bluuebunny/crossref_metadata_2025 huggingface dataset:
Supp Figures S1-S3 from Lorlatinib Treatment Elicits Multiple On- and Off-Target Mechanisms of Resistance in ALK-Driven Cancer
Authors: Redaelli Sara , Ceccon Monica , Zappa Marina , Sharma Geeta G. , Mastini Cristina , Mauri Mario , Nigoghossian Marion , Massimino Luca , Cordani Nicoletta , Farina Francesca , Piazza Rocco , Gambacorti-Passerini Carlo , Mologni Luca
Published: April 2023

(related to Fig.2) Ex-vivo characterization of resistant ALCL tumors
Supplementary Methods from Mucosal HPV E6/E7 Peptide Vaccination in Combination with Immune Checkpoint Modulation Induces Regression of HPV+ Oral Cancers
Authors: Dorta-Estremera Stephanie , Chin Renee L. , Sierra Gloria , Nicholas Courtney , Yanamandra Ananta V. , Nookala Sita M.K. , Yang Guojun , Singh Shail , Curran Michael A. , Sastry K. Jagannadha
Published: April 2023

Supplementary Methods
Supplementary Digs. S7 and S8 from Mucosal HPV E6/E7 Peptide Vaccination in Combination with Immune Checkpoint Modulation Induces Regression of HPV+ Oral Cancers
Authors: Dorta-Estremera Stephanie , Chin Renee L. , Sierra Gloria , Nicholas Courtney , Yanamandra Ananta V. , Nookala Sita M.K. , Yang Guojun , Singh Shail , Curran Michael A. , Sastry K. Jagannadha
Published: April 2023

Fig. S7: HPV-specific T cells in the blood after vaccine immunotherapy. Fig. S8: Immune correlates for treatment resistance.
Figure S3 from Pharmacologic Ascorbate Reduces Radiation-Induced Normal Tissue Toxicity and Enhances Tumor Radiosensitization in Pancreatic Cancer
Authors: Alexander Matthew S. , Wilkes Justin G. , Schroeder Samuel R. , Buettner Garry R. , Wagner Brett A. , Du Juan , Gibson-Corley Katherine , O’Leary Brianne R. , Spitz Douglas R. , Buatti John M. , Berg Daniel J. , Bodeker Kellie L. , Vollstedt Sandy , Brown Heather A. , Allen Bryan G. , Cullen Joseph J.
Published: April 2023

Hemoglobin concentrations.
Figure S1 from Targeting CCR8 Induces Protective Antitumor Immunity and Enhances Vaccine-Induced Responses in Colon Cancer
Authors: Villarreal Daniel O. , L'Huillier Andrew , Armington Susan , Mottershead Cristina , Filippova Elena V. , Coder Brandon D. , Petit Robert G. , Princiotta Michael F.
Published: April 2023

CCR8 mAb treatment mediates potent antitumor activity, suppressing MC38 tumor growth and improving long-term survival.
Figure S2 from Cyclophilin A Function in Mammary Epithelium Impacts Jak2/Stat5 Signaling, Morphogenesis, Differentiation, and Tumorigenesis in the Mammary Gland
Authors: Volker Sonja E. , Hedrick Shannon E. , Feeney Yvonne B. , Clevenger Charles V.
Published: April 2023

Immunohistochemistry of CypA+/+ and CypA-/- females at P15 and L2
Figure S1 from Reduced Expression of PROX1 Transitions Glioblastoma Cells into a Mesenchymal Gene Expression Subtype
Authors: Goudarzi Kaveh M. , Espinoza Jaime A. , Guo Min , Bartek Jiri , Nistér Monica , Lindström Mikael S. , Hägerstrand Daniel
Published: April 2023

Effects on glioblastoma gene expression subtype upon PROX1 overexpression or suppression
Supplementary Tables S1-S7 from Patient-Customized Drug Combination Prediction and Testing for T-cell Prolymphocytic Leukemia Patients
Authors: He Liye , Tang Jing , Andersson Emma I. , Timonen Sanna , Koschmieder Steffen , Wennerberg Krister , Mustjoki Satu , Aittokallio Tero
Published: April 2023

Clinical characteristics and mutation profiles of the T-PLL patients, compound collection and targets, along with single-agent and combination responses in the patient samples ex vivo.
Table S2 from Loss of Pax5 Exploits Sca1-BCR-ABLp190 Susceptibility to Confer the Metabolic Shift Essential for pB-ALL
Authors: Martín-Lorenzo Alberto , Auer Franziska , Chan Lai N. , García-Ramírez Idoia , González-Herrero Inés , Rodríguez-Hernández Guillermo , Bartenhagen Christoph , Dugas Martin , Gombert Michael , Ginzel Sebastian , Blanco Oscar , Orfao Alberto , Alonso-López Diego , Rivas Javier De Las , García-Cenador Maria B. , García-Criado Francisco J. , Müschen Markus , Sánchez-García Isidro , Borkhardt Arndt , Vicente-Dueñas Carolina , Hauer Julia
Published: April 2023

Differentially expressed genes in bone marrow tumors from Sca1-BCR-ABLp190 mice compared to wild-type B220+ bone marrow B cells. (3692 genes-probesets with FDR = 0.05)
Supplementary Tables S6 and S7 from Neonatal Inflammatory Markers Are Associated with Childhood B-cell Precursor Acute Lymphoblastic Leukemia
Authors: Søegaard Signe Holst , Rostgaard Klaus , Skogstrand Kristin , Wiemels Joseph Leo , Schmiegelow Kjeld , Hjalgrim Henrik
Published: April 2023

Associations among patient-control pairs with identical sampling date and associations with ALL diagnosed at ages 2-9 years.
Legends to Supplementary data from Cotargeting BCL-2 and PI3K Induces BAX-Dependent Mitochondrial Apoptosis in AML Cells
Authors: Rahmani Mohamed , Nkwocha Jewel , Hawkins Elisa , Pei Xinyan , Parker Rebecca E. , Kmieciak Maciej , Leverson Joel D. , Sampath Deepak , Ferreira-Gonzalez Andrea , Grant Steven
Published: April 2023

Legends to Supplementary Figures
Supplementary Figure S5 from Amplification of Glyceronephosphate O-Acyltransferase and Recruitment of USP30 Stabilize DRP1 to Promote Hepatocarcinogenesis
Authors: Gu Li , Zhu Yahui , Lin Xi , Li Yajun , Cui Kaisa , Prochownik Edward V. , Li Youjun
Published: April 2023

Supplementary Figure S5 shows that DRP1 mediates GNPAT's oncogenic phenotypes.
Movie S2 from Emerin Deregulation Links Nuclear Shape Instability to Metastatic Potential
Authors: Reis-Sobreiro Mariana , Chen Jie-Fu , Novitskaya Tatiana , You Sungyong , Morley Samantha , Steadman Kenneth , Gill Navjot Kaur , Eskaros Adel , Rotinen Mirja , Chu Chia-Yi , Chung Leland W.K. , Tanaka Hisashi , Yang Wei , Knudsen Beatrice S. , Tseng Hsian-Rong , Rowat Amy C. , Posadas Edwin M. , Zijlstra Andries , Di Vizio Dolores , Freeman Michael R.
Published: April 2023

Nuclear membrane blebbing in amoeboid cells. Time-lapse analysis of DU145 DIAPH3-depleted cells treated with EGF and IL6 (exacerbates amoeboid features (13)) and stained with lipid fluorescent dye CellMask Orange.
Movie S1 from Emerin Deregulation Links Nuclear Shape Instability to Metastatic Potential
Authors: Reis-Sobreiro Mariana , Chen Jie-Fu , Novitskaya Tatiana , You Sungyong , Morley Samantha , Steadman Kenneth , Gill Navjot Kaur , Eskaros Adel , Rotinen Mirja , Chu Chia-Yi , Chung Leland W.K. , Tanaka Hisashi , Yang Wei , Knudsen Beatrice S. , Tseng Hsian-Rong , Rowat Amy C. , Posadas Edwin M. , Zijlstra Andries , Di Vizio Dolores , Freeman Michael R.
Published: April 2023

3D image of nuclear membrane blebbing and emerin mislocalization in BT-549 DIAPH3-depleted cells. DNA (Hoechst, blue), emerin (FITC, green) and membrane (1,1'-Dioctadecyl-3,3,3',3'-Tetramethylindocarbocyanine Perchlorate, Dil, red) staining are shown.
Supplementary information from Zika Virus Selectively Kills Aggressive Human Embryonal CNS Tumor Cells In Vitro and In Vivo
Authors: Kaid Carolini , Goulart Ernesto , Caires-Júnior Luiz C. , Araujo Bruno H.S. , Soares-Schanoski Alessandra , Bueno Heloisa M.S. , Telles-Silva Kayque A. , Astray Renato M. , Assoni Amanda F. , Júnior Antônio F.R. , Ventini Daniella C. , Puglia Ana L.P. , Gomes Roselane P. , Zatz Mayana , Okamoto Oswaldo K.
Published: April 2023

Description of supplementary materials & methods and supplementary figure legends.
Figure S1 from Zika Virus Selectively Kills Aggressive Human Embryonal CNS Tumor Cells In Vitro and In Vivo
Authors: Kaid Carolini , Goulart Ernesto , Caires-Júnior Luiz C. , Araujo Bruno H.S. , Soares-Schanoski Alessandra , Bueno Heloisa M.S. , Telles-Silva Kayque A. , Astray Renato M. , Assoni Amanda F. , Júnior Antônio F.R. , Ventini Daniella C. , Puglia Ana L.P. , Gomes Roselane P. , Zatz Mayana , Okamoto Oswaldo K.
Published: April 2023

Dose-dependent effect of ZIKVBR infection on tumor cell growth and viral shedding in vitro.
Demonstration of the use of LIFEx for radiomic feature extraction from a PET/MR scan from LIFEx: A Freeware for Radiomic Feature Calculation in Multimodality Imaging to Accelerate Advances in the Characterization of Tumor Heterogeneity
Authors: Nioche Christophe , Orlhac Fanny , Boughdad Sarah , Reuzé Sylvain , Goya-Outi Jessica , Robert Charlotte , Pellot-Barakat Claire , Soussan Michael , Frouin Frédérique , Buvat Irène
Published: April 2023

A real-time complete example of radiomic feature calculation from a PET/MR scan, where the same volumes of interest are used to extract PET and MR radiomic features.
Supplementary Fig. S4 from CAMKK2 Promotes Prostate Cancer Independently of AMPK via Increased Lipogenesis
Authors: Penfold Lucy , Woods Angela , Muckett Phillip , Nikitin Alexander Yu. , Kent Tera R. , Zhang Shuai , Graham Rebecca , Pollard Alice , Carling David
Published: April 2023

AMPK activity in prostate cancer cell lines treated with 991.
Table S2 from Influence of Smoking, Body Mass Index, and Other Factors on the Preventive Effect of Nonsteroidal Anti-Inflammatory Drugs on Colorectal Cancer Risk
Authors: Wang Xiaoliang , Chan Andrew T. , Slattery Martha L. , Chang-Claude Jenny , Potter John D. , Gallinger Steven , Caan Bette , Lampe Johanna W. , Newcomb Polly A. , Zubair Niha , Hsu Li , Schoen Robert E. , Hoffmeister Michael , Brenner Hermann , Le Marchand Loic , Peters Ulrike , White Emily
Published: April 2023

Table S2 shows no significant differences were observed between regular use of NSAIDs and CRC risk across cancer subsites or stages.
Supplemental Figure S1 from Treatment-Induced Tumor Cell Apoptosis and Secondary Necrosis Drive Tumor Progression in the Residual Tumor Microenvironment through MerTK and IDO1
Authors: Werfel Thomas A. , Elion David L. , Rahman Bushra , Hicks Donna J. , Sanchez Violeta , Gonzales-Ericsson Paula I. , Nixon Mellissa J. , James Jamaal L. , Balko Justin M. , Scherle Peggy A. , Koblish Holly K. , Cook Rebecca S.
Published: April 2023

Supplemental Figure S1. Tumors harvested on treatment d 1 and d 7 were assessed by IHC for P-Neu Y1248. Representative images are shown. Original magnification, 400X. N = 5. Histological analysis of H&E-stained tumor sections. Tumors were collected on treatment day 2 (i.e., 1 day after treatment {plus minus} lapatinib). Representative images are shown. N = 5. Original magnification was 400X. Tumors harvested on treatment d 2 were assessed by IHC for CD3 and FoxP3. Representative images are shown. Original magnification, 400X. N = 5. Tumors harvested on treatment d 2 were assessed by IHC for CD3 and FoxP3. Representative images are shown. Original magnification, 400X. N = 5. RT-qPCR analysis of tumor RNA harvested at treatment d 7 measuring relative levels of indicated gene transcripts. Values were calculated using the ddCT method. Each data point represents the average value of 5 technical replicates, N = 5 tumors. For each transcript, values were corrected for the average value measured in vehicle-treated samples. Student's T-test.
Table S4, Table S5, Table S6 from Transcriptomic Differences between Primary Colorectal Adenocarcinomas and Distant Metastases Reveal Metastatic Colorectal Cancer Subtypes
Authors: Kamal Yasmin , Schmit Stephanie L. , Hoehn Hannah J. , Amos Christopher I. , Frost H. Robert
Published: April 2023

Table S4. Pathway enrichment differences between CRC primary tumors and metastases (liver and lung) without appropriate adjustment of treatment exposure status in the MCC and Consortium datasets in the tissue sensitive setting: Hallmark and C2 Collections. Table S5. Pathway enrichment differences between treatment naïve and treatment exposed CRC tumors in the MCC and Consortium datasets, while adjusting for tumor type (primary or metastasis) status in the tissue sensitive setting: Hallmark and C2 Collections. Table S6. Comparison of treatment exposed (post treatment) and treatment naïve (pre treatment) metastases in the MCC dataset. Here, the up direction refers to treatment exposed metastases, while down refers to treatment naïve metastases. Pathways are from the Hallmark and C2 Collections. All FDR values shown are <0.1.
Figure S3 from Mammary Precancerous Stem and Non-Stem Cells Evolve into Cancers of Distinct Subtypes
Authors: Bu Wen , Liu Zhenyu , Jiang Weiyu , Nagi Chandandeep , Huang Shixia , Edwards Dean P. , Jo Eunji , Mo Qianxing , Creighton Chad J. , Hilsenbeck Susan G. , Leavitt Andrew D. , Lewis Michael T. , Wong Stephen T. C. , Li Yi
Published: April 2023

KRT6+ cells in the precancerous stage and cancer stage of MMTV-Wnt1 mammary glands are different from those in the normal mammary glands
Table S1 from ROCK Inhibition Induces Terminal Adipocyte Differentiation and Suppresses Tumorigenesis in Chemoresistant Osteosarcoma Cells
Authors: Takahashi Nobuhiro , Nobusue Hiroyuki , Shimizu Takatsune , Sugihara Eiji , Yamaguchi-Iwai Sayaka , Onishi Nobuyuki , Kunitomi Haruko , Kuroda Tatsuo , Saya Hideyuki
Published: April 2023

List of anticancer agents tested in the experiment shown in Supplementary Figure S19.
Supplementary Materials and Methods, Supplementary References from ROCK Inhibition Induces Terminal Adipocyte Differentiation and Suppresses Tumorigenesis in Chemoresistant Osteosarcoma Cells
Authors: Takahashi Nobuhiro , Nobusue Hiroyuki , Shimizu Takatsune , Sugihara Eiji , Yamaguchi-Iwai Sayaka , Onishi Nobuyuki , Kunitomi Haruko , Kuroda Tatsuo , Saya Hideyuki
Published: April 2023

Supplementary Materials and Methods, Supplementary References
Supplementary Data from Thrombin Signaling Promotes Pancreatic Adenocarcinoma through PAR-1–Dependent Immune Evasion
Authors: Yang Yi , Stang Amanda , Schweickert Patrick G. , Lanman Nadia A. , Paul Erin N. , Monia Brett P. , Revenko Alexey S. , Palumbo Joseph S. , Mullins Eric S. , Elzey Bennett D. , Janssen Edith M. , Konieczny Stephen F. , Flick Matthew J.
Published: April 2023

Supplementary Materials and Methods as well as Figures documenting TF-thrombin-PAR-1 driven PDAC disease progression.
Supplementary Data File 1 from Integrative Pharmacogenomics Analysis of Patient-Derived Xenografts
Authors: Mer Arvind S. , Ba-Alawi Wail , Smirnov Petr , Wang Yi X. , Brew Ben , Ortmann Janosch , Tsao Ming-Sound , Cescon David W. , Goldenberg Anna , Haibe-Kains Benjamin
Published: April 2023

Time vs. tumor volume plots for all 4,483 PDXs from PDXE dataset, generated using Xeva function plotPDX.
Figure S5 from CBP/p300 Drives the Differentiation of Regulatory T Cells through Transcriptional and Non-Transcriptional Mechanisms
Authors: Castillo Joseph , Wu Esther , Lowe Christopher , Srinivasan Shrividhya , McCord Ron , Wagle Marie-Claire , Jayakar Sangeeta , Edick Melissa Gonzalez , Eastham-Anderson Jeffrey , Liu Bonnie , Hutchinson Katherine E. , Jones Wendell , Stokes Matthew P. , Tarighat Somayeh S. , Holcomb Thomas , Glibicky Andrew , Romero F. Anthony , Magnuson Steven , Huang Shih-Min A. , Plaks Vicki , Giltnane Jennifer M. , Lackner Mark R. , Mounir Zineb
Published: April 2023

Supplementary figure 5 shows additional analyses of the CBP/p300 LOF mutations identified in the patient tissue samples along with predictions of functional effects of these mutations; additional immunofluorescence scores of immune cells and their activation status.
Figure S2 from PGC1α Inhibits Polyamine Synthesis to Suppress Prostate Cancer Aggressiveness
Authors: Kaminski Lisa , Torrino Stéphanie , Dufies Maeva , Djabari Zied , Haider Romain , Roustan François-René , Jaune Emilie , Laurent Kathiane , Nottet Nicolas , Michiels Jean-François , Gesson Maeva , Rocchi Stéphane , Mazure Nathalie M. , Durand Matthieu , Tanti Jean-François , Ambrosetti Damien , Clavel Stephan , Ben-Sahra Issam , Bost Frédéric
Published: April 2023

PGC-a regulates c-MYC and ODC1 expression
Figure S3 from Glutamate Decarboxylase 65 Signals through the Androgen Receptor to Promote Castration Resistance in Prostate Cancer
Authors: Gao Yi , Chen Lu , Du ZunGuo , Gao WenChao , Wu ZhengMing , Liu XiuJuan , Huang Hai , Xu DanFeng , Li QingQuan
Published: April 2023

Figure S3 shows the impact of GAD65 knockdown on ATP levels or lipid/RNA biosynthesis of CRPC
Supplementary Table S1-S7 from Long Noncoding RNA ELIT-1 Acts as a Smad3 Cofactor to Facilitate TGFβ/Smad Signaling and Promote Epithelial–Mesenchymal Transition
Authors: Sakai Satoshi , Ohhata Tatsuya , Kitagawa Kyoko , Uchida Chiharu , Aoshima Takuya , Niida Hiroyuki , Suzuki Tetsuro , Inoue Yasumichi , Miyazawa Keiji , Kitagawa Masatoshi
Published: April 2023

TS1:Primer sequences; TS2: Primer sequences for ChIP; FS3: HBV-induced lncRNA; FS4:Common target gene list; FS5: TGF-ÃŸ target gene list; FS6: ELIT-1 target gene list; FS7:ELIT-1-associated pathway
Supplementary Data from Temozolomide Sensitizes MGMT-Deficient Tumor Cells to ATR Inhibitors
Authors: Jackson Christopher B. , Noorbakhsh Seth I. , Sundaram Ranjini K. , Kalathil Aravind N. , Ganesa Sachita , Jia Lanqi , Breslin Hank , Burgenske Danielle M. , Gilad Oren , Sarkaria Jann N. , Bindra Ranjit S.
Published: April 2023

All supplemental figures and captions
Figure S5 from Genetic Variants of VEGFA and FLT4 Are Determinants of Survival in Renal Cell Carcinoma Patients Treated with Sorafenib
Authors: Crona Daniel J. , Skol Andrew D. , Leppänen Veli-Matti , Glubb Dylan M. , Etheridge Amy S. , Hilliard Eleanor , Peña Carol E. , Peterson Yuri K. , Klauber-DeMore Nancy , Alitalo Kari K. , Innocenti Federico
Published: April 2023

Effects of VEGFA rs58159269 (T>C) on endothelial cell proliferation in sunitinib.
Supplementary Data from The Cdk2–c-Myc–miR-571 Axis Regulates DNA Replication and Genomic Stability by Targeting Geminin
Authors: Zhang Yi , Li Zhuqing , Hao Qiang , Tan Wei , Sun Jing , Li Jing , Chen Chi-wei , Li Zongzhu , Meng Yunxiao , Zhou Yuan , Han Zhiyong , Pei Huadong , DePamphilis Melvin L. , Zhu Wenge
Published: April 2023

Supplementary Material and Methods
Supplementary Data from The Cdk2–c-Myc–miR-571 Axis Regulates DNA Replication and Genomic Stability by Targeting Geminin
Authors: Zhang Yi , Li Zhuqing , Hao Qiang , Tan Wei , Sun Jing , Li Jing , Chen Chi-wei , Li Zongzhu , Meng Yunxiao , Zhou Yuan , Han Zhiyong , Pei Huadong , DePamphilis Melvin L. , Zhu Wenge
Published: April 2023

This excel file include RNA seq row data in the manuscript
Supplementary Data 1 from SUMO-Specific Protease 1 Is Critical for Myeloid-Derived Suppressor Cell Development and Function
Authors: Huang Xian , Zuo Yong , Wang Xiuzhi , Wu Xuefeng , Tan Hongsheng , Fan Qiuju , Dong Baijun , Xue Wei , Chen Guo-Qiang , Cheng Jinke
Published: April 2023

Different expression pattern of SENP1 in colon adenocarcinoma
Supplementary Figure Legends from CXCR7 Reactivates ERK Signaling to Promote Resistance to EGFR Kinase Inhibitors in NSCLC
Authors: Becker Jeffrey H. , Gao Yandi , Soucheray Margaret , Pulido Ines , Kikuchi Eiki , Rodríguez María L. , Gandhi Rutu , Lafuente-Sanchis Aranzazu , Aupí Miguel , Alcácer Fernández-Coronado Javier , Martín-Martorell Paloma , Cremades Antonio , Galbis-Caravajal José M. , Alcácer Javier , Christensen Camilla L. , Simms Patricia , Hess Ashley , Asahina Hajime , Kahle Michael P. , Al-Shahrour Fatima , Borgia Jeffrey A. , Lahoz Agustín , Insa Amelia , Juan Oscar , Jänne Pasi A. , Wong Kwok-Kin , Carretero Julian , Shimamura Takeshi
Published: April 2023

Supplementary Figure Legends
Figure S4 from LINE-1 Retrotransposition Promotes the Development and Progression of Lung Squamous Cell Carcinoma by Disrupting the Tumor-Suppressor Gene FGGY
Authors: Zhang Rui , Zhang Fan , Sun Zeguo , Liu Pengpeng , Zhang Xiao , Ye Yingnan , Cai Beiqi , Walsh Martin J. , Ren Xiubao , Hao Xishan , Zhang Weijia , Yu Jinpu
Published: April 2023

A model depicts homologous recombination between the exogenous L1-FGGY and the endogenous FGGY. (A) Detection of the value of different fragments in genome DNA (gDNA). (B) Detection of the value of different fragments in complementary DNA (cDNA). (C) Primer design model for detection in gDNA and cDNA in (A) and (B).
Supplementary Figures S1, S2, S3, S4 from Epigenomic Reordering Induced by Polycomb Loss Drives Oncogenesis but Leads to Therapeutic Vulnerabilities in Malignant Peripheral Nerve Sheath Tumors
Authors: Wojcik John B. , Marchione Dylan M. , Sidoli Simone , Djedid Anissa , Lisby Amanda , Majewski Jacek , Garcia Benjamin A.
Published: April 2023

Merged pdf file containing supplementary figures 1-4
Supplementary Figure 6 from 2-Hydroxyglutarate-Mediated Autophagy of the Endoplasmic Reticulum Leads to an Unusual Downregulation of Phospholipid Biosynthesis in Mutant IDH1 Gliomas
Authors: Viswanath Pavithra , Radoul Marina , Izquierdo-Garcia Jose Luis , Ong Wei Qiang , Luchman Hema Artee , Cairncross J. Gregory , Huang Bo , Pieper Russell O. , Phillips Joanna J. , Ronen Sabrina M.
Published: April 2023

CQ and BAF restore phospholipid levels and inhibit clonogenicity of IDHmut glioma cells.
Supplementary Figure 5 from 2-Hydroxyglutarate-Mediated Autophagy of the Endoplasmic Reticulum Leads to an Unusual Downregulation of Phospholipid Biosynthesis in Mutant IDH1 Gliomas
Authors: Viswanath Pavithra , Radoul Marina , Izquierdo-Garcia Jose Luis , Ong Wei Qiang , Luchman Hema Artee , Cairncross J. Gregory , Huang Bo , Pieper Russell O. , Phillips Joanna J. , Ronen Sabrina M.
Published: April 2023

Silencing FAM134b, Atg5 or Atg7 restores phospholipid biosynthesis in IDHmut glioma cells.
Supplementary Figure Legends from KRAS Oncoprotein Expression Is Regulated by a Self-Governing eIF5A-PEAK1 Feed-Forward Regulatory Loop
Authors: Fujimura Ken , Wang Huawei , Watson Felicia , Klemke Richard L.
Published: April 2023

Supplementary Figure Legends
Movie S3 from A Human Organotypic Microfluidic Tumor Model Permits Investigation of the Interplay between Patient-Derived Fibroblasts and Breast Cancer Cells
Authors: Truong Danh D. , Kratz Alexander , Park Jin G. , Barrientos Eric S. , Saini Harpinder , Nguyen Toan , Pockaj Barbara , Mouneimne Ghassan , LaBaer Joshua , Nikkhah Mehdi
Published: April 2023

Time-lapse imaging of CAFs migrating through the 3D stroma in absence of SUM-159 breast cancer cells.
Figure S6 from The Transcriptional Regulator Sin3A Contributes to the Oncogenic Potential of STAT3
Authors: Gambi Giovanni , Di Simone Elisabetta , Basso Veronica , Ricci Luisa , Wang Rui , Verma Akanksha , Elemento Olivier , Ponzoni Maurilio , Inghirami Giorgio , Icardi Laura , Mondino Anna
Published: April 2023

Data depict Sin3A-STAT3 interaction in breast cancer cells
Figure S3 from The Transcriptional Regulator Sin3A Contributes to the Oncogenic Potential of STAT3
Authors: Gambi Giovanni , Di Simone Elisabetta , Basso Veronica , Ricci Luisa , Wang Rui , Verma Akanksha , Elemento Olivier , Ponzoni Maurilio , Inghirami Giorgio , Icardi Laura , Mondino Anna
Published: April 2023

Data show the effects of resveratrol on TSGs expression and ALK+ cell survival
Figure S2 from The Transcriptional Regulator Sin3A Contributes to the Oncogenic Potential of STAT3
Authors: Gambi Giovanni , Di Simone Elisabetta , Basso Veronica , Ricci Luisa , Wang Rui , Verma Akanksha , Elemento Olivier , Ponzoni Maurilio , Inghirami Giorgio , Icardi Laura , Mondino Anna
Published: April 2023

Data support the role of ALK and STAT3 in TSG silencing in ALK+ ALCL
Supplementary Data Figure S1-S4 from PARPi Triggers the STING-Dependent Immune Response and Enhances the Therapeutic Efficacy of Immune Checkpoint Blockade Independent of BRCAness
Authors: Shen Jianfeng , Zhao Wei , Ju Zhenlin , Wang Lulu , Peng Yang , Labrie Marilyne , Yap Timothy A. , Mills Gordon B. , Peng Guang
Published: April 2023

PARPi activates DNA damage responses and STING signaling pathway
Supplementary Methods and References from HER2 Overexpression Triggers an IL1α Proinflammatory Circuit to Drive Tumorigenesis and Promote Chemotherapy Resistance
Authors: Liu Shou , Lee Ji Shin , Jie Chunfa , Park Min Ho , Iwakura Yoichiro , Patel Yogin , Soni Mithil , Reisman David , Chen Hexin
Published: April 2023

Supplementary methods and References - Supplementary methods describing key reagents, plasmids, cell culture, CRISP/Cas9 system, HER2 agonist preparation, RT-PCR, western blot, flow-cytometry, tumorsphere culture, ChIP assay, animal experiments, Immunohistochemically staining and microarray analysis.
Supplementary Data from Patient-Specific Tumor Growth Trajectories Determine Persistent and Resistant Cancer Cell Populations during Treatment with Targeted Therapies
Authors: Grassberger Clemens , McClatchy David , Geng Changran , Kamran Sophia C. , Fintelmann Florian , Maruvka Yosef E. , Piotrowska Zofia , Willers Henning , Sequist Lecia V. , Hata Aaron N. , Paganetti Harald
Published: April 2023

This file contains supplemental figures 1-3. SF1: detailed description of sequential fitting process with example; SF2: relative uncertainties of the pre-existing resistant and persistent fractions; SF3: robustness analysis - results of the combined model for different mutation induction probabilities
Supplementary Data from Radiolabeled Oligonucleotides Targeting the RNA Subunit of Telomerase Inhibit Telomerase and Induce DNA Damage in Telomerase-Positive Cancer Cells
Authors: Jackson Mark R. , Bavelaar Bas M. , Waghorn Philip A. , Gill Martin R. , El-Sagheer Afaf H. , Brown Tom , Tarsounas Madalena , Vallis Katherine A.
Published: April 2023

The supplementary data file contains mass spectrometry (MS) and size exclusion chromatography (SEC) data to confirm DTPA-, 111In-, and fluorophore-labeling of oligonucleotides, TRAP assay control experiments, quantification of fluorophore-oligonucleotide uptake in MDA-MB-435 and U2OS cells, clonogenic survival assays, characterization of WI38 cells (clonogenic assays and oligonucleotide uptake) and hTERT expression following exposure to radiolabeled oligonucleotides.
Supplementary Figure 2 from Exosomes from Nischarin-Expressing Cells Reduce Breast Cancer Cell Motility and Tumor Growth
Authors: Maziveyi Mazvita , Dong Shengli , Baranwal Somesh , Mehrnezhad Ali , Rathinam Rajamani , Huckaba Thomas M. , Mercante Donald E. , Park Kidong , Alahari Suresh K.
Published: April 2023

Characterization of Exosomes in Human Cell Lines
Supplementary Figure 2 from Inhibitor of Differentiation-1 Sustains Mutant KRAS-Driven Progression, Maintenance, and Metastasis of Lung Adenocarcinoma via Regulation of a FOSL1 Network
Authors: Román Marta , López Inés , Guruceaga Elisabeth , Baraibar Iosune , Ecay Margarita , Collantes María , Nadal Ernest , Vallejo Adrián , Cadenas Silvia , Miguel Marta Echavarri-de , Jang Jae Hwi , Martin-Uriz Patxi San , Castro-Labrador Laura , Vilas-Zornoza Amaia , Lara-Astiaso David , Ponz-Sarvise Mariano , Rolfo Christian , Santos Edgardo S. , Raez Luis E. , Taverna Simona , Behrens Carmen , Weder Walter , Wistuba Ignacio I. , Vicent Silvestre , Gil-Bazo Ignacio
Published: April 2023

A shRNA-resistant Id1 cDNA rescues Id1 loss.
Figure S2 from mTORC2 Suppresses GSK3-Dependent Snail Degradation to Positively Regulate Cancer Cell Invasion and Metastasis
Authors: Zhang Shuo , Qian Guoqing , Zhang Qian-Qian , Yao Yuying , Wang Dongsheng , Chen Zhuo G. , Wang Li-Jing , Chen Mingwei , Sun Shi-Yong
Published: April 2023

Rapalogs induce Snail degradation
Figure S1 from mTORC2 Suppresses GSK3-Dependent Snail Degradation to Positively Regulate Cancer Cell Invasion and Metastasis
Authors: Zhang Shuo , Qian Guoqing , Zhang Qian-Qian , Yao Yuying , Wang Dongsheng , Chen Zhuo G. , Wang Li-Jing , Chen Mingwei , Sun Shi-Yong
Published: April 2023

Effects of mTOR inhibitors on modulating the levels of Slug and Twist in different cancer cell lines.
Figure S5 and S6 from Activation of the VEGFC/VEGFR3 Pathway Induces Tumor Immune Escape in Colorectal Cancer
Authors: Tacconi Carlotta , Ungaro Federica , Correale Carmen , Arena Vincenzo , Massimino Luca , Detmar Michael , Spinelli Antonino , Carvello Michele , Mazzone Massimiliano , Oliveira Ana I. , Rubbino Federica , Garlatti Valentina , Spanò Salvatore , Lugli Enrico , Colombo Federico S. , Malesci Alberto , Peyrin-Biroulet Laurent , Vetrano Stefania , Danese Silvio , D’Alessio Silvia
Published: April 2023

S5 T cell gating strategy. Related to Figure 3. S6 FACS gating strategy for TAM and tumoral LEC and RNA sequencing validation. Related to Figure 4
Supplementary Figures from AMPK Alpha-1 Intrinsically Regulates the Function and Differentiation of Tumor Myeloid-Derived Suppressor Cells
Authors: Trillo-Tinoco Jimena , Sierra Rosa A. , Mohamed Eslam , Cao Yu , de Mingo-Pulido Álvaro , Gilvary Danielle L. , Anadon Carmen M. , Costich Tara Lee , Wei Sheng , Flores Elsa R. , Ruffell Brian , Conejo-Garcia José R. , Rodriguez Paulo C.
Published: April 2023

This file contains the Supplementary Figures 1-5. Supplementary Figure 1. Phospho-AMPKα1 levels increase in tumor-MDSC. Supplementary Figure 2. Tumor cell-derived GM-CSF triggers Ampkα expression in MDSC through Stat-5 activation. Supplementary Figure 3. MDSC in human myeloid progenitors treated with GM-CSF plus IL-6 for 7 days. Supplementary Figure 4. Extended survival of Prkaa1-null mice bearing ovarian tumors. Supplementary Figure 5. Effects of Prkaa1KO PMN-MDSC in tumor growth.
Table S1 from Quantification and Localization of Protein–RNA Interactions in Patient-Derived Archival Tumor Tissue
Authors: Blanchard Emmeline L. , Argyropoulou Danae , Zurla Chiara , Bhosle Sushma M. , Vanover Daryll , Santangelo Philip J.
Published: April 2023

PNA Oligonucleotide Sequences
Fig S4. from miR-192-5p Silencing by Genetic Aberrations Is a Key Event in Hepatocellular Carcinomas with Cancer Stem Cell Features
Authors: Gu Yuanzhuo , Wei Xiyang , Sun Yulin , Gao Hongjun , Zheng Xin , Wong Linda L. , Jin Ling , Liu Niya , Hernandez Brenda , Peplowska Karolina , Zhao Xiaohang , Zhan Qi-Min , Feng Xin-Hua , Tang Zhao-You , Ji Junfang
Published: April 2023

MiR-192-5p suppressed cell migration and cell invasion in HCC cells.
Figure S1: PNA increases mRNA-protein PLA specificity upon live delivery and reduces the need for formamide and dextran sulfate for FISH. from Quantification and Localization of Protein–RNA Interactions in Patient-Derived Archival Tumor Tissue
Authors: Blanchard Emmeline L. , Argyropoulou Danae , Zurla Chiara , Bhosle Sushma M. , Vanover Daryll , Santangelo Philip J.
Published: April 2023

Supplementary Figure 1: PNA increases mRNA-protein PLA specificity upon live delivery and reduces the need for formamide and dextran sulfate for FISH. A) 5 nM of of V5-tagged MTRIPs with either PNA or 2OM oligonucleotides targeting polyadenylated mRNA were delivered to live cells via SLO. PLA (white) was performed between V5 and HuR. Extended focus images are shown. Scale bars indicate 10 μm. Quantification of PLA is shown. Statistics were performed with a two-way ANOVA with a Tukey's multiple comparisons test, where n=30 and **** p < 0.0001. 95% confidence intervals are shown in black. B) Cells were infected with RSV, they were exposed to FISH hybridization buffer with either 0% or 10% formamide overnight, and stained for F (red) and M (green). Extended focus images are shown. Scale bars indicate 10 μm. C) 10 μg of Dylight 650 pre-labeled luciferase mRNA (red), either naked or complexed with Viromer Red, was delivered to mouse muscle. FISH (green) was performed either with cy3B-PMTRIPs or Quazar 570 DNA oliognucleotides. D) 200 ng of cy3B pre-labeled luciferase mRNA (red) was delivered to cells via L2K transfection. FISH (green) was performed either with PMTRIPs or DNA oliognucleotides. E) Representative images of sham controls for (C) and (D). F) PMTRIP FISH was performed in A549s for polyadenylated mRNA or for a scrambled sequence. G) PMTRIP FISH was performed in HT-29s for COX-2, Actin-β or for a scrambled sequence. H) PMTRIP FISH was performed in DLD-1s for COX-2. In all images scale bars represent 10 μm.
Supplementary Information from Roles and Regulation of Long Noncoding RNAs in Hepatocellular Carcinoma
Authors: Lim Lee Jin , Wong Samuel Y.S. , Huang Feiyang , Lim Sheng , Chong Samuel S. , Ooi London Lucien , Kon Oi Lian , Lee Caroline G.
Published: April 2023

This file contains 4 supplementary figures (Figure S1, Figure S2, Figure S3 and Figure S4), 9 supplementary tables (Table S1,Table S2, Table S3A, Table S3B, Table S3C, Table S3D, Table S3E, Table S4A and Table S4B) and references used in the tables.
Supplementary Figures and Methods from EN1 Is a Transcriptional Dependency in Triple-Negative Breast Cancer Associated with Brain Metastasis
Authors: Peluffo Guillermo , Subedee Ashim , Harper Nicholas W. , Kingston Natalie , Jovanović Bojana , Flores Felipe , Stevens Laura E. , Beca Francisco , Trinh Anne , Chilamakuri Chandra Sekhar Reddy , Papachristou Evangelia K. , Murphy Katherine , Su Ying , Marusyk Andriy , D'Santos Clive S. , Rueda Oscar M. , Beck Andrew H. , Caldas Carlos , Carroll Jason S. , Polyak Kornelia
Published: April 2023

Supplementary Figure S1. Transcription factors enriched in TNBC. Supplementary Figure S2. EN1 is a dependency in TNBC cell lines. Supplementary Figure S3. Transcriptional and genomic targets of EN1 in TNBC cells. Supplementary Figure S4. The effect of CTNNB1 expression in TNBC cells. Supplementary Figure S5. Cellular and molecular changes following EN1 expression in MCF7 cells. Supplementary Figure S6. Expression of EN1 in human breast tumors.
Supplementary Materials and Methods from Early Loss of Histone H2B Monoubiquitylation Alters Chromatin Accessibility and Activates Key Immune Pathways That Facilitate Progression of Ovarian Cancer
Authors: Hooda Jagmohan , Novak Marián , Salomon Matthew P. , Matsuba Chikako , Ramos Romela I. , MacDuffie Emily , Song Melissa , Hirsch Michelle S. , Lester Jenny , Parkash Vinita , Karlan Beth Y. , Oren Moshe , Hoon Dave S. , Drapkin Ronny
Published: April 2023

Supplemental Materials and Methods
Figure S4 from miR-221 Targets QKI to Enhance the Tumorigenic Capacity of Human Colorectal Cancer Stem Cells
Authors: Mukohyama Junko , Isobe Taichi , Hu Qingjiang , Hayashi Takanori , Watanabe Takashi , Maeda Masao , Yanagi Hisano , Qian Xin , Yamashita Kimihiro , Minami Hironobu , Mimori Koshi , Sahoo Debashis , Kakeji Yoshihiro , Suzuki Akira , Dalerba Piero , Shimono Yohei
Published: April 2023

Mutational repertoire of the two colon cancer PDX lines used in this study.
Figure S3 from Deoxycytidine Release from Pancreatic Stellate Cells Promotes Gemcitabine Resistance
Authors: Dalin Simona , Sullivan Mark R. , Lau Allison N. , Grauman-Boss Beatrice , Mueller Helen S. , Kreidl Emanuel , Fenoglio Silvia , Luengo Alba , Lees Jacqueline A. , Vander Heiden Matthew G. , Lauffenburger Douglas A. , Hemann Michael T.
Published: April 2023

Fig. S3. Absolute quantification of the indicated species in 3 day CM. (A-D) 8-MDP and dipyridamole were applied to PSC2s conditioning the media at 6.67 uM. A83 was applied to PSC2s conditioning the media at 5 uM. Data show 3 biological replicates +/- SEM except for 293T data which shows one biological replicate. ***, P {less than or equal to} 0.001, ns, not significant (one-way ANOVA with Bonferroni post-tests).
Figure S2 from miR-221 Targets QKI to Enhance the Tumorigenic Capacity of Human Colorectal Cancer Stem Cells
Authors: Mukohyama Junko , Isobe Taichi , Hu Qingjiang , Hayashi Takanori , Watanabe Takashi , Maeda Masao , Yanagi Hisano , Qian Xin , Yamashita Kimihiro , Minami Hironobu , Mimori Koshi , Sahoo Debashis , Kakeji Yoshihiro , Suzuki Akira , Dalerba Piero , Shimono Yohei
Published: April 2023

Expression level of miR-221 in the Lgr5+/Kit- mouse colon epithelial cells.
A brief caption of supplementary data from Phosphorylation of HSF1 by PIM2 Induces PD-L1 Expression and Promotes Tumor Growth in Breast Cancer
Authors: Yang Tingting , Ren Chune , Lu Chao , Qiao Pengyun , Han Xue , Wang Li , Wang Dan , Lv Shijun , Sun Yonghong , Yu Zhenhai
Published: April 2023

A brief caption of supplementary data
Table S3 from Epidemiologic and Clinical Analysis of Cervical Cancer Using Data from the Population-Based Osaka Cancer Registry
Authors: Yagi Asami , Ueda Yutaka , Kakuda Mamoru , Tanaka Yusuke , Ikeda Sayaka , Matsuzaki Shinya , Kobayashi Eiji , Morishima Toshitaka , Miyashiro Isao , Fukui Keisuke , Ito Yuri , Nakayama Tomio , Kimura Tadashi
Published: April 2023

Difference of treatment procedures for localized of cervical cancer, by age group (1976-2012)
Supplementary Data from The Pro-Oncogenic Adaptor CIN85 Acts as an Inhibitory Binding Partner of Hypoxia-Inducible Factor Prolyl Hydroxylase 2
Authors: Kozlova Nina , Mennerich Daniela , Samoylenko Anatoly , Dimova Elitsa Y. , Koivunen Peppi , Biterova Ekaterina , Richter Kati , Hassinen Antti , Kellokumpu Sakari , Manninen Aki , Miinalainen Ilkka , Glumoff Virpi , Ruddock Lloyd , Drobot Lyudmyla Borysivna , Kietzmann Thomas
Published: April 2023

Supplementary figure 1. CIN85 interacts with PHD2 via three N-terminal SH3 domains. Supplementary figure 2. The amino acids 81-98 within the N-terminal region of PHD2 have a major impact on the interaction with CIN85. Supplementary figure 3. CRISPR/Cas9-mediated generation of MDA-MB-231 cells lacking the amino acids critical for interaction with CIN85. Supplementary figure 4. Loss of PHD2-CIN85 interaction does not influence HIF-1α and HIF-2α mRNA levels. Supplementary figure 5. Lack of the CIN85-PHD2 interaction in E10 and E12 cells mediates HIF-α resistance upon depletion of CIN85. Supplementary figure 6. Microscopy images of S, E10, and E12 cells. Supplementary figure 7. Live cell proliferation analysis of S, E10, and E12 cells. Supplementary figure 8. CRISPR/Cas9 mediated EGLN1 (PHD2) editing in MDA-MB-231 cells with EGLN1-sgRNA-219 and with EGLN1-sgRNA-292 did not show off-target effects.
Supplementary Table Legend from MEK Inhibition Modulates Cytokine Response to Mediate Therapeutic Efficacy in Lung Cancer
Authors: Xie Mengyu , Zheng Hong , Madan-Lala Ranjna , Dai Wenjie , Gimbrone Nicholas T. , Chen Zhihua , Kinose Fumi , Blackstone Sarah A. , Smalley Keiran S.M. , Cress W. Douglas , Haura Eric B. , Rix Uwe , Beg Amer A.
Published: April 2023

Supplementary Table Legend for Xie et al, MEK inhibition modulates cytokine response to mediate therapeutic efficacy in lung cancer
Supplementary Data from Smoking and Urinary Cotinine Levels Are Predictors of Increased Risk for Gastric Intestinal Metaplasia
Authors: Kim Kyungeun , Chang Yoosoo , Ahn Jiin , Yang Hyo-Joon , Jung Ju Young , Kim Seokkyun , Sohn Chong Il , Ryu Seungho
Published: April 2023

Supplementary information and tables
Supplementary Methods from MEK Inhibition Modulates Cytokine Response to Mediate Therapeutic Efficacy in Lung Cancer
Authors: Xie Mengyu , Zheng Hong , Madan-Lala Ranjna , Dai Wenjie , Gimbrone Nicholas T. , Chen Zhihua , Kinose Fumi , Blackstone Sarah A. , Smalley Keiran S.M. , Cress W. Douglas , Haura Eric B. , Rix Uwe , Beg Amer A.
Published: April 2023

Supplementary Methods for Xie et al, MEK inhibition modulates cytokine response to mediate therapeutic efficacy in lung cancer
Table S