bluuebunny/crossref_metadata_2025 huggingface dataset:
Supplementary Text, Figure Legends, Figures S1-S12 from Biomarker Accessible and Chemically Addressable Mechanistic Subtypes of BRAF Melanoma
Authors: Eskiocak Banu , McMillan Elizabeth A. , Mendiratta Saurabh , Kollipara Rahul K. , Zhang Hailei , Humphries Caroline G. , Wang Changguang , Garcia-Rodriguez Jose , Ding Ming , Zaman Aubhishek , Rosales Tracy I. , Eskiocak Ugur , Smith Michael P. , Sudderth Jessica , Komurov Kakajan , Deberardinis Ralph J. , Wellbrock Claudia , Davies Michael A. , Wargo Jennifer A. , Yu Yonghao , De Brabander Jef K. , Williams Noelle S. , Chin Lynda , Rizos Helen , Long Georgina V. , Kittler Ralf , White Michael A.
Published: April 2023

Supplemental Figure S1. Integrative Analysis of Functional Genomics and Copy Number Variation in Melanoma Cells and Tissues, Supplemental Figure S2. Elastic Net Derived Biomarker Results for Melanoma Survival Genes and Detection of These Biomarkers in TCGA SKCM, Supplemental Figure S3. The SOX10 Regulatory Network Supporting Cell Autonomous Melanoma Cell Growth and Survival, Supplemental Figure S4. SOX10 Addiction Specifies Sensitivity of BRAF Mutant Melanomas to BRAF and MEK Inhibitors In Vitro, Related to Figure 1, Supplemental Figure S5. SOX10 Addiction Specifies Sensitivity of BRAF Mutant Melanomas to BRAF and MEK Inhibitors In Patients, Related to Figure 2, Supplemental Figure S6. Bicluster of melanoma cell lines and chemical compounds in McDermott/Benes GDSC dataset, Related to Figure 3, Supplemental Figure S7. Nomination of TBK1 as a Therapeutic Target for Drug-Resistant Melanoma, Related to Figure 3, Supplemental Figure S8. TBK1/IKKε-Addiction is Conserved In Vivo, Related to Figure 4, Supplemental Figure S9. TBK1/IKKε-Addiction Corresponds to a Cell Autonomous Innate Immune Melanoma Subtype, Related to Figure 5, Supplemental Figure S10. TBK1/IKKε Activate AKT and YAP to Support Survival of the Cell-autonomous Immune Melanoma Subtype, Related to Figure 6, Supplemental Figure S11. 13C glucose and 13C glutamine metabolism at 30m and 2h, Related to Figure 7 and Supplemental Fig. S7, Supplemental Figure S12. Distinct Epigenetic Cell Fate Programs Specify TBK1/IKKε Addiction, Related to Figure 7.
Supplementary Figure S7 from PTEN Regulates Glutamine Flux to Pyrimidine Synthesis and Sensitivity to Dihydroorotate Dehydrogenase Inhibition
Authors: Mathur Deepti , Stratikopoulos Elias , Ozturk Sait , Steinbach Nicole , Pegno Sarah , Schoenfeld Sarah , Yong Raymund , Murty Vundavalli V. , Asara John M. , Cantley Lewis C. , Parsons Ramon
Published: April 2023

Supplementary Figure S7. Model.
Supplementary Tables 1 through 4 and Supplementary Figures 1 through 7 from Phase I Dose-Escalation Study of Taselisib, an Oral PI3K Inhibitor, in Patients with Advanced Solid Tumors
Authors: Juric Dejan , Krop Ian , Ramanathan Ramesh K. , Wilson Timothy R. , Ware Joseph A. , Sanabria Bohorquez Sandra M. , Savage Heidi M. , Sampath Deepak , Salphati Laurent , Lin Ray S. , Jin Huan , Parmar Hema , Hsu Jerry Y. , Von Hoff Daniel D. , Baselga José
Published: April 2023

Supplementary Table S1. Patient Demographics and Disease Characteristics. Supplementary Table S2. Treatment-Related Adverse Events of Grade 3 or Higher Observed in either Cycle 1 or Cycle greater than or equal to 2. Supplementary Table S3. Adverse Events in greater than or equal to 10% of Patients Regardless of Attribution. Supplementary Table S4. Adverse Events of Grade 3 or Higher Regardless of Attribution. Supplementary Figure S1. Trellis plot of individual and fitted tumor volumes to day 21 following treatment with taselisib (GDC-0032). Supplementary Figure S2. PI3K pathway suppression was evaluated in KPL-4 tumor xenografts following a single oral dose of 1, 5 and 25 mg/kg taselisib or MCT (0.5% methylcellulose/0.2% Tween-80) vehicle at the time points indicated. Supplementary Figure S3. Schematic showing the decision-making related to selection of recommended dose for future studies. Supplementary Figure S4. Mean plasma concentration vs. time following single dose on day 1 (A) and multiple dose on day 15 (B). Supplementary Figure S5. Duration of treatment of patients treated via PIK3CA mutation status and dose level. Supplementary Figure S6. Antitumor activity observed with taselisib treatment. Supplementary Figure S7. Example of patient with partial response upon taselisib treatment and changes in circulating tumor DNA (ctDNA).
Supplementary Figure S1 from PTEN Regulates Glutamine Flux to Pyrimidine Synthesis and Sensitivity to Dihydroorotate Dehydrogenase Inhibition
Authors: Mathur Deepti , Stratikopoulos Elias , Ozturk Sait , Steinbach Nicole , Pegno Sarah , Schoenfeld Sarah , Yong Raymund , Murty Vundavalli V. , Asara John M. , Cantley Lewis C. , Parsons Ramon
Published: April 2023

Supplementary Figure S1. Loss of Pten increases proliferation.
Supplementary Figure S9 from Gut Microbiota Promotes Obesity-Associated Liver Cancer through PGE2-Mediated Suppression of Antitumor Immunity
Authors: Loo Tze Mun , Kamachi Fumitaka , Watanabe Yoshihiro , Yoshimoto Shin , Kanda Hiroaki , Arai Yuriko , Nakajima-Takagi Yaeko , Iwama Atsushi , Koga Tomoaki , Sugimoto Yukihiko , Ozawa Takayuki , Nakamura Masaru , Kumagai Miho , Watashi Koichi , Taketo Makoto M. , Aoki Tomohiro , Narumiya Shuh , Oshima Masanobu , Arita Makoto , Hara Eiji , Ohtani Naoko
Published: April 2023

Supplementary Figure S9. EP4 antagonist inhibit the growth of HFD-induced liver cancer.
Supplementary Table S2 from Cell-Cycle Reprogramming for PI3K Inhibition Overrides a Relapse-Specific C481S BTK Mutation Revealed by Longitudinal Functional Genomics in Mantle Cell Lymphoma
Authors: Chiron David , Di Liberto Maurizio , Martin Peter , Huang Xiangao , Sharman Jeff , Blecua Pedro , Mathew Susan , Vijay Priyanka , Eng Ken , Ali Siraj , Johnson Amy , Chang Betty , Ely Scott , Elemento Olivier , Mason Christopher E. , Leonard John P. , Chen-Kiang Selina
Published: April 2023

