin , Watanabe Colin , Cuellar Trinna , Kan David , Hartmaier Ryan J. , Lau Ted , Costa Michael R. , Martin Scott E. , Merchant Mark , Haley Benjamin , Stokoe David
Published: March 2023

Figures S12-14. Effects of inhibiting ERBB2 and IGF1R
Supplementary Data from A Model of Indirect Cell Death Caused by Tumor Vascular Damage after High-Dose Radiotherapy
Authors: Rodríguez-Barbeito Pedro , Díaz-Botana Pablo , Gago-Arias Araceli , Feijoo Manuel , Neira Sara , Guiu-Souto Jacobo , López-Pouso Óscar , Gómez-Caamaño Antonio , Pardo-Montero Juan
Published: March 2023

Extended presentation of the FEM solver, capillary model, pimo diffusion, and sensitivity analysis
Supplementary Figs S1-4 from ERBB3 and IGF1R Signaling Are Required for Nrf2-Dependent Growth in KEAP1-Mutant Lung Cancer
Authors: Vartanian Steffan , Lee James , Klijn Christiaan , Gnad Florian , Bagniewska Maria , Schaefer Gabriele , Zhang Donglu , Tan Jenille , Watson Sara A. , Liu Liling , Chen Honglin , Liang Yuxin , Watanabe Colin , Cuellar Trinna , Kan David , Hartmaier Ryan J. , Lau Ted , Costa Michael R. , Martin Scott E. , Merchant Mark , Haley Benjamin , Stokoe David
Published: March 2023

Figure S1. Consequences of KEAP1 mutations on Nrf2 expression and ubiquitination Figure S2-4. Inducible knockdown of Nrf2 in KEAP1 mutant and WT cells and tumors
Supplementary Data from A Large-Cohort, Longitudinal Study Determines Precancer Disease Routes across Different Cancer Types
Authors: Hu Jessica X. , Helleberg Marie , Jensen Anders B. , Brunak Søren , Lundgren Jens
Published: March 2023

Table S1 Table S2 Table S3 Table S4
Figure S5 from T-Type Cav3.1 Channels Mediate Progression and Chemotherapeutic Resistance in Glioblastoma
Authors: Visa Anna , Sallán Marta C. , Maiques Oscar , Alza Lía , Talavera Elisabet , López-Ortega Ricard , Santacana Maria , Herreros Judit , Cantí Carles
Published: March 2023

Summary table containing data from our TMA studies.
Figure S2 from T-Type Cav3.1 Channels Mediate Progression and Chemotherapeutic Resistance in Glioblastoma
Authors: Visa Anna , Sallán Marta C. , Maiques Oscar , Alza Lía , Talavera Elisabet , López-Ortega Ricard , Santacana Maria , Herreros Judit , Cantí Carles
Published: March 2023

Cell death induced upon silencing Cav3.1 by shRNA through lentiviral infection occurs from day 5 after infection.
Supplementary Table S2 from Metastatic Tumor-in-a-Dish, a Novel Multicellular Organoid to Study Lung Colonization and Predict Therapeutic Response
Authors: Ramamoorthy Prabhu , Thomas Sufi Mary , Kaushik Gaurav , Subramaniam Dharmalingam , Chastain Katherine M. , Dhar Animesh , Tawfik Ossama , Kasi Anup , Sun Weijing , Ramalingam Satish , Gunewardena Sumedha , Umar Shahid , Mammen Joshua M. , Padhye Subhash B. , Weir Scott J. , Jensen Roy A. , Sittampalam G. Sitta , Anant Shrikant
Published: March 2023

TiD cultures better represent the response of cancer cell lines to chemotherapy than 2D cultures.
Supplementary Figures S6 S7 and Tables S4 S5 from Metastatic Tumor-in-a-Dish, a Novel Multicellular Organoid to Study Lung Colonization and Predict Therapeutic Response
Authors: Ramamoorthy Prabhu , Thomas Sufi Mary , Kaushik Gaurav , Subramaniam Dharmalingam , Chastain Katherine M. , Dhar Animesh , Tawfik Ossama , Kasi Anup , Sun Weijing , Ramalingam Satish , Gunewardena Sumedha , Umar Shahid , Mammen Joshua M. , Padhye Subhash B. , Weir Scott J. , Jensen Roy A. , Sittampalam G. Sitta , Anant Shrikant
Published: March 2023

Effect of drugs on primary colon and ovarian cancer cells grown in 2D and 3D cultures
Supplementary Figures S2 and S3 from Metastatic Tumor-in-a-Dish, a Novel Multicellular Organoid to Study Lung Colonization and Predict Therapeutic Response
Authors: Ramamoorthy Prabhu , Thomas Sufi Mary , Kaushik Gaurav , Subramaniam Dharmalingam , Chastain Katherine M. , Dhar Animesh , Tawfik Ossama , Kasi Anup , Sun Weijing , Ramalingam Satish , Gunewardena Sumedha , Umar Shahid , Mammen Joshua M. , Padhye Subhash B. , Weir Scott J. , Jensen Roy A. , Sittampalam G. Sitta , Anant Shrikant
Published: March 2023

Chemotherapeutic agents do not affect PLiD but affect cancer cells in TiD
Figure S6 from Radiosensitivity Is an Acquired Vulnerability of PARPi-Resistant BRCA1-Deficient Tumors
Authors: Barazas Marco , Gasparini Alessia , Huang Yike , Küçükosmanoğlu Asli , Annunziato Stefano , Bouwman Peter , Sol Wendy , Kersbergen Ariena , Proost Natalie , de Korte-Grimmerink Renske , van de Ven Marieke , Jonkers Jos , Borst Gerben R. , Rottenberg Sven
Published: March 2023

Supplementary Figure S6. Acquired inactivation of 53BP1 in KB1PM5 tumor-derived cell lines enhances radiosensitivity. Related to Figure 2.
Figure S5 from Radiosensitivity Is an Acquired Vulnerability of PARPi-Resistant BRCA1-Deficient Tumors
Authors: Barazas Marco , Gasparini Alessia , Huang Yike , Küçükosmanoğlu Asli , Annunziato Stefano , Bouwman Peter , Sol Wendy , Kersbergen Ariena , Proost Natalie , de Korte-Grimmerink Renske , van de Ven Marieke , Jonkers Jos , Borst Gerben R. , Rottenberg Sven
Published: March 2023

Supplementary Figure S5. Radiosensitization of BRCA1 deficient cells by 53BP1 depletion is dependent on DNA-PK. Related to Figure 2.
Supplementary Fig S1 from Metastatic Tumor-in-a-Dish, a Novel Multicellular Organoid to Study Lung Colonization and Predict Therapeutic Response
Authors: Ramamoorthy Prabhu , Thomas Sufi Mary , Kaushik Gaurav , Subramaniam Dharmalingam , Chastain Katherine M. , Dhar Animesh , Tawfik Ossama , Kasi Anup , Sun Weijing , Ramalingam Satish , Gunewardena Sumedha , Umar Shahid , Mammen Joshua M. , Padhye Subhash B. , Weir Scott J. , Jensen Roy A. , Sittampalam G. Sitta , Anant Shrikant
Published: March 2023

Schematics for development of PLiD and TiD, and infiltration of PBMCs in PLiD.
Figure S4 from Radiosensitivity Is an Acquired Vulnerability of PARPi-Resistant BRCA1-Deficient Tumors
Authors: Barazas Marco , Gasparini Alessia , Huang Yike , Küçükosmanoğlu Asli , Annunziato Stefano , Bouwman Peter , Sol Wendy , Kersbergen Ariena , Proost Natalie , de Korte-Grimmerink Renske , van de Ven Marieke , Jonkers Jos , Borst Gerben R. , Rottenberg Sven
Published: March 2023

Supplementary Figure S4. 53BP1 pathway inactivation induces drug resistance in KB1P-G3 tumor cells. Related to Figure 2.
Table S2 from ERRα Expression in Bone Metastases Leads to an Exacerbated Antitumor Immune Response
Authors: Bouchet Mathilde , Lainé Alexandra , Boyault Cyril , Proponnet-Guerault Mathilde , Meugnier Emmanuelle , Bouazza Lamia , Kan Casina W.S. , Geraci Sandra , El-Moghrabi Soumaya , Hernandez-Vargas Hector , Benetollo Claire , Yoshiko Yuji , Duterque-Coquillaud Martine , Clézardin Philippe , Marie Julien C. , Bonnelye Edith
Published: March 2023

Cytokines and inflammation sign gene expression array
Figure S3 from Radiosensitivity Is an Acquired Vulnerability of PARPi-Resistant BRCA1-Deficient Tumors
Authors: Barazas Marco , Gasparini Alessia , Huang Yike , Küçükosmanoğlu Asli , Annunziato Stefano , Bouwman Peter , Sol Wendy , Kersbergen Ariena , Proost Natalie , de Korte-Grimmerink Renske , van de Ven Marieke , Jonkers Jos , Borst Gerben R. , Rottenberg Sven
Published: March 2023

Supplementary Figure S3. Trp53bp1, Rif1 and Rev7 can be knocked out in KB1P-G3 tumor cells. Related to Figure 2.
Figure S2 from Radiosensitivity Is an Acquired Vulnerability of PARPi-Resistant BRCA1-Deficient Tumors
Authors: Barazas Marco , Gasparini Alessia , Huang Yike , Küçükosmanoğlu Asli , Annunziato Stefano , Bouwman Peter , Sol Wendy , Kersbergen Ariena , Proost Natalie , de Korte-Grimmerink Renske , van de Ven Marieke , Jonkers Jos , Borst Gerben R. , Rottenberg Sven
Published: March 2023

Supplementary Figure S2. 53BP1 and RAD51 profiling of KB1P-N and KB1P-RR tumors. Related to Figure 1.
Figure S5 from ERRα Expression in Bone Metastases Leads to an Exacerbated Antitumor Immune Response
Authors: Bouchet Mathilde , Lainé Alexandra , Boyault Cyril , Proponnet-Guerault Mathilde , Meugnier Emmanuelle , Bouazza Lamia , Kan Casina W.S. , Geraci Sandra , El-Moghrabi Soumaya , Hernandez-Vargas Hector , Benetollo Claire , Yoshiko Yuji , Duterque-Coquillaud Martine , Clézardin Philippe , Marie Julien C. , Bonnelye Edith
Published: March 2023

Effect of ERRa expression on CCL17, CCL20 TGF-b3 in human BCa cell lines.
Figure S4 from ERRα Expression in Bone Metastases Leads to an Exacerbated Antitumor Immune Response
Authors: Bouchet Mathilde , Lainé Alexandra , Boyault Cyril , Proponnet-Guerault Mathilde , Meugnier Emmanuelle , Bouazza Lamia , Kan Casina W.S. , Geraci Sandra , El-Moghrabi Soumaya , Hernandez-Vargas Hector , Benetollo Claire , Yoshiko Yuji , Duterque-Coquillaud Martine , Clézardin Philippe , Marie Julien C. , Bonnelye Edith
Published: March 2023

Cytotoxic activity in the spleen and the lung and CD8+ T proliferation
Figure S2 from ERRα Expression in Bone Metastases Leads to an Exacerbated Antitumor Immune Response
Authors: Bouchet Mathilde , Lainé Alexandra , Boyault Cyril , Proponnet-Guerault Mathilde , Meugnier Emmanuelle , Bouazza Lamia , Kan Casina W.S. , Geraci Sandra , El-Moghrabi Soumaya , Hernandez-Vargas Hector , Benetollo Claire , Yoshiko Yuji , Duterque-Coquillaud Martine , Clézardin Philippe , Marie Julien C. , Bonnelye Edith
Published: March 2023

"Minimal Network" of ESRRA, CCL17 and CCL20"
Figure S1 from ERRα Expression in Bone Metastases Leads to an Exacerbated Antitumor Immune Response
Authors: Bouchet Mathilde , Lainé Alexandra , Boyault Cyril , Proponnet-Guerault Mathilde , Meugnier Emmanuelle , Bouazza Lamia , Kan Casina W.S. , Geraci Sandra , El-Moghrabi Soumaya , Hernandez-Vargas Hector , Benetollo Claire , Yoshiko Yuji , Duterque-Coquillaud Martine , Clézardin Philippe , Marie Julien C. , Bonnelye Edith
Published: March 2023

Extended network default node
Supplementary Data from lnCAR: A Comprehensive Resource for lncRNAs from Cancer Arrays
Authors: Zheng Yueyuan , Xu Qingxian , Liu Mengni , Hu Huanjing , Xie Yubin , Zuo Zhixiang , Ren Jian
Published: March 2023

This file contains supplementary methods, 10 supplementary figures, and 3 supplementary tables: Fig. S1 - Comparison of the number of published gene expression datasets and RNA-Seq datasets from GEO database in cancer; Fig. S2 - Computational pipeline for re-annotation of microarray probes; Fig. S3 - Re-annotation of the array probes; Fig. S4 - A snapshot of the example for differential expression analysis in lnCAR; Fig. S5 - A snapshot of the example for survival analysis in lnCAR; Fig. S6 - A schematic workflow of My-lncRNA interface; Fig. S7 - A snapshot of the browse interface; Fig S8 - Differential expression of lncRNA HOTAIR between different breast cancer clinical factors; Fig. S9 - A large number of lncRNAs with potential clinical significance in various cancer types; Fig. S10 Relapse-free survival curves for four groups defined by known molecular subtypes of breast cancer;Table S1 Summary of the re-annotated probes in different platforms; Table S2 Sample information of all the datasets used for differential expression analysis; Table S3 Summary of the re-annotated probes in different platforms.
Supplementary Data from Susceptibility Perturbation MRI Maps Tumor Infiltration into Mesorectal Lymph Nodes
Authors: Santiago Inês , Santinha João , Ianus Andrada , Galzerano Antonio , Theias Rita , Maia Joana , Barata Maria J. , Loução Nuno , Costa-Silva Bruno , Beltran Antonio , Matos Celso , Shemesh Noam
Published: March 2023

Figure S1. Raw data from MGE MRI on a representative patient in-vivo at 1.5 T.
Video S1 from ICOS Is an Indicator of T-cell–Mediated Response to Cancer Immunotherapy
Authors: Xiao Zunyu , Mayer Aaron T. , Nobashi Tomomi W. , Gambhir Sanjiv S.
Published: March 2023

Video S1: Combo group Day 2 PET image
Supplementary Data from Targeting APLN/APLNR Improves Antiangiogenic Efficiency and Blunts Proinvasive Side Effects of VEGFA/VEGFR2 Blockade in Glioblastoma
Authors: Mastrella Giorgia , Hou Mengzhuo , Li Min , Stoecklein Veit M. , Zdouc Nina , Volmar Marie N.M. , Miletic Hrvoje , Reinhard Sören , Herold-Mende Christel C. , Kleber Susanne , Eisenhut Katharina , Gargiulo Gaetano , Synowitz Michael , Vescovi Angelo L. , Harter Patrick N. , Penninger Josef M. , Wagner Ernst , Mittelbronn Michel , Bjerkvig Rolf , Hambardzumyan Dolores , Schüller Ulrich , Tonn Jörg-Christian , Radke Josefine , Glass Rainer , Kälin Roland E.
Published: March 2023

Supplementary Text and Methods
Supplementary Table 1 from ICOS Is an Indicator of T-cell–Mediated Response to Cancer Immunotherapy
Authors: Xiao Zunyu , Mayer Aaron T. , Nobashi Tomomi W. , Gambhir Sanjiv S.
Published: March 2023

Table S1: Characterization of 89Zr-DFO-ICOS mAb, n=4
Figure S6 from Targeting APLN/APLNR Improves Antiangiogenic Efficiency and Blunts Proinvasive Side Effects of VEGFA/VEGFR2 Blockade in Glioblastoma
Authors: Mastrella Giorgia , Hou Mengzhuo , Li Min , Stoecklein Veit M. , Zdouc Nina , Volmar Marie N.M. , Miletic Hrvoje , Reinhard Sören , Herold-Mende Christel C. , Kleber Susanne , Eisenhut Katharina , Gargiulo Gaetano , Synowitz Michael , Vescovi Angelo L. , Harter Patrick N. , Penninger Josef M. , Wagner Ernst , Mittelbronn Michel , Bjerkvig Rolf , Hambardzumyan Dolores , Schüller Ulrich , Tonn Jörg-Christian , Radke Josefine , Glass Rainer , Kälin Roland E.
Published: March 2023

Apelin is expressed in tumor vessels.
Supplementary Figure 6 from ICOS Is an Indicator of T-cell–Mediated Response to Cancer Immunotherapy
Authors: Xiao Zunyu , Mayer Aaron T. , Nobashi Tomomi W. , Gambhir Sanjiv S.
Published: March 2023

Figure S6: The bar graphs above show the FACS analysis of ICOS expression (%) at Day 2 and Day 8 measured on CD4 and CD8 T cells from TDLN. On Day 2, anti PD-1 treated mice showed upregulation of ICOS in CD4 and CD8 T cells, compared to that of PBS group (~ 2-fold in CD4 T cells and 2.5-fold in CD8 T cells). On Day 8, ICOS levels on both CD4+ and CD8+ T cells decreased in the anti PD-1 treatment group, relative to that of Day 2, and PBS group remained similar with Day 2. (*: P<0.05, **: P<0.01, the data was presented as mean {plus minus} SD, n=5)
Figure S4 from Targeting APLN/APLNR Improves Antiangiogenic Efficiency and Blunts Proinvasive Side Effects of VEGFA/VEGFR2 Blockade in Glioblastoma
Authors: Mastrella Giorgia , Hou Mengzhuo , Li Min , Stoecklein Veit M. , Zdouc Nina , Volmar Marie N.M. , Miletic Hrvoje , Reinhard Sören , Herold-Mende Christel C. , Kleber Susanne , Eisenhut Katharina , Gargiulo Gaetano , Synowitz Michael , Vescovi Angelo L. , Harter Patrick N. , Penninger Josef M. , Wagner Ernst , Mittelbronn Michel , Bjerkvig Rolf , Hambardzumyan Dolores , Schüller Ulrich , Tonn Jörg-Christian , Radke Josefine , Glass Rainer , Kälin Roland E.
Published: March 2023

Anti-invasive role of apelin in orthotopic models of proneural and classical glioblastoma.
Supplementary Figure 4 from ICOS Is an Indicator of T-cell–Mediated Response to Cancer Immunotherapy
Authors: Xiao Zunyu , Mayer Aaron T. , Nobashi Tomomi W. , Gambhir Sanjiv S.
Published: March 2023

Figure S4: Correlation of Tumor and TDLN PET ROI with fold-change in tumor volume (Day8/Day0) in mice treated with anti PD-1 antibody i.p and PBS i.p.
Supplementary Figure 2 from ICOS Is an Indicator of T-cell–Mediated Response to Cancer Immunotherapy
Authors: Xiao Zunyu , Mayer Aaron T. , Nobashi Tomomi W. , Gambhir Sanjiv S.
Published: March 2023

Figure S2: Day7 biodistribution study of Combo, STING i.t, PD-1 i.t and PBS i.t groups (n{greater than or equal to}3): the quantification of TDLN was expressed as %ID, other organs were expressed as %ID/g. All values represent the mean {plus minus} SD unless otherwise specified. Two-way ANOVA and unpaired 2-tailed student's t-test were used for analysis. (*: P<0.05, **: P<0.01, ***: P<0.001, ****: P<0.0001, the data was presented as Mean {plus minus} SD)
Figure S2 from Targeting APLN/APLNR Improves Antiangiogenic Efficiency and Blunts Proinvasive Side Effects of VEGFA/VEGFR2 Blockade in Glioblastoma
Authors: Mastrella Giorgia , Hou Mengzhuo , Li Min , Stoecklein Veit M. , Zdouc Nina , Volmar Marie N.M. , Miletic Hrvoje , Reinhard Sören , Herold-Mende Christel C. , Kleber Susanne , Eisenhut Katharina , Gargiulo Gaetano , Synowitz Michael , Vescovi Angelo L. , Harter Patrick N. , Penninger Josef M. , Wagner Ernst , Mittelbronn Michel , Bjerkvig Rolf , Hambardzumyan Dolores , Schüller Ulrich , Tonn Jörg-Christian , Radke Josefine , Glass Rainer , Kälin Roland E.
Published: March 2023

Glioblastoma cell- and host-derived apelin controls tumor angiogenesis.
Figure S1 from Targeting APLN/APLNR Improves Antiangiogenic Efficiency and Blunts Proinvasive Side Effects of VEGFA/VEGFR2 Blockade in Glioblastoma
Authors: Mastrella Giorgia , Hou Mengzhuo , Li Min , Stoecklein Veit M. , Zdouc Nina , Volmar Marie N.M. , Miletic Hrvoje , Reinhard Sören , Herold-Mende Christel C. , Kleber Susanne , Eisenhut Katharina , Gargiulo Gaetano , Synowitz Michael , Vescovi Angelo L. , Harter Patrick N. , Penninger Josef M. , Wagner Ernst , Mittelbronn Michel , Bjerkvig Rolf , Hambardzumyan Dolores , Schüller Ulrich , Tonn Jörg-Christian , Radke Josefine , Glass Rainer , Kälin Roland E.
Published: March 2023

Apelin expression is correlated with angiogenesis in human glioblastoma.
Supplementary Data from Optical Radiomic Signatures Derived from Optical Coherence Tomography Images Improve Identification of Melanoma
Authors: Turani Zahra , Fatemizadeh Emad , Blumetti Tatiana , Daveluy Steven , Moraes Ana Flavia , Chen Wei , Mehregan Darius , Andersen Peter E. , Nasiriavanaki Mohammadreza
Published: March 2023

Supplementary file includes two sections entitled "Preprocessing" and "Mie simulations". 14 figures and 8 tables. Fig S1 shows a schematic diagram of the Michelson Diagnostics SS-OCT, Fig S2 shows histologic photographs and OCT images of melanoma and nevus cases, Fig S3 is the pre-processing procedure optimization flowchart, Fig S4, S5, S6 and S7 are related to optical properties of melanoma and benign nevus, Fig S8 indicates the results of classifier, Fig S9 and 10 show ROC and AUC curves for the selected classifiers, Fig S11 shows absorption coefficients with linearized X-axis, Fig S12, S13 and 14 are related to preprocessing optimization strategies. Table S1 shows the material used in phantom construction, Table S2 lists the specifications of melanoma and benign lesions, Table S3 shows definitions of diagnostic statistics, Table S4 and S5 are related to classification results, Table S6, S7 and S8 show the relation between physical characteristics of particles and their optical properties.
Supplementary Figure 4 from Natural Killer–Derived Exosomal miR-186 Inhibits Neuroblastoma Growth and Immune Escape Mechanisms
Authors: Neviani Paolo , Wise Petra M. , Murtadha Mariam , Liu Cathy W. , Wu Chun-Hua , Jong Ambrose Y. , Seeger Robert C. , Fabbri Muller
Published: March 2023

Ex vivo images of orthotopic neuroblastoma treated with miR-186 carrying nanoparticles (or controls).
Supplementary Figure 3 from Natural Killer–Derived Exosomal miR-186 Inhibits Neuroblastoma Growth and Immune Escape Mechanisms
Authors: Neviani Paolo , Wise Petra M. , Murtadha Mariam , Liu Cathy W. , Wu Chun-Hua , Jong Ambrose Y. , Seeger Robert C. , Fabbri Muller
Published: March 2023

Expression of GD2 and CXCR4 in neuroblastoma cells and uptake of nanoparticle delivered miR-186
Supplementary Data from Natural Killer–Derived Exosomal miR-186 Inhibits Neuroblastoma Growth and Immune Escape Mechanisms
Authors: Neviani Paolo , Wise Petra M. , Murtadha Mariam , Liu Cathy W. , Wu Chun-Hua , Jong Ambrose Y. , Seeger Robert C. , Fabbri Muller
Published: March 2023

Supplementary Tables, Figures and Figure Legends
Supplementary Tables 2-4 from Nod1 Imprints Inflammatory and Carcinogenic Responses toward the Gastric Pathogen Helicobacter pylori
Authors: Suarez Giovanni , Romero-Gallo Judith , Piazuelo Maria B. , Sierra Johanna C. , Delgado Alberto G. , Washington M. Kay , Shah Shailja C. , Wilson Keith T. , Peek Richard M.
Published: March 2023

Chemokine and cytokine expression in C57BL/6 mice at 2, 20, and 90 days post-infection with H. pylori PMSS1
Supplementary Tables 10-13 from Nod1 Imprints Inflammatory and Carcinogenic Responses toward the Gastric Pathogen Helicobacter pylori
Authors: Suarez Giovanni , Romero-Gallo Judith , Piazuelo Maria B. , Sierra Johanna C. , Delgado Alberto G. , Washington M. Kay , Shah Shailja C. , Wilson Keith T. , Peek Richard M.
Published: March 2023

Chemokine and cytokine expression in INS-GAS mice at 2, 20, 40, and 90 days post-infection with H. pylori PMSS1.
Supplementary Figures from Blockade of β-Catenin–Induced CCL28 Suppresses Gastric Cancer Progression via Inhibition of Treg Cell Infiltration
Authors: Ji Lu , Qian Wei , Gui Liming , Ji Zhongzhong , Yin Pan , Lin Guan Ning , Wang You , Ma Bin , Gao Wei-Qiang
Published: March 2023

Supplementary data of in vitro cell line experiments, human stomach tumor database/sample analysis and animal experiments.
Supplementary Table S1 from Golgi-Localized PAQR4 Mediates Antiapoptotic Ceramidase Activity in Breast Cancer
Authors: Pedersen Line , Panahandeh Pouda , Siraji Muntequa I. , Knappskog Stian , Lønning Per Eystein , Gordillo Ruth , Scherer Philipp E. , Molven Anders , Teigen Knut , Halberg Nils
Published: March 2023

Supplementary Table
Supplementary figure 5 from RIPK3-Induced Inflammation by I-MDSCs Promotes Intestinal Tumors
Authors: Jayakumar Asha , Bothwell Alfred L.M.
Published: March 2023

T cells in MC38 tumors treated with MDSCs
Supplementary Table 2 from Oncogene-Induced Senescence Limits the Progression of Pancreatic Neoplasia through Production of Activin A
Authors: Zhao Yajie , Wu Zhichong , Chanal Marie , Guillaumond Fabienne , Goehrig Delphine , Bachy Sophie , Principe Moitza , Ziverec Audrey , Flaman Jean-Michel , Collin Guillaume , Tomasini Richard , Pasternack Arja , Ritvos Olli , Vasseur Sophie , Bernard David , Hennino Ana , Bertolino Philippe
Published: March 2023

Primer pairs used for real-time quantitative RT-PCR.
Supplementary Material & figure legends from Oncogene-Induced Senescence Limits the Progression of Pancreatic Neoplasia through Production of Activin A
Authors: Zhao Yajie , Wu Zhichong , Chanal Marie , Guillaumond Fabienne , Goehrig Delphine , Bachy Sophie , Principe Moitza , Ziverec Audrey , Flaman Jean-Michel , Collin Guillaume , Tomasini Richard , Pasternack Arja , Ritvos Olli , Vasseur Sophie , Bernard David , Hennino Ana , Bertolino Philippe
Published: March 2023

Supplementary Material & figure legends
Supplementary Data from Oncogene-Induced Senescence Limits the Progression of Pancreatic Neoplasia through Production of Activin A
Authors: Zhao Yajie , Wu Zhichong , Chanal Marie , Guillaumond Fabienne , Goehrig Delphine , Bachy Sophie , Principe Moitza , Ziverec Audrey , Flaman Jean-Michel , Collin Guillaume , Tomasini Richard , Pasternack Arja , Ritvos Olli , Vasseur Sophie , Bernard David , Hennino Ana , Bertolino Philippe
Published: March 2023

Supplemental Materials & Methods and Figures 1-12. Figure S1: Analysis of mouse WT pancreases, exposed to short-term sActRIIB-Fc treatment. Figure S2: Inactivation of Acvr1b, combined with oncogenic Kras, results in the development of enlarged ADM lesions. Figure S3: Smad2 phosphorylation is blunted in 4KC neoplastic pancreatic lesions. Figure S4: Cultures of KC acinar cells, embedded in 3D-collagen, recapitulate ADM. Figure S5: Colocalization of ALK4/Activin A in KC pancreatic lesions. Figure S6: Disruption of ALK4-expression reduces Kras-OIS in ADM, in vitro. Figure S7: inhibition of Activin A signaling blocks Smad2 phosphorylation and inhibits the subsequent induction of p21. Figure S8: Disruption of ALK4 expression reduces Kras-OIS in ADM, in vivo. Figure S9: Disruption of ALK4 expression promotes the proliferation of ADM lesions. Figure S10: Analysis of mouse 4KC pancreases exposed to short-term sActRIIB-Fc treatment. Figure S11: Ki67 expression in ALK4-expressing KC lesions, following sActRIIB-Fc treatment. Figure S12: Disruption of ALK4-expression promotes the formation of pancreatic cystic lesions.
Supplementary Table S1 from LncSpA: LncRNA Spatial Atlas of Expression across Normal and Cancer Tissues
Authors: Lv Dezhong , Xu Kang , Jin Xiyun , Li Junyi , Shi Yuchen , Zhang Mengying , Jin Xiaoyan , Li Yongsheng , Xu Juan , Li Xia
Published: March 2023

The information of each lncRNA transcriptome resources.
Supplementary Figures and Text from LncSpA: LncRNA Spatial Atlas of Expression across Normal and Cancer Tissues
Authors: Lv Dezhong , Xu Kang , Jin Xiyun , Li Junyi , Shi Yuchen , Zhang Mengying , Jin Xiaoyan , Li Yongsheng , Xu Juan , Li Xia
Published: March 2023

Supplementary figures S1-S8 and supplementary text S1.
Supplementary Figure 4 from Biophysicochemical Motifs in T-cell Receptor Sequences Distinguish Repertoires from Tumor-Infiltrating Lymphocyte and Adjacent Healthy Tissue
Authors: Ostmeyer Jared , Christley Scott , Toby Inimary T. , Cowell Lindsay G.
Published: March 2023

multiple 4-mers per CDR3
Supplementary Figures from ACE: A Workbench Using Evolutionary Genetic Algorithms for Analyzing Association in TCGA
Authors: Gilmore Alan R. , Alderdice Matthew , Savage Kienan I. , O'Reilly Paul G. , Roddy Aideen C. , Dunne Philip D. , Lawler Mark , McDade Simon S. , Waugh David J. , McArt Darragh G.
Published: March 2023

Supplementary figure 1. ACE analysis in BRCA dataset identifies genes associated with CT62 expression. Supplementary figure 2. ACE analysis in BRCA dataset identifies proteins associated with CT62 mRNA expression. Supplementary figure 3. ACE analysis in BRCA dataset identifies methylated genes associated with CT62 mRNA expression. Supplementary figure 4. ACE analysis in BRCA dataset identifies microRNAs associated with CT62 mRNA expression. Supplementary figure 5. ACE analysis in BRCA dataset identifies clinical parameters associated with CT62 mRNA expression.
Breast Cancer Model Weights from Biophysicochemical Motifs in T-cell Receptor Sequences Distinguish Repertoires from Tumor-Infiltrating Lymphocyte and Adjacent Healthy Tissue
Authors: Ostmeyer Jared , Christley Scott , Toby Inimary T. , Cowell Lindsay G.
Published: March 2023

Supplementary Table 7: Model weights for all 17 breast cancer models
Supplementary Data from Activation of Estrogen Receptor Alpha by Decitabine Inhibits Osteosarcoma Growth and Metastasis
Authors: Lillo Osuna Maria Angeles , Garcia-Lopez Jesus , El Ayachi Ikbale , Fatima Iram , Khalid Aysha B. , Kumpati Jerusha , Slayden Alexandria V. , Seagroves Tiffany N. , Miranda-Carboni Gustavo A. , Krum Susan A.
Published: March 2023

Supplementary Figure 1. Media and serum effect on 143B cells. Supplementary Figure 2. Publicly available osteosarcoma data. Supplementary Figure 3. Effects of DAC on U2OS cells. Supplementary Figure 4. Effects of DAC on MG63 cells. Supplementary Figure 5. Over-expression of ERα in U2OS cells Supplementary Figure 6. U2OS and 143B spheres. Supplementary Figure 7. Metastasis-associated markers' expression.
Supplementary Data from A Functional Landscape of Resistance to MEK1/2 and CDK4/6 Inhibition in NRAS-Mutant Melanoma
Authors: Hayes Tikvah K. , Luo Flora , Cohen Ofir , Goodale Amy B. , Lee Yenarae , Pantel Sasha , Bagul Mukta , Piccioni Federica , Root David E. , Garraway Levi A. , Meyerson Matthew , Johannessen Cory M.
Published: March 2023

Supplementary Table 1 contains the enrichment scores for the candidates from both the ORF and CRISPR screens
Supplementary Data from Drug Sensitivity and Allele Specificity of First-Line Osimertinib Resistance EGFR Mutations
Authors: Starrett Jacqueline H. , Guernet Alexis A. , Cuomo Maria Emanuela , Poels Kamrine E. , van Alderwerelt van Rosenburgh Iris K. , Nagelberg Amy , Farnsworth Dylan , Price Kristin S. , Khan Hina , Ashtekar Kumar Dilip , Gaefele Mmaserame , Ayeni Deborah , Stewart Tyler F. , Kuhlmann Alexandra , Kaech Susan M. , Unni Arun M. , Homer Robert , Lockwood William W. , Michor Franziska , Goldberg Sarah B. , Lemmon Mark A. , Smith Paul D. , Cross Darren A.E. , Politi Katerina
Published: March 2023

Supplementary Methods, Supplementary Tables S1-5, and Supplementary Figures S1-9
Supplementary Methods from A Feed-Forward Mechanosignaling Loop Confers Resistance to Therapies Targeting the MAPK Pathway in BRAF-Mutant Melanoma
Authors: Girard Christophe A. , Lecacheur Margaux , Ben Jouira Rania , Berestjuk Ilona , Diazzi Serena , Prod'homme Virginie , Mallavialle Aude , Larbret Frédéric , Gesson Maéva , Schaub Sébastien , Pisano Sabrina , Audebert Stéphane , Mari Bernard , Gaggioli Cédric , Leucci Eleonora , Marine Jean-Christophe , Deckert Marcel , Tartare-Deckert Sophie
Published: March 2023

Supplementary Methods
Figures S5 and S6 from A Feed-Forward Mechanosignaling Loop Confers Resistance to Therapies Targeting the MAPK Pathway in BRAF-Mutant Melanoma
Authors: Girard Christophe A. , Lecacheur Margaux , Ben Jouira Rania , Berestjuk Ilona , Diazzi Serena , Prod'homme Virginie , Mallavialle Aude , Larbret Frédéric , Gesson Maéva , Schaub Sébastien , Pisano Sabrina , Audebert Stéphane , Mari Bernard , Gaggioli Cédric , Leucci Eleonora , Marine Jean-Christophe , Deckert Marcel , Tartare-Deckert Sophie
Published: March 2023

BRAF and MEK inhibition induces F-actin remodeling, YAP/MRTF activation and focal adhesion assembly in BRAF-mutant melanoma cells
Figure S8 from A Feed-Forward Mechanosignaling Loop Confers Resistance to Therapies Targeting the MAPK Pathway in BRAF-Mutant Melanoma
Authors: Girard Christophe A. , Lecacheur Margaux , Ben Jouira Rania , Berestjuk Ilona , Diazzi Serena , Prod'homme Virginie , Mallavialle Aude , Larbret Frédéric , Gesson Maéva , Schaub Sébastien , Pisano Sabrina , Audebert Stéphane , Mari Bernard , Gaggioli Cédric , Leucci Eleonora , Marine Jean-Christophe , Deckert Marcel , Tartare-Deckert Sophie
Published: March 2023

BRAF inhibition drives collagen deposition and stiffening in M229 xenograft melanoma tumor
Figure S4 from A Feed-Forward Mechanosignaling Loop Confers Resistance to Therapies Targeting the MAPK Pathway in BRAF-Mutant Melanoma
Authors: Girard Christophe A. , Lecacheur Margaux , Ben Jouira Rania , Berestjuk Ilona , Diazzi Serena , Prod'homme Virginie , Mallavialle Aude , Larbret Frédéric , Gesson Maéva , Schaub Sébastien , Pisano Sabrina , Audebert Stéphane , Mari Bernard , Gaggioli Cédric , Leucci Eleonora , Marine Jean-Christophe , Deckert Marcel , Tartare-Deckert Sophie
Published: March 2023

F-actin and fibronectin stainings in M238P and M238R cells
Supplementary Material S5 from A Tumor-in-Host DEB-Based Approach for Modeling Cachexia and Bevacizumab Resistance
Authors: Tosca Elena M. , Rocchetti Maurizio , Pesenti Enrico , Magni Paolo
Published: March 2023

Tables of the energy reduction due to the tumor growth in 3 cell lines
Supplementary Figure S3 from Activation of Canonical BMP4-SMAD7 Signaling Suppresses Breast Cancer Metastasis
Authors: Eckhardt Bedrich L. , Cao Yuan , Redfern Andrew D. , Chi Lap Hing , Burrows Allan D. , Roslan Suraya , Sloan Erica K. , Parker Belinda S. , Loi Sherene , Ueno Naoto T. , Lau Peter K. H. , Latham Bruce , Anderson Robin L.
Published: March 2023

Figure S3 shows that BMP4 does not alter migration or invasion in vitro and that BMP7 can also inhibit metastasis.
Supplementary Table III from A Pygopus 2-Histone Interaction Is Critical for Cancer Cell Dedifferentiation and Progression in Malignant Breast Cancer
Authors: Saxena Meera , Kalathur Ravi K.R. , Rubinstein Natalia , Vettiger Andrea , Sugiyama Nami , Neutzner Melanie , Coto-Llerena Mairene , Kancherla Venkatesh , Ercan Caner , Piscuoglio Salvatore , Fischer Jonas , Fagiani Ernesta , Cantù Claudio , Basler Konrad , Christofori Gerhard
Published: March 2023

Excel file list of differentially expressed extracellular matrix genes (ECM) in untreated (UT) or Wnt3a-treated (Wnt3a) AE/AE mutant cells.
Supplemental Table from A Runaway PRH/HHEX-Notch3–Positive Feedback Loop Drives Cholangiocarcinoma and Determines Response to CDK4/6 Inhibition
Authors: Kitchen Philip , Lee Ka Ying , Clark Danielle , Lau Nikki , Lertsuwan Jomnarong , Sawasdichai Anyaporn , Satayavivad Jutamaad , Oltean Sebastian , Afford Simon , Gaston Kevin , Jayaraman Padma-Sheela
Published: March 2023

Table primer pairs
Supplemental Figures 1-7 from A Runaway PRH/HHEX-Notch3–Positive Feedback Loop Drives Cholangiocarcinoma and Determines Response to CDK4/6 Inhibition
Authors: Kitchen Philip , Lee Ka Ying , Clark Danielle , Lau Nikki , Lertsuwan Jomnarong , Sawasdichai Anyaporn , Satayavivad Jutamaad , Oltean Sebastian , Afford Simon , Gaston Kevin , Jayaraman Padma-Sheela
Published: March 2023

Fig.S1 effects of PRH KD Fig.S2 effects of PRH OE Fig.S3 Gene expression and gene ontology Fig.S4 Heat maps Fig.S5 ChIP sequencing Fig.S6 Dose response curves Fig. S7 Western blotting Rb expression
Suppl. Video 3 from A Pygopus 2-Histone Interaction Is Critical for Cancer Cell Dedifferentiation and Progression in Malignant Breast Cancer
Authors: Saxena Meera , Kalathur Ravi K.R. , Rubinstein Natalia , Vettiger Andrea , Sugiyama Nami , Neutzner Melanie , Coto-Llerena Mairene , Kancherla Venkatesh , Ercan Caner , Piscuoglio Salvatore , Fischer Jonas , Fagiani Ernesta , Cantù Claudio , Basler Konrad , Christofori Gerhard
Published: March 2023

Suppl. Video 3: Confocal analysis of a Pygo2+/+ tumor spheroid stained for Axin-2. (Related to Figure S2D).
Supplementary Methods from MEF2c-Dependent Downregulation of Myocilin Mediates Cancer-Induced Muscle Wasting and Associates with Cachexia in Patients with Cancer
Authors: Judge Sarah M. , Deyhle Michael R. , Neyroud Daria , Nosacka Rachel L. , D'Lugos Andrew C. , Cameron Miles E. , Vohra Ravneet S. , Smuder Ashley J. , Roberts Brandon M. , Callaway Chandler S. , Underwood Patrick W. , Chrzanowski Stephen M. , Batra Abhinandan , Murphy Meghan E. , Heaven Jonathan D. , Walter Glenn A. , Trevino Jose G. , Judge Andrew R.
Published: March 2023

Supplemental methods
Supplemental Tables S3 and S4 from MEF2c-Dependent Downregulation of Myocilin Mediates Cancer-Induced Muscle Wasting and Associates with Cachexia in Patients with Cancer
Authors: Judge Sarah M. , Deyhle Michael R. , Neyroud Daria , Nosacka Rachel L. , D'Lugos Andrew C. , Cameron Miles E. , Vohra Ravneet S. , Smuder Ashley J. , Roberts Brandon M. , Callaway Chandler S. , Underwood Patrick W. , Chrzanowski Stephen M. , Batra Abhinandan , Murphy Meghan E. , Heaven Jonathan D. , Walter Glenn A. , Trevino Jose G. , Judge Andrew R.
Published: March 2023

PDAC correlation matrices
Supplementary Data from Extracellular Vesicles from Cancer-Associated Fibroblasts Containing Annexin A6 Induces FAK-YAP Activation by Stabilizing β1 Integrin, Enhancing Drug Resistance
Authors: Uchihara Tomoyuki , Miyake Keisuke , Yonemura Atsuko , Komohara Yoshihiro , Itoyama Rumi , Koiwa Mayu , Yasuda Tadahito , Arima Kota , Harada Kazuto , Eto Kojiro , Hayashi Hiromitsu , Iwatsuki Masaaki , Iwagami Shiro , Baba Yoshifumi , Yoshida Naoya , Yashiro Masakazu , Masuda Mari , Ajani Jaffer A. , Tan Patrick , Baba Hideo , Ishimoto Takatsugu
Published: March 2023

Supplementary Information
Supplementary Table 4 from Pattern of Invasion in Human Pancreatic Cancer Organoids Is Associated with Loss of SMAD4 and Clinical Outcome
Authors: Huang Wenjie , Navarro-Serer Bernat , Jeong Yea Ji , Chianchiano Peter , Xia Limin , Luchini Claudio , Veronese Nicola , Dowiak Cameron , Ng Tammy , Trujillo Maria A. , Huang Bo , Pflüger Michael J. , Macgregor-Das Anne M. , Lionheart Gemma , Jones Danielle , Fujikura Kohei , Nguyen-Ngoc Kim-Vy , Neumann Neil M. , Groot Vincent P. , Hasanain Alina , van Oosten A. Floortje , Fischer Sandra E. , Gallinger Steven , Singhi Aatur D. , Zureikat Amer H. , Brand Randall E. , Gaida Matthias M. , Heinrich Stefan , Burkhart Richard A. , He Jin , Wolfgang Christopher L. , Goggins Michael G. , Thompson Elizabeth D. , Roberts Nicholas J. , Ewald Andrew J. , Wood Laura D.
Published: March 2023

Somatic Mutations Identified in Primary PDAC Samples by Targeted Next Generation Sequencing
Supplementary Materials and Methods from Brain Tumor Stem Cell Dependence on Glutaminase Reveals a Metabolic Vulnerability through the Amino Acid Deprivation Response Pathway
Authors: Restall Ian J. , Cseh Orsolya , Richards Laura M. , Pugh Trevor J. , Luchman H. Artee , Weiss Samuel
Published: March 2023

Supplementary Materials and Methods
Supplementary Mathematical Model from Modeling Acquired Resistance to the Second-Generation Androgen Receptor Antagonist Enzalutamide in the TRAMP Model of Prostate Cancer
Authors: Cerasuolo Marianna , Maccarinelli Federica , Coltrini Daniela , Mahmoud Ali Mokhtar , Marolda Viviana , Ghedini Gaia Cristina , Rezzola Sara , Giacomini Arianna , Triggiani Luca , Kostrzewa Magdalena , Verde Roberta , Paris Debora , Melck Dominique , Presta Marco , Ligresti Alessia , Ronca Roberto
Published: March 2023

Supplemantary informations for the model parameterization
Figure S1 from Modeling Acquired Resistance to the Second-Generation Androgen Receptor Antagonist Enzalutamide in the TRAMP Model of Prostate Cancer
Authors: Cerasuolo Marianna , Maccarinelli Federica , Coltrini Daniela , Mahmoud Ali Mokhtar , Marolda Viviana , Ghedini Gaia Cristina , Rezzola Sara , Giacomini Arianna , Triggiani Luca , Kostrzewa Magdalena , Verde Roberta , Paris Debora , Melck Dominique , Presta Marco , Ligresti Alessia , Ronca Roberto
Published: March 2023

Enzalutamide does not induce apoptosis in TRAMP-C2 cells
Supplementary Data from Bidirectional Regulation between NDRG1 and GSK3β Controls Tumor Growth and Is Targeted by Differentiation Inducing Factor-1 in Glioblastoma
Authors: Ito Hiroshi , Watari Kosuke , Shibata Tomohiro , Miyamoto Tomofumi , Murakami Yuichi , Nakahara Yukiko , Izumi Hiroto , Wakimoto Hiroaki , Kuwano Michihiko , Abe Tatsuya , Ono Mayumi
Published: March 2023

Supplementary materials and methods
Figures S2 and S3 from Extracellular-Regulated Protein Kinase 5-Mediated Control of p21 Expression Promotes Macrophage Proliferation Associated with Tumor Growth and Metastasis
Authors: Giurisato Emanuele , Lonardi Silvia , Telfer Brian , Lussoso Sarah , Risa-Ebrí Blanca , Zhang Jingwei , Russo Ilaria , Wang Jinhua , Santucci Annalisa , Finegan Katherine G. , Gray Nathanael S. , Vermi William , Tournier Cathy
Published: March 2023

These supplementary data show that the reduction in the number of TAMs caused by myeloid ERK5 deficiency correlates with reduced melanoma cell proliferation in melanoma grafts.
Figure S6 from Extracellular-Regulated Protein Kinase 5-Mediated Control of p21 Expression Promotes Macrophage Proliferation Associated with Tumor Growth and Metastasis
Authors: Giurisato Emanuele , Lonardi Silvia , Telfer Brian , Lussoso Sarah , Risa-Ebrí Blanca , Zhang Jingwei , Russo Ilaria , Wang Jinhua , Santucci Annalisa , Finegan Katherine G. , Gray Nathanael S. , Vermi William , Tournier Cathy
Published: March 2023

These supplementary data show that myeloid ERK5 deficiency reduces the number of proliferating macrophages in carcinoma grafts.
Supplementary Table 2 from Fibroblasts from Distinct Pancreatic Pathologies Exhibit Disease-Specific Properties
Authors: Barrera Lawrence N. , Evans Anthony , Lane Brian , Brumskill Sarah , Oldfield Frances E. , Campbell Fiona , Andrews Timothy , Lu Zipeng , Perez-Mancera Pedro A. , Liloglou Triantafillos , Ashworth Milton , Jalali Mehdi , Dawson Rebecca , Nunes Quentin , Phillips Phoebe A. , Timms John F. , Halloran Christopher , Greenhalf William , Neoptolemos John P. , Costello Eithne
Published: March 2023

Top upstream regulators significantly enriched in PDAC vs PAT and PAT vs CP, as determined using IPA.
Supplemental Methods from Fibroblasts from Distinct Pancreatic Pathologies Exhibit Disease-Specific Properties
Authors: Barrera Lawrence N. , Evans Anthony , Lane Brian , Brumskill Sarah , Oldfield Frances E. , Campbell Fiona , Andrews Timothy , Lu Zipeng , Perez-Mancera Pedro A. , Liloglou Triantafillos , Ashworth Milton , Jalali Mehdi , Dawson Rebecca , Nunes Quentin , Phillips Phoebe A. , Timms John F. , Halloran Christopher , Greenhalf William , Neoptolemos John P. , Costello Eithne
Published: March 2023

Supplementary Material and Methods
Supplementary Appendix from In Situ DESI-MSI Lipidomic Profiles of Breast Cancer Molecular Subtypes and Precursor Lesions
Authors: Santoro Adriana Leandra , Drummond Rodrigo D. , Silva Israel Tojal , Ferreira Severino S. , Juliano Luiz , Vendramini Pedro H. , Lemos Monique Batista da Costa , Eberlin Marcos N. , Andrade Victor Piana
Published: March 2023

Samples classifications, ions identified based on visual inspection and statistical analysis, different representative molecular images and mass spectra for each tumor type and tandem mass spectrometry data for metabolite identification.
Supplementary Data 2 from An LTR Retrotransposon-Derived Long Noncoding RNA lncMER52A Promotes Hepatocellular Carcinoma Progression by Binding p120-Catenin
Authors: Wu Yangjun , Zhao Yiming , Huan Lin , Zhao Jingjing , Zhou Yuqiang , Xu Linguo , Hu Zhixiang , Liu Yizhe , Chen Zhiao , Wang Lu , Huang Shenglin , He Xianghuo , Liang Linhui
Published: March 2023

The list of 464 HCC-specific lncRNAs.
Supplementary Material and Method from CoA Synthase (COASY) Mediates Radiation Resistance via PI3K Signaling in Rectal Cancer
Authors: Ferrandon Sylvain , DeVecchio Jennifer , Duraes Leonardo , Chouhan Hanumant , Karagkounis Georgios , Davenport Jacqueline , Orloff Matthew , Liska David , Kalady Matthew F.
Published: March 2023

Supplementary Material and Method
Table S7 from Topological Tumor Graphs: A Graph-Based Spatial Model to Infer Stromal Recruitment for Immunosuppression in Melanoma Histology
Authors: Failmezger Henrik , Muralidhar Sathya , Rullan Antonio , de Andrea Carlos E. , Sahai Erik , Yuan Yinyin
Published: March 2023

Pathways enriched for genes upregulated in tumours with high stromal clustering
Table S4 from Topological Tumor Graphs: A Graph-Based Spatial Model to Infer Stromal Recruitment for Immunosuppression in Melanoma Histology
Authors: Failmezger Henrik , Muralidhar Sathya , Rullan Antonio , de Andrea Carlos E. , Sahai Erik , Yuan Yinyin
Published: March 2023

Pathways enriched for genes downreguleted in tumours with high stromal barrier
Table S1 from Topological Tumor Graphs: A Graph-Based Spatial Model to Infer Stromal Recruitment for Immunosuppression in Melanoma Histology
Authors: Failmezger Henrik , Muralidhar Sathya , Rullan Antonio , de Andrea Carlos E. , Sahai Erik , Yuan Yinyin
Published: March 2023

Description of the patients, biopsy sites and dates for the sequential sample cohort.
Supplementary Fig S5 from Topological Tumor Graphs: A Graph-Based Spatial Model to Infer Stromal Recruitment for Immunosuppression in Melanoma Histology
Authors: Failmezger Henrik , Muralidhar Sathya , Rullan Antonio , de Andrea Carlos E. , Sahai Erik , Yuan Yinyin
Published: March 2023

Figure S5
Supplementary Fig S3 from Topological Tumor Graphs: A Graph-Based Spatial Model to Infer Stromal Recruitment for Immunosuppression in Melanoma Histology
Authors: Failmezger Henrik , Muralidhar Sathya , Rullan Antonio , de Andrea Carlos E. , Sahai Erik , Yuan Yinyin
Published: March 2023

Figure S3
Supplementary Fig S1 from Topological Tumor Graphs: A Graph-Based Spatial Model to Infer Stromal Recruitment for Immunosuppression in Melanoma Histology
Authors: Failmezger Henrik , Muralidhar Sathya , Rullan Antonio , de Andrea Carlos E. , Sahai Erik , Yuan Yinyin
Published: March 2023

Figure S1
Supplementary Data from Glucose-6-Phosphate Dehydrogenase Is Not Essential for K-Ras–Driven Tumor Growth or Metastasis
Authors: Ghergurovich Jonathan M. , Esposito Mark , Chen Zihong , Wang Joshua Z. , Bhatt Vrushank , Lan Taijin , White Eileen , Kang Yibin , Guo Jessie Yanxiang , Rabinowitz Joshua D.
Published: March 2023

This file contains additional figures related to findings from the described subcutaneous xenograft experiments, the primary murine NSCLC experiments and the metastatic breast cancer xenograft experiments. In addition, it contains a table listing the oligonucleotide sequences utilized in our genetic studies.
Supplementary Data Fig. S6 from Lymphoma Angiogenesis Is Orchestrated by Noncanonical Signaling Pathways
Authors: Gloger Marleen , Menzel Lutz , Grau Michael , Vion Anne-Clemence , Anagnostopoulos Ioannis , Zapukhlyak Myroslav , Gerlach Kerstin , Kammertöns Thomas , Hehlgans Thomas , Zschummel Maria , Lenz Georg , Gerhardt Holger , Höpken Uta E. , Rehm Armin
Published: March 2023

Influence of LT beta receptor signaling on HEVs
Supplementary Data from Bromodomain-Selective BET Inhibitors Are Potent Antitumor Agents against MYC-Driven Pediatric Cancer
Authors: Slavish P. Jake , Chi Liying , Yun Mi-Kyung , Tsurkan Lyudmila , Martinez Nancy E. , Jonchere Barbara , Chai Sergio C. , Connelly Michele , Waddell M. Brett , Das Sourav , Neale Geoffrey , Li Zhenmei , Shadrick William R. , Olsen Rachelle R. , Freeman Kevin W. , Low Jonathan A. , Price Jeanine E. , Young Brandon M. , Bharatham Nagakumar , Boyd Vincent A. , Yang Jun , Lee Richard E. , Morfouace Marie , Roussel Martine F. , Chen Taosheng , Savic Daniel , Guy R. Kiplin , White Stephen W. , Shelat Anang A. , Potter Philip M.
Published: March 2023

This file contains 16 Supplemental tables and 14 Supplemental Figures, as well as numerous NMR traces, synthetic chemistry schemes, mass spectra, tables, multiple graphics related to gene expression profiles, dose response curves, x-ray structures, westerns, etc.