SNV detected in UTRs by integrative WSNV detected in UTRs by integrative WES WTS analysis in Pt 1 serial samples.ES WTS analysis in Pt 1 serial samples.
Supplementary Methods from A Phase Ib Dose-Escalation and Expansion Study of the BCL2 Inhibitor Venetoclax Combined with Tamoxifen in ER and BCL2–Positive Metastatic Breast Cancer
Authors: Lok Sheau W. , Whittle James R. , Vaillant François , Teh Charis E. , Lo Louisa L. , Policheni Antonia N. , Bergin Alice R.T. , Desai Jayesh , Ftouni Sarah , Gandolfo Luke C. , Liew Danny , Liu He K. , Mann G. Bruce , Moodie Kate , Murugasu Anand , Pal Bhupinder , Roberts Andrew W. , Rosenthal Mark A. , Shackleton Kylie , Silva Maria João , Siow Zhen R. , Smyth Gordon K. , Taylor Leanne , Travers Avraham , Yeo Belinda , Yeung Miriam M. , Bujak Andjelija Zivanovic , Dawson Sarah-Jane , Gray Daniel H.D. , Visvader Jane E. , Lindeman Geoffrey J.
Published: April 2023

Supplementary Methods
supplementary table S3 from HOXA9 Cooperates with Activated JAK/STAT Signaling to Drive Leukemia Development
Authors: de Bock Charles E. , Demeyer Sofie , Degryse Sandrine , Verbeke Delphine , Sweron Bram , Gielen Olga , Vandepoel Roel , Vicente Carmen , Vanden Bempt Marlies , Dagklis Antonis , Geerdens Ellen , Bornschein Simon , Gijsbers Rik , Soulier Jean , Meijerink Jules P. , Heinäniemi Merja , Teppo Susanna , Bouvy-Liivrand Maria , Lohi Olli , Radaelli Enrico , Cools Jan
Published: April 2023

supplementary table (excel)
Figure S7 from Identification of Pik3ca Mutation as a Genetic Driver of Prostate Cancer That Cooperates with Pten Loss to Accelerate Progression and Castration-Resistant Growth
Authors: Pearson Helen B. , Li Jason , Meniel Valerie S. , Fennell Christina M. , Waring Paul , Montgomery Karen G. , Rebello Richard J. , Macpherson Arthi A. , Koushyar Sarah , Furic Luc , Cullinane Carleen , Clarkson Richard W. , Smalley Matthew J. , Simpson Kaylene J. , Phesse Toby J. , Shepherd Peter R. , Humbert Patrick O. , Sansom Owen J. , Phillips Wayne A.
Published: April 2023

Supplementary Figure 7: Characterization of Pik3ca+/HR, Ptenfl/fl and Pik3ca+/HR;Ptenfl/fl prostate tumors. Representative images of IHC to detect (A) PCNA and (B) Cleaved-caspase 3 (CC3) in Pik3ca+/HR, Ptenfl/fl and Pik3ca+/HR;Ptenfl/fl prostate tissue 2 weeks post-castration compared to uncastrated, age-matched controls (scale bar: 50 um, n = 3). Mice were castrated when prostate carcinoma was prevalent; Pik3ca+/HR = 400 d old, Ptenfl/fl = 200 d old and Pik3ca+/HR;Ptenfl/fl =100 d old. Quantitative RT-PCR to detect (C) Nkx3.1 and (D) Pbsn mRNA in Wt prostate and Pik3ca+/HR, Ptenfl/fl and Pik3ca+/HR;Ptenfl/fl stage-matched prostate carcinomas (n = 5). Error bars: SEM, *P <0.05 compared to Wt, or as indicated, one-way ANOVA with Tukey's multiple comparison test. (E) Western Blotting of protein lysates isolated from Wt prostate and stage-matched Pik3ca+/HR, Ptenfl/fl and Pik3ca+/HR;Ptenfl/fl prostate carcinomas to detect total AKT, p-AKT Thr308 and p-AKT Ser473 (n = 3).
Text for Supplementary Data from Cells Lacking the RB1 Tumor Suppressor Gene Are Hyperdependent on Aurora B Kinase for Survival
Authors: Oser Matthew G. , Fonseca Raquel , Chakraborty Abhishek A. , Brough Rachel , Spektor Alexander , Jennings Rebecca B. , Flaifel Abdallah , Novak Jesse S. , Gulati Aditi , Buss Elizabeth , Younger Scott T. , McBrayer Samuel K. , Cowley Glenn S. , Bonal Dennis M. , Nguyen Quang-De , Brulle-Soumare Laura , Taylor Paula , Cairo Stefano , Ryan Colm J. , Pease Elizabeth J. , Maratea Kim , Travers Jon , Root David E. , Signoretti Sabina , Pellman David , Ashton Susan , Lord Christopher J. , Barry Simon T. , Kaelin William G.
Published: April 2023

This document contains the text for the supplementary data.
Supplementary Figures 1-8, Tables 1-2 from Akt/PKB-Mediated Phosphorylation of Twist1 Promotes Tumor Metastasis via Mediating Cross-Talk between PI3K/Akt and TGF-β Signaling Axes
Authors: Xue Gongda , Restuccia David F. , Lan Qiang , Hynx Debby , Dirnhofer Stephan , Hess Daniel , Rüegg Curzio , Hemmings Brian A.
Published: April 2023

PDF file - 1.2MB
Supplementary Fig. S4 from Enhancing the Potency and Specificity of Engineered T Cells for Cancer Treatment
Authors: Sukumaran Sujita , Watanabe Norihiro , Bajgain Pradip , Raja Kanchana , Mohammed Somala , Fisher William E. , Brenner Malcolm K. , Leen Ann M. , Vera Juan F.
Published: April 2023

TNF alpha and IFN gamma levels from CD4+ and CD8+ sorted SmarT-cells
Table S4 from Impaired Death Receptor Signaling in Leukemia Causes Antigen-Independent Resistance by Inducing CAR T-cell Dysfunction
Authors: Singh Nathan , Lee Yong Gu , Shestova Olga , Ravikumar Pranali , Hayer Katharina E. , Hong Seok Jae , Lu Xueqing Maggie , Pajarillo Raymone , Agarwal Sangya , Kuramitsu Shunichiro , Orlando Elena J. , Mueller Karen Thudium , Good Charly R. , Berger Shelley L. , Shalem Ophir , Weitzman Matthew D. , Frey Noelle V. , Maude Shannon L. , Grupp Stephan A. , June Carl H. , Gill Saar , Ruella Marco
Published: April 2023

sgRNA and sequencing primers used
Table S1 from Impaired Death Receptor Signaling in Leukemia Causes Antigen-Independent Resistance by Inducing CAR T-cell Dysfunction
Authors: Singh Nathan , Lee Yong Gu , Shestova Olga , Ravikumar Pranali , Hayer Katharina E. , Hong Seok Jae , Lu Xueqing Maggie , Pajarillo Raymone , Agarwal Sangya , Kuramitsu Shunichiro , Orlando Elena J. , Mueller Karen Thudium , Good Charly R. , Berger Shelley L. , Shalem Ophir , Weitzman Matthew D. , Frey Noelle V. , Maude Shannon L. , Grupp Stephan A. , June Carl H. , Gill Saar , Ruella Marco
Published: April 2023

RNA and ATACseq data of CART19 cells exposed to BIDko Nalm6
Figure S2 from Impaired Death Receptor Signaling in Leukemia Causes Antigen-Independent Resistance by Inducing CAR T-cell Dysfunction
Authors: Singh Nathan , Lee Yong Gu , Shestova Olga , Ravikumar Pranali , Hayer Katharina E. , Hong Seok Jae , Lu Xueqing Maggie , Pajarillo Raymone , Agarwal Sangya , Kuramitsu Shunichiro , Orlando Elena J. , Mueller Karen Thudium , Good Charly R. , Berger Shelley L. , Shalem Ophir , Weitzman Matthew D. , Frey Noelle V. , Maude Shannon L. , Grupp Stephan A. , June Carl H. , Gill Saar , Ruella Marco
Published: April 2023

Exposure to death receptor impaired tumor cells results in progressive CART19 dysfunction.
Supplementary Figure 4 from EGFR Blockade Reverts Resistance to KRASG12C Inhibition in Colorectal Cancer
Authors: Amodio Vito , Yaeger Rona , Arcella Pamela , Cancelliere Carlotta , Lamba Simona , Lorenzato Annalisa , Arena Sabrina , Montone Monica , Mussolin Benedetta , Bian Yu , Whaley Adele , Pinnelli Marika , Murciano-Goroff Yonina R. , Vakiani Efsevia , Valeri Nicola , Liao Wei-Li , Bhalkikar Anuja , Thyparambil Sheeno , Zhao Hui-Yong , de Stanchina Elisa , Marsoni Silvia , Siena Salvatore , Bertotti Andrea , Trusolino Livio , Li Bob T. , Rosen Neal , Di Nicolantonio Federica , Bardelli Alberto , Misale Sandra
Published: April 2023

Supplementary Figure 4
Supplementary Table S2 from Infant High-Grade Gliomas Comprise Multiple Subgroups Characterized by Novel Targetable Gene Fusions and Favorable Outcomes
Authors: Clarke Matthew , Mackay Alan , Ismer Britta , Pickles Jessica C. , Tatevossian Ruth G. , Newman Scott , Bale Tejus A. , Stoler Iris , Izquierdo Elisa , Temelso Sara , Carvalho Diana M. , Molinari Valeria , Burford Anna , Howell Louise , Virasami Alex , Fairchild Amy R. , Avery Aimee , Chalker Jane , Kristiansen Mark , Haupfear Kelly , Dalton James D. , Orisme Wilda , Wen Ji , Hubank Michael , Kurian Kathreena M. , Rowe Catherine , Maybury Mellissa , Crosier Stephen , Knipstein Jeffrey , Schüller Ulrich , Kordes Uwe , Kram David E. , Snuderl Matija , Bridges Leslie , Martin Andrew J. , Doey Lawrence J. , Al-Sarraj Safa , Chandler Christopher , Zebian Bassel , Cairns Claire , Natrajan Rachael , Boult Jessica K.R. , Robinson Simon P. , Sill Martin , Dunkel Ira J. , Gilheeney Stephen W. , Rosenblum Marc K. , Hughes Debbie , Proszek Paula Z. , Macdonald Tobey J. , Preusser Matthias , Haberler Christine , Slavc Irene , Packer Roger , Ng Ho-Keung , Caspi Shani , Popović Mara , Faganel Kotnik Barbara , Wood Matthew D. , Baird Lissa , Davare Monika Ashok , Solomon David A. , Olsen Thale Kristin , Brandal Petter , Farrell Michael , Cryan Jane B. , Capra Michael , Karremann Michael , Schittenhelm Jens , Schuhmann Martin U. , Ebinger Martin , Dinjens Winand N.M. , Kerl Kornelius , Hettmer Simone , Pietsch Torsten , Andreiuolo Felipe , Driever Pablo Hernáiz , Korshunov Andrey , Hiddingh Lotte , Worst Barbara C. , Sturm Dominik , Zuckermann Marc , Witt Olaf , Bloom Tabitha , Mitchell Clare , Miele Evelina , Colafati Giovanna Stefania , Diomedi-Camassei Francesca , Bailey Simon , Moore Andrew S. , Hassall Timothy E.G. , Lowis Stephen P. , Tsoli Maria , Cowley Mark J. , Ziegler David S. , Karajannis Matthias A. , Aquilina Kristian , Hargrave Darren R. , Carceller Fernando , Marshall Lynley V. , von Deimling Andreas , Kramm Christof M. , Pfister Stefan M. , Sahm Felix , Baker Suzanne J. , Mastronuzzi Angela , Carai Andrea , Vinci Maria , Capper David , Popov Sergey , Ellison David W. , Jacques Thomas S. , Jones David T.W. , Jones Chris
Published: April 2023

Supplementary Table S2
Supplementary Data from Single-Cell RNA Sequencing Reveals Stromal Evolution into LRRC15+ Myofibroblasts as a Determinant of Patient Response to Cancer Immunotherapy
Authors: Dominguez Claudia X. , Müller Sören , Keerthivasan Shilpa , Koeppen Hartmut , Hung Jeffrey , Gierke Sarah , Breart Beatrice , Foreman Oded , Bainbridge Travis W. , Castiglioni Alessandra , Senbabaoglu Yasin , Modrusan Zora , Liang Yuxin , Junttila Melissa R. , Klijn Christiaan , Bourgon Richard , Turley Shannon J.
Published: April 2023

Supplementary tables
Supplementary Figure S5 from Circadian Regulator CLOCK Recruits Immune-Suppressive Microglia into the GBM Tumor Microenvironment
Authors: Chen Peiwen , Hsu Wen-Hao , Chang Andrew , Tan Zhi , Lan Zhengdao , Zhou Ashley , Spring Denise J. , Lang Frederick F. , Wang Y. Alan , DePinho Ronald A.
Published: April 2023

Figure S5 shows that OLFML3 is essential for microglia migration in GBM.
Supplementary Data Figure S4 from Somatic HLA Class I Loss Is a Widespread Mechanism of Immune Evasion Which Refines the Use of Tumor Mutational Burden as a Biomarker of Checkpoint Inhibitor Response
Authors: Montesion Meagan , Murugesan Karthikeyan , Jin Dexter X. , Sharaf Radwa , Sanchez Nora , Guria Ameet , Minker Max , Li Gerald , Fisher Virginia , Sokol Ethan S. , Pavlick Dean C. , Moore Jay A. , Braly Alan , Singal Gaurav , Fabrizio David , Comment Leah A. , Rizvi Naiyer A. , Alexander Brian M. , Frampton Garrett M. , Hegde Priti S. , Albacker Lee A.
Published: April 2023

Association of DAXX loss of function mutations and HLA-I LOH in tumor types with low rates of PD-L1 positivity and low TMB
Supplementary Figures from Unique Neoantigens Arise from Somatic Mutations in Patients with Gastrointestinal Cancers
Authors: Parkhurst Maria R. , Robbins Paul F. , Tran Eric , Prickett Todd D. , Gartner Jared J. , Jia Li , Ivey Gabriel , Li Yong F. , El-Gamil Mona , Lalani Almin , Crystal Jessica S. , Sachs Abraham , Groh Eric , Ray Satyajit , Ngo Lien T. , Kivitz Scott , Pasetto Anna , Yossef Rami , Lowery Frank J. , Goff Stephanie L. , Lo Winifred , Cafri Gal , Deniger Drew C. , Malekzadeh Parisa , Ahmadzadeh Mojgan , Wunderlich John R. , Somerville Robert P.T. , Rosenberg Steven A.
Published: April 2023

Supplementary Figures 1-9
Supplementary Figures from Lineage Reversion Drives WNT Independence in Intestinal Cancer
Authors: Han Teng , Goswami Sukanya , Hu Yang , Tang Fanying , Zafra Maria Paz , Murphy Charles , Cao Zhen , Poirier John T. , Khurana Ekta , Elemento Olivier , Hechtman Jaclyn F. , Ganesh Karuna , Yaeger Rona , Dow Lukas E.
Published: April 2023

Supplementary Figures 1-16
Table S7 from Aging Human Hematopoietic Stem Cells Manifest Profound Epigenetic Reprogramming of Enhancers That May Predispose to Leukemia
Authors: Adelman Emmalee R. , Huang Hsuan-Ting , Roisman Alejandro , Olsson André , Colaprico Antonio , Qin Tingting , Lindsley R. Coleman , Bejar Rafael , Salomonis Nathan , Grimes H. Leighton , Figueroa Maria E.
Published: April 2023

Gene Set Enrichment Analysis
Table S4 from Aging Human Hematopoietic Stem Cells Manifest Profound Epigenetic Reprogramming of Enhancers That May Predispose to Leukemia
Authors: Adelman Emmalee R. , Huang Hsuan-Ting , Roisman Alejandro , Olsson André , Colaprico Antonio , Qin Tingting , Lindsley R. Coleman , Bejar Rafael , Salomonis Nathan , Grimes H. Leighton , Figueroa Maria E.
Published: April 2023

Clusters of age-associated epigenetic regions
Supplementary Table 7 from Mechanisms of Lymphoma Clearance Induced by High-Dose Alkylating Agents
Authors: Lossos Chen , Liu Yunpeng , Kolb Kellie E. , Christie Amanda L. , Van Scoyk Alexandria , Prakadan Sanjay M. , Shigemori Kay , Stevenson Kristen E. , Morrow Sara , Plana Olivia D. , Fraser Cameron , Jones Kristen L. , Liu Huiyun , Pallasch Christian P. , Modiste Rebecca , Nguyen Quang-De , Craig Jeffrey W. , Morgan Elizabeth A. , Vega Francisco , Aster Jon C. , Sarosiek Kristopher A. , Shalek Alex K. , Hemann Michael T. , Weinstock David M.
Published: April 2023

Supplementary Table 7
Supplementary Table 2 from Mechanisms of Lymphoma Clearance Induced by High-Dose Alkylating Agents
Authors: Lossos Chen , Liu Yunpeng , Kolb Kellie E. , Christie Amanda L. , Van Scoyk Alexandria , Prakadan Sanjay M. , Shigemori Kay , Stevenson Kristen E. , Morrow Sara , Plana Olivia D. , Fraser Cameron , Jones Kristen L. , Liu Huiyun , Pallasch Christian P. , Modiste Rebecca , Nguyen Quang-De , Craig Jeffrey W. , Morgan Elizabeth A. , Vega Francisco , Aster Jon C. , Sarosiek Kristopher A. , Shalek Alex K. , Hemann Michael T. , Weinstock David M.
Published: April 2023

Supplementary Table 2
Figure S7 from Leukocyte Heterogeneity in Pancreatic Ductal Adenocarcinoma: Phenotypic and Spatial Features Associated with Clinical Outcome
Authors: Liudahl Shannon M. , Betts Courtney B. , Sivagnanam Shamilene , Morales-Oyarvide Vicente , da Silva Annacarolina , Yuan Chen , Hwang Samuel , Grossblatt-Wait Alison , Leis Kenna R. , Larson William , Lavoie Meghan B. , Robinson Padraic , Dias Costa Andressa , Väyrynen Sara A. , Clancy Thomas E. , Rubinson Douglas A. , Link Jason , Keith Dove , Horton Wesley , Tempero Margaret A. , Vonderheide Robert H. , Jaffee Elizabeth M. , Sheppard Brett , Goecks Jeremy , Sears Rosalie C. , Park Byung S. , Mori Motomi , Nowak Jonathan A. , Wolpin Brian M. , Coussens Lisa M.
Published: April 2023

Figure S7 is related to Figure 7. It shows leukocyte features of primary PDACs receiving presurgical chemotherapy and/or radiotherapy, and leukocyte profiles of PDAC metastases
Table S7 from ZFTA–RELA Dictates Oncogenic Transcriptional Programs to Drive Aggressive Supratentorial Ependymoma
Authors: Arabzade Amir , Zhao Yanhua , Varadharajan Srinidhi , Chen Hsiao-Chi , Jessa Selin , Rivas Bryan , Stuckert Austin J. , Solis Minerva , Kardian Alisha , Tlais Dana , Golbourn Brian J. , Stanton Ann-Catherine J. , Chan Yuen San , Olson Calla , Karlin Kristen L. , Kong Kathleen , Kupp Robert , Hu Baoli , Injac Sarah G. , Ngo Madeline , Wang Peter R. , De León Luz A. , Sahm Felix , Kawauchi Daisuke , Pfister Stefan M. , Lin Charles Y. , Hodges H. Courtney , Singh Irtisha , Westbrook Thomas F. , Chintagumpala Murali M. , Blaney Susan M. , Parsons Donald W. , Pajtler Kristian W. , Agnihotri Sameer , Gilbertson Richard J. , Yi Joanna , Jabado Nada , Kleinman Claudia L. , Bertrand Kelsey C. , Deneen Benjamin , Mack Stephen C.
Published: April 2023

Super enhancers detected in IUE ZRfus1 model
Supplementary Figure 2 from Werner Helicase Is a Synthetic-Lethal Vulnerability in Mismatch Repair–Deficient Colorectal Cancer Refractory to Targeted Therapies, Chemotherapy, and Immunotherapy
Authors: Picco Gabriele , Cattaneo Chiara M. , van Vliet Esmée J. , Crisafulli Giovanni , Rospo Giuseppe , Consonni Sarah , Vieira Sara F. , Rodríguez Iñigo Sánchez , Cancelliere Carlotta , Banerjee Ruby , Schipper Luuk J. , Oddo Daniele , Dijkstra Krijn K. , Cinatl Jindrich , Michaelis Martin , Yang Fengtang , Di Nicolantonio Federica , Sartore-Bianchi Andrea , Siena Salvatore , Arena Sabrina , Voest Emile E. , Bardelli Alberto , Garnett Mathew J.
Published: April 2023

Supplementary Figure 2
Supplementary Data from CARM1 Inhibition Enables Immunotherapy of Resistant Tumors by Dual Action on Tumor Cells and T Cells
Authors: Kumar Sushil , Zeng Zexian , Bagati Archis , Tay Rong En , Sanz Lionel A. , Hartono Stella R. , Ito Yoshinaga , Abderazzaq Fieda , Hatchi Elodie , Jiang Peng , Cartwright Adam N.R. , Olawoyin Olamide , Mathewson Nathan D. , Pyrdol Jason W. , Li Mamie Z. , Doench John G. , Booker Matthew A. , Tolstorukov Michael Y. , Elledge Stephen J. , Chédin Frédéric , Liu X. Shirley , Wucherpfennig Kai W.
Published: April 2023

Contains 16 supplementary figures and references
Figure S4 from Baseline Cytokine Profiles of Tuberculin-Specific CD4+ T Cells in Non–Muscle-Invasive Bladder Cancer May Predict Outcomes of BCG Immunotherapy
Authors: Jallad Samer , Thomas Philip , Newport Melanie J. , Kern Florian
Published: April 2023

Effect of BCG vaccination on secreted cytokines
Supplementary Figure Legend from Intravenous Injection of MVA Virus Targets CD8+ Lymphocytes to Tumors to Control Tumor Growth upon Combinatorial Treatment with a TLR9 Agonist
Authors: Fend Laetitia , Gatard-Scheikl Tanja , Kintz Jacqueline , Gantzer Murielle , Schaedler Emmanuelle , Rittner Karola , Cochin Sandrine , Fournel Sylvie , Préville Xavier
Published: April 2023

Supplementary Figure Legend from Intravenous Injection of MVA Virus Targets CD8+ Lymphocytes to Tumors to Control Tumor Growth upon Combinatorial Treatment with a TLR9 Agonist
Figure S5 from Antibody-Neutralized Reovirus Is Effective in Oncolytic Virotherapy
Authors: Berkeley Robert A. , Steele Lynette P. , Mulder Aat A. , van den Wollenberg Diana J.M. , Kottke Timothy J. , Thompson Jill , Coffey Matthew , Hoeben Rob C. , Vile Richard G. , Melcher Alan , Ilett Elizabeth J.
Published: April 2023

Expression of Fc receptors on primary human monocytes
Figure S2 from Antibody-Neutralized Reovirus Is Effective in Oncolytic Virotherapy
Authors: Berkeley Robert A. , Steele Lynette P. , Mulder Aat A. , van den Wollenberg Diana J.M. , Kottke Timothy J. , Thompson Jill , Coffey Matthew , Hoeben Rob C. , Vile Richard G. , Melcher Alan , Ilett Elizabeth J.
Published: April 2023

Patient-derived neutralizing antibodies favor routing of virus to CD14+ cells in whole blood
Supplementary Figure 2 - PDF file - 3056K from Microvesicle Cargo of Tumor-Associated MUC1 to Dendritic Cells Allows Cross-presentation and Specific Carbohydrate Processing
Authors: Rughetti Aurelia , Rahimi Hassan , Belleudi Francesca , Napoletano Chiara , Battisti Federico , Zizzari Ilaria G. , Antonilli Morena , Bellati Filippo , Wandall Hans H. , Benedetti Panici Pierluigi , Burchell Joy M. , Torrisi Mara R. , Nuti Marianna
Published: April 2023

A, MUC1 glycoform expression of MUC1-DG75 transfectant detected by flow cytometry employing anti-MUC1 glycoform specific MoAbs. Only the ST-MUC1 glycoform, (MoAb MYE12), is expressed on the surface of transfectant cells. B, MUC1 distribution on MVs shed by MUC1-DG75 cells as detected by Immunogold staining in TEM using the anti-MUC1 MoAb Ma552. C, MUC1 detection in cell extracts and MVs of MUC1-DG75 and DG75 cell lines by Western Blot analysis employing the anti-MUC1 MoAb Ma552. The specific bands above 170kDa are present only in the MUC1-DG75 cell extract and MVs. D, ELISA of the MUC1 glycoprofile expressed by MUC1-DG75-MVs and by rST-MUC1. The ST-MUC1 is the unique MUC1 glycoepitope detected in both samples.
Figure S3 from Rapid Construction of Antitumor T-cell Receptor Vectors from Frozen Tumors for Engineered T-cell Therapy
Authors: Tsuji Takemasa , Yoneda Akira , Matsuzaki Junko , Miliotto Anthony , Ryan Courtney , Koya Richard C. , Odunsi Kunle
Published: April 2023

Fig. S3 shows the antigen-specific reactivity of MHC class II-restricted TCR gene-engineered T cells.
Supplementary Table 3 from Splenectomy Promotes Indirect Elimination of Intraocular Tumors by CD8+ T Cells That Is Associated with IFNγ- and Fas/FasL-Dependent Activation of Intratumoral Macrophages
Authors: Miller Maxine R. , Mandell Jonathan B. , Beatty Kelly M. , Harvey Stephen A.K. , Rizzo Michael J. , Previte Dana M. , Thorne Stephen H. , McKenna Kyle C.
Published: April 2023

IFNγR1 and Fas/FasL interactions are required for rejection of intraocular P815 tumors in splenectomized mice.
Supplementary Figure 2 from Macropinocytosis of Nab-paclitaxel Drives Macrophage Activation in Pancreatic Cancer
Authors: Cullis Jane , Siolas Despina , Avanzi Antonina , Barui Sugata , Maitra Anirban , Bar-Sagi Dafna
Published: April 2023

LPS induces M1 cytokine expression in a TLR4-dependent manner
Supplemental Figure 1 from Cisplatin Alters Antitumor Immunity and Synergizes with PD-1/PD-L1 Inhibition in Head and Neck Squamous Cell Carcinoma
Authors: Tran Linda , Allen Clint T. , Xiao Roy , Moore Ellen , Davis Ruth , Park So-Jin , Spielbauer Katie , Van Waes Carter , Schmitt Nicole C.
Published: April 2023

S1: Ovalbumin-expressing MOC1 tumor cells (T = target) were allowed to grow in 96-well plates in the presence or absence of cisplatin for 24 hours prior to adding antigen-specific OT-1 T cells (E = effector). Impedance measurements were taken over time to determine tumor cell viability. In B and C, Impedance lines are graphed as averages of 3 replicates that have been normalized to a cell index of 1.0 at 24 hours when CTLs were added. CTLs were pretreated separately with the indicated doses of cisplatin starting at time point 0 hours, then added to the wells with MOC1 ova cells and co-treated with cisplatin throughout the rest of the experiment. Graphs are representative of two independent experiments done in triplicate.
Figure legends from CD4+ T Cell and NK Cell Interplay Key to Regression of MHC Class Ilow Tumors upon TLR7/8 Agonist Therapy
Authors: Doorduijn Elien M. , Sluijter Marjolein , Salvatori Daniela C. , Silvestri Serenella , Maas Saskia , Arens Ramon , Ossendorp Ferry , van der Burg Sjoerd H. , van Hall Thorbald
Published: April 2023

Legends of supplementary figures
Supplementary Data from Autologous Lymphocyte Infusion Supports Tumor Antigen Vaccine–Induced Immunity in Autologous Stem Cell Transplant for Multiple Myeloma
Authors: Cohen Adam D. , Lendvai Nikoletta , Nataraj Sarah , Imai Naoko , Jungbluth Achim A. , Tsakos Ioanna , Rahman Adeeb , Mei Anna Huo-Chang , Singh Herman , Zarychta Katarzyna , Kim-Schulze Seunghee , Park Andrew , Venhaus Ralph , Alpaugh Katherine , Gnjatic Sacha , Cho Hearn J.
Published: April 2023

Supplementary figures for Cohen et al. CIR-18-0198R2
Figure S6 from High-Affinity GD2-Specific CAR T Cells Induce Fatal Encephalitis in a Preclinical Neuroblastoma Model
Authors: Richman Sarah A. , Nunez-Cruz Selene , Moghimi Babak , Li Lucy Z. , Gershenson Zachary T. , Mourelatos Zissimos , Barrett David M. , Grupp Stephan A. , Milone Michael C.
Published: April 2023

A, In vitro cytotoxic activity of m3F8-based anti-GD2 CAR, E101K CAR T cells, and NTD T cells was measured in chromium release assay as described for Figure 1, using the indicated target cells (either the GD2+ human neuroblastoma line SY5Y or GD2low human neuroblastoma line NB16.) Data represent one experiment using triplicate wells and are shown as mean +/- standard error of the mean (SEM). B, Neuroblastoma cell line SY5Y-CBG was injected via tail vein, followed by the injection of indicated T cells as described for Figure 4. Tumor burden was monitored by bioluminescence at the indicated time points. Groups contained 4-5 mice, and data represent the mean total flux +/- standard deviation.
Supplemental Figure 1 legend. from Primary T Cells from Cutaneous T-cell Lymphoma Skin Explants Display an Exhausted Immune Checkpoint Profile
Authors: Querfeld Christiane , Leung Samantha , Myskowski Patricia L. , Curran Shane A. , Goldman Debra A. , Heller Glenn , Wu Xiwei , Kil Sung Hee , Sharma Sneh , Finn Kathleen J. , Horwitz Steven , Moskowitz Alison , Mehrara Babak , Rosen Steven T. , Halpern Allan C. , Young James W.
Published: April 2023

Supplemental Figure 1 legend.
Supplementary Figure 4 from Targeted Delivery of IL2 to the Tumor Stroma Potentiates the Action of Immune Checkpoint Inhibitors by Preferential Activation of NK and CD8+ T Cells
Authors: Hutmacher Cornelia , Gonzalo Núñez Nicolás , Liuzzi Anna Rita , Becher Burkhard , Neri Dario
Published: April 2023

Supplementary flow cytometry data of CT26 draining lymph nodes and spleen
Supplementary Table 3 from Combined Low Densities of FoxP3+ and CD3+ Tumor-Infiltrating Lymphocytes Identify Stage II Colorectal Cancer at High Risk of Progression
Authors: Cavalleri Tommaso , Bianchi Paolo , Basso Gianluca , Celesti Giuseppe , Grizzi Fabio , Bossi Paola , Greco Luana , Pitrone Calogero , Valtorta Emanuele , Mauri Gianluca , Truini Mauro , Dall'Olio Filippo Gustavo , Brandi Giovanni , Sartore-Bianchi Andrea , Ricciardiello Luigi , Torri Valter , Rimassa Lorenza , Siena Salvatore , Mantovani Alberto , Malesci Alberto , Laghi Luigi
Published: April 2023

Densities of FoxP3+ and CD3+ TILs in validation set (161 stage II CRC), by clinical-pathological variables.
Supplementary Data from CD73 Blockade Promotes Dendritic Cell Infiltration of Irradiated Tumors and Tumor Rejection
Authors: Wennerberg Erik , Spada Sheila , Rudqvist Nils-Petter , Lhuillier Claire , Gruber Sylvia , Chen Qiuying , Zhang Fengli , Zhou Xi K. , Gross Steven S. , Formenti Silvia C. , Demaria Sandra
Published: April 2023

Supplementary figures and tables
Supplementary Data from Improved Antitumor Efficacy of Chimeric Antigen Receptor T Cells that Secrete Single-Domain Antibody Fragments
Authors: Xie Yushu Joy , Dougan Michael , Ingram Jessica R. , Pishesha Novalia , Fang Tao , Momin Noor , Ploegh Hidde L.
Published: April 2023

Supplementary Data
Supplementary Figure 1. Immunomodulatory ligands on melanoma cells. from Accumulation of Circulating CCR7+ Natural Killer Cells Marks Melanoma Evolution and Reveals a CCL19-Dependent Metastatic Pathway
Authors: Cristiani Costanza Maria , Turdo Alice , Ventura Valeria , Apuzzo Tiziana , Capone Mariaelena , Madonna Gabriele , Mallardo Domenico , Garofalo Cinzia , Giovannone Emilia Dora , Grimaldi Antonio M. , Tallerico Rossana , Marcenaro Emanuela , Pesce Silvia , Del Zotto Genny , Agosti Valter , Costanzo Francesco Saverio , Gulletta Elio , Rizzo Aroldo , Moretta Alessandro , Karre Klas , Ascierto Paolo A. , Todaro Matilde , Carbone Ennio
Published: April 2023

Frequency and expression of the indicated molecules on CCR7- and CCR7+ melanoma cells.
Table S1 from Radiotherapy and Cisplatin Increase Immunotherapy Efficacy by Enabling Local and Systemic Intratumoral T-cell Activity
Authors: Kroon Paula , Frijlink Elselien , Iglesias-Guimarais Victoria , Volkov Andriy , van Buuren Marit M. , Schumacher Ton N. , Verheij Marcel , Borst Jannie , Verbrugge Inge
Published: April 2023

RNA sequencing data on day 8 after RIT of sorted cell populations from irradiated and non-irradiated AT-3 tumors.
Supplementary Figures from Cross-dressing of CD8α+ Dendritic Cells with Antigens from Live Mouse Tumor Cells Is a Major Mechanism of Cross-priming
Authors: Das Mohapatra Alok , Tirrell Isaac , Bénéchet Alexandre P. , Pattnayak Shashmita , Khanna Kamal M. , Srivastava Pramod K.
Published: April 2023

Supplementary Figures 1-8
Supplementary Figure 3 from Inhibition of the SRC Kinase HCK Impairs STAT3-Dependent Gastric Tumor Growth in Mice
Authors: Poh Ashleigh R. , Dwyer Amy R. , Eissmann Moritz F. , Chand Ashwini L. , Baloyan David , Boon Louis , Murrey Michael W. , Whitehead Lachlan , O'Brien Megan , Lowell Clifford A. , Putoczki Tracy L. , Pixley Fiona J. , O'Donoghue Robert J.J. , Ernst Matthias
Published: April 2023

Increased expression of genes associated with alternative macrophage polarization confers a poorer overall survival in human intestinal-type gastric cancer patients.
Supplementary Figures from Infiltration by IL22-Producing T Cells Promotes Neutrophil Recruitment and Predicts Favorable Clinical Outcome in Human Colorectal Cancer
Authors: Tosti Nadia , Cremonesi Eleonora , Governa Valeria , Basso Camilla , Kancherla Venkatesh , Coto-Llerena Mairene , Amicarella Francesca , Weixler Benjamin , Däster Silvio , Sconocchia Giuseppe , Majno Pietro Edoardo , Christoforidis Dimitri , Tornillo Luigi , Terracciano Luigi , Ng Charlotte K.Y. , Piscuoglio Salvatore , von Flüe Markus , Spagnoli Giulio , Eppenberger-Castori Serenella , Iezzi Giandomenica , Droeser Raoul Andre
Published: April 2023

Supplementary figures 1-6
Supplementary Figure Legends from Infiltration by IL22-Producing T Cells Promotes Neutrophil Recruitment and Predicts Favorable Clinical Outcome in Human Colorectal Cancer
Authors: Tosti Nadia , Cremonesi Eleonora , Governa Valeria , Basso Camilla , Kancherla Venkatesh , Coto-Llerena Mairene , Amicarella Francesca , Weixler Benjamin , Däster Silvio , Sconocchia Giuseppe , Majno Pietro Edoardo , Christoforidis Dimitri , Tornillo Luigi , Terracciano Luigi , Ng Charlotte K.Y. , Piscuoglio Salvatore , von Flüe Markus , Spagnoli Giulio , Eppenberger-Castori Serenella , Iezzi Giandomenica , Droeser Raoul Andre
Published: April 2023

Figure Legends for Supplementary Figures 1-6
Supplementary Tables from Tumor Fusion Burden as a Hallmark of Immune Infiltration in Prostate Cancer
Authors: Wagle Marie-Claire , Castillo Joseph , Srinivasan Shrividhya , Holcomb Thomas , Yuen Kobe C. , Kadel Edward E. , Mariathasan Sanjeev , Halligan Daniel L. , Carr Adrian R. , Bylesjo Max , McAdam Paul R. , Lynagh Sarah , Marien Koen M. , Kockx Mark , Waumans Yannick , Huang Shih-Min A. , Lackner Mark R. , Mounir Zineb
Published: April 2023

supplementary tables
Supplementary Table 2 from In Human Visualization of Ibrutinib-Induced CLL Compartment Shift
Authors: Mayerhoefer Marius E. , Haug Alexander , Jäger Ulrich , Pichler Verena , Pfaff Sarah , Wester Hans-Jürgen , Hacker Marcus , Kazianka Lukas , Staber Philipp B.
Published: April 2023

Imaging parameters and white blood cell counts before and at short-term follow-up on ibrutinib treatment
Supplementary Figures and Legends from In Human Visualization of Ibrutinib-Induced CLL Compartment Shift
Authors: Mayerhoefer Marius E. , Haug Alexander , Jäger Ulrich , Pichler Verena , Pfaff Sarah , Wester Hans-Jürgen , Hacker Marcus , Kazianka Lukas , Staber Philipp B.
Published: April 2023

Supplementary Figures 1-3 and Supplementary Figure Legends
Supplementary Table 1-9 from High-Throughput Prediction of MHC Class I and II Neoantigens with MHCnuggets
Authors: Shao Xiaoshan M. , Bhattacharya Rohit , Huang Justin , Sivakumar I.K. Ashok , Tokheim Collin , Zheng Lily , Hirsch Dylan , Kaminow Benjamin , Omdahl Ashton , Bonsack Maria , Riemer Angelika B. , Velculescu Victor E. , Anagnostou Valsamo , Pagel Kymberleigh A. , Karchin Rachel
Published: April 2023

Supplementary Table 1-9
Supplementary Table S2 from Chemotherapy Induces Tumor-Associated Macrophages that Aid Adaptive Immune Responses in Ovarian Cancer
Authors: Heath Owen , Berlato Chiara , Maniati Eleni , Lakhani Anissa , Pegrum Colin , Kotantaki Panoraia , Elorbany Samar , Böhm Steffen , Barry Simon T. , Annibaldi Alessandro , Barton Desmond P. , Balkwill Frances R.
Published: April 2023

List of DE genes in TAMs post vs pre-chemotherapy
Figure S1 from High-Throughput Prediction of MHC Class I and II Neoantigens with MHCnuggets
Authors: Shao Xiaoshan M. , Bhattacharya Rohit , Huang Justin , Sivakumar I.K. Ashok , Tokheim Collin , Zheng Lily , Hirsch Dylan , Kaminow Benjamin , Omdahl Ashton , Bonsack Maria , Riemer Angelika B. , Velculescu Victor E. , Anagnostou Valsamo , Pagel Kymberleigh A. , Karchin Rachel
Published: April 2023

Figure S1
Supplementary Figures and Legends from Immunosuppressive Myeloid Cells Induce Nitric Oxide–Dependent DNA Damage and p53 Pathway Activation in CD8+ T Cells
Authors: Cartwright Adam N.R. , Suo Shengbao , Badrinath Soumya , Kumar Sushil , Melms Johannes , Luoma Adrienne , Bagati Archis , Saadatpour Assieh , Izar Benjamin , Yuan Guo-Cheng , Wucherpfennig Kai W.
Published: April 2023

Supplementary Figures 1-8 with Legends included
Figure S1 from Single-Cell Immune Competency Signatures Associate with Survival in Phase II GVAX and CRS-207 Randomized Studies in Patients with Metastatic Pancreatic Cancer
Authors: Nair Nitya , Chen Shih-Yu , Lemmens Ed , Chang Serena , Le Dung T. , Jaffee Elizabeth M. , Murphy Aimee , Whiting Chan , Müller Thomas , Brockstedt Dirk G.
Published: April 2023

Mass cytometry gating strategy to identify major immune cell subsets
Supplementary Material from Modified Hypoxia-Inducible Factor Expression in CD8+ T Cells Increases Antitumor Efficacy
Authors: Veliça Pedro , Cunha Pedro P. , Vojnovic Nikola , Foskolou Iosifina Petrina , Bargiela David , Gojkovic Milos , Rundqvist Helene , Johnson Randall S.
Published: April 2023

Supplementary Material: Peptide sequences
Supplementary Table 1 and Supplementary Figures 1-5 from Tryptophan 2,3-Dioxygenase Expression Identified in Human Hepatocellular Carcinoma Cells and in Intratumoral Pericytes of Most Cancers
Authors: Hoffmann Delia , Dvorakova Tereza , Stroobant Vincent , Bouzin Caroline , Daumerie Aurélie , Solvay Marie , Klaessens Simon , Letellier Marie-Claire , Renauld Jean-Christophe , van Baren Nicolas , Lelotte Julie , Marbaix Etienne , Van den Eynde Benoit J.
Published: April 2023

Supplementary figures and tables
Supplementary Table S2 from Pharmacologic Screening Identifies Metabolic Vulnerabilities of CD8+ T Cells
Authors: Drijvers Jefte M. , Gillis Jacob E. , Muijlwijk Tara , Nguyen Thao H. , Gaudiano Emily F. , Harris Isaac S. , LaFleur Martin W. , Ringel Alison E. , Yao Cong-Hui , Kurmi Kiran , Juneja Vikram R. , Trombley Justin D. , Haigis Marcia C. , Sharpe Arlene H.
Published: April 2023

Supplementary Table S2
Figure S1 from The Chemokine CX3CL1 Improves Trastuzumab Efficacy in HER2 Low–Expressing Cancer In Vitro and In Vivo
Authors: Dreyer Tobias F. , Kuhn Sabine , Stange Christoph , Heithorst Nadine , Schilling Daniela , Jelsma Jil , Sievert Wolfgang , Seitz Stefanie , Stangl Stefan , Hapfelmeier Alexander , Noske Aurelia , Wege Anja K. , Weichert Wilko , Ruland Jürgen , Schmitt Manfred , Dorn Julia , Kiechle Marion , Reuning Ute , Magdolen Viktor , Multhoff Gabriele , Bronger Holger
Published: April 2023

CX3CL1 mRNA expression is associated with improved recurrence-free, distant-metastasis free, and overall survival in human breast cancer.
Supplemental Fig. S1 from Cross-talk between Colon Cells and Macrophages Increases ST6GALNAC1 and MUC1-sTn Expression in Ulcerative Colitis and Colitis-Associated Colon Cancer
Authors: Kvorjak Michael , Ahmed Yasmine , Miller Michelle L. , Sriram Raahul , Coronnello Claudia , Hashash Jana G. , Hartman Douglas J. , Telmer Cheryl A. , Miskov-Zivanov Natasa , Finn Olivera J. , Cascio Sandra
Published: April 2023

Expression of macrophage-associated markers in inflamed and CACC tissues compared to controls.
Supplementary Table 2 from Targeted Deletion of CXCR2 in Myeloid Cells Alters the Tumor Immune Environment to Improve Antitumor Immunity
Authors: Yang Jinming , Yan Chi , Vilgelm Anna E. , Chen Sheau-Chiann , Ayers Gregory D. , Johnson Christopher A. , Richmond Ann
Published: April 2023

Supplementary Table 2
Supplementary Figure from IDO Vaccine Ablates Immune-Suppressive Myeloid Populations and Enhances Antitumor Effects Independent of Tumor Cell IDO Status
Authors: Nandre Rahul , Verma Vivek , Gaur Pankaj , Patil Veerupaxagouda , Yang Xingdong , Ramlaoui Zainab , Shobaki Nour , Andersen Mads Hald , Pedersen Ayako Wakatsuki , Zocca Mai-Britt , Mkrtichyan Mikayel , Gupta Seema , Khleif Samir N.
Published: April 2023

Supplementary Figure from IDO Vaccine Ablates Immune-Suppressive Myeloid Populations and Enhances Antitumor Effects Independent of Tumor Cell IDO Status
Supplementary Figure 5 from Site-Dependent Immune Escape Due to Impaired Dendritic Cell Cross-Priming
Authors: Diamond Mark S. , Lin Jeffrey H. , Vonderheide Robert H.
Published: April 2023

Supplementary Figure 5
Supplementary Video 2 from Imaging α-GalCer–Activated iNKT Cells in a Hepatic Metastatic Environment
Authors: Babes Liane , Shim Raymond , Kubes Paul
Published: April 2023

Supplementary Video 2
Supplementary Tables from Intracellular Factor H Drives Tumor Progression Independently of the Complement Cascade
Authors: Daugan Marie V. , Revel Margot , Thouenon Romane , Dragon-Durey Marie-Agnès , Robe-Rybkine Tania , Torset Carine , Merle Nicolas S. , Noé Rémi , Verkarre Virginie , Oudard Stephane Marie , Mejean Arnaud , Validire Pierre , Cathelineau Xavier , Sanchez-Salas Rafael , Pickering Mathew C. , Cremer Isabelle , Mansuet-Lupo Audrey , Alifano Marco , Sautès-Fridman Catherine , Damotte Diane , Fridman Wolf H. , Roumenina Lubka T.
Published: April 2023

Supplementary tables 1-5
Supplementary Data from NKG7 Is a T-cell–Intrinsic Therapeutic Target for Improving Antitumor Cytotoxicity and Cancer Immunotherapy
Authors: Wen Ti , Barham Whitney , Li Ying , Zhang Henan , Gicobi Joanina K. , Hirdler Jacob B. , Liu Xin , Ham Hyoungjun , Peterson Martinez Kodi E. , Lucien Fabrice , Lavoie Roxane R. , Li Hu , Correia Cristina , Monie Dileep D. , An Zesheng , Harrington Susan M. , Wu Xiaosheng , Guo Ruifeng , Dronca Roxana S. , Mansfield Aaron S. , Yan Yiyi , Markovic Svetomir N. , Park Sean S. , Sun Jie , Qin Hong , Liu Minetta C. , Vasmatzis George , Billadeau Daniel D. , Dong Haidong
Published: April 2023

Supplementary Data from NKG7 Is a T-cell–Intrinsic Therapeutic Target for Improving Antitumor Cytotoxicity and Cancer Immunotherapy
Figure S6 from Extracellular Vesicle–Packaged circATP2B4 Mediates M2 Macrophage Polarization via miR-532-3p/SREBF1 Axis to Promote Epithelial Ovarian Cancer Metastasis
Authors: Wang Fang , Niu Yuequn , Chen Kelie , Yuan Xiaoyu , Qin Yuheng , Zheng Fang , Cui Zhenyan , Lu Weiguo , Wu Yihua , Xia Dajing
Published: April 2023

Supplementary Figure S6
Supplementary Figure from CD59-Regulated Ras Compartmentalization Orchestrates Antitumor T-cell Immunity
Authors: Li Luying , Ding Peipei , Lv Xinyue , Xie Suhong , Li Ling , Chen Jianfeng , Zhou Danlei , Wang Xiaochao , Wang Qi , Zhang Wei , Xu Yanqing , Lu Renquan , Hu Weiguo
Published: April 2023

Supplementary Figure from CD59-Regulated Ras Compartmentalization Orchestrates Antitumor T-cell Immunity
Data from Tissue-Resident Memory T Cells in Pancreatic Ductal Adenocarcinoma Coexpress PD-1 and TIGIT and Functional Inhibition Is Reversible by Dual Antibody Blockade
Authors: Pearce Hayden , Croft Wayne , Nicol Samantha M. , Margielewska-Davies Sandra , Powell Richard , Cornall Richard , Davis Simon J. , Marcon Francesca , Pugh Matthew R. , Fennell Éanna , Powell-Brett Sarah , Mahon Brinder S. , Brown Rachel M. , Middleton Gary , Roberts Keith , Moss Paul
Published: April 2023

Abstract
Pancreatic ductal adenocarcinoma (PDAC) has a poor clinical outlook. Responses to immune checkpoint blockade are suboptimal and a much more detailed understanding of the tumor immune microenvironment is needed if this situation is to be improved. Here, we characterized tumor-infiltrating T-cell populations in patients with PDAC using cytometry by time of flight (CyTOF) and single-cell RNA sequencing. T cells were the predominant immune cell subset observed within tumors. Over 30% of CD4+ T cells expressed a CCR6+CD161+ Th17 phenotype and 17% displayed an activated regulatory T-cell profile. Large populations of CD8+ tissue-resident memory (TRM) T cells were also present and expressed high levels of programmed cell death protein 1 (PD-1) and TIGIT. A population of putative tumor-reactive CD103+CD39+ T cells was also observed within the CD8+ tumor-infiltrating lymphocytes population. The expression of PD-1 ligands was limited largely to hemopoietic cells whilst TIGIT ligands were expressed widely within the tumor microenvironment. Programmed death-ligand 1 and CD155 were expressed within the T-cell area of ectopic lymphoid structures and colocalized with PD-1+TIGIT+ CD8+ T cells. Combinatorial anti–PD-1 and TIGIT blockade enhanced IFNγ secretion and proliferation of T cells in the presence of PD-1 and TIGIT ligands. As such, we showed that the PDAC microenvironment is characterized by the presence of substantial populations of TRM cells with an exhausted PD-1+TIGIT+ phenotype where dual checkpoint receptor blockade represents a promising avenue for future immunotherapy.
Data from Inhibitor of Apoptosis Proteins Antagonist Induces T-cell Proliferation after Cross-Presentation by Dendritic Cells
Authors: Hoefsmit Esmée P. , van Royen Paula T. , Rao Disha , Stunnenberg Johanna A. , Dimitriadis P. , Lieftink Cor , Morris Ben , Rozeman Elisa A. , Reijers Irene L.M. , Lacroix Ruben , Shehwana Huma , Ligtenberg Maarten A. , Beijersbergen Roderick L. , Peeper Daniel S. , Blank Christian U.
Published: April 2023

Abstract
Cross-presentation of tumor antigens by dendritic cells (DC) is crucial to prime, stimulate and restimulate CD8+ T cells. This process is important in initiating and maintaining an antitumor response. Here, we show that the presence of conventional type 1 DCs (cDC1), a DC subtype that excels in cross-presentation, in the tumor correlated with response to neoadjuvant immune checkpoint blockade (ICB) in melanoma. This led us to hypothesize that patients failing to respond to ICB could benefit from enhanced cross-presentation of tumor antigens. We therefore established a cross-presentation assay to screen over 5,500 compounds for enhancers of DC cross-presentation using induced T-cell proliferation as the readout. We identified 145 enhancers, including AZD5582, an antagonist of inhibitor of apoptosis proteins (IAP) cIAP1, cIAP2, and XIAP. AZD5582 treatment led to DC activation of the noncanonical NF-kB pathway, enhanced antigen import from endolysosomes into the cytosol, and increased expression of genes involved in cross-presentation. Furthermore, it upregulated expression of CD80, CD86, MHC class II, CD70 and secretion of TNF by DCs. This enhanced DC activation and maturation program was observed also in tumor-bearing mice upon AZD5582 treatment, culminating in an increased frequency of systemic tumor antigen–specific CD8+ T cells. Our results merit further exploration of AZD5582 to increase antigen cross-presentation for improving the clinical benefit of ICB in patients who are unlikely to respond to ICB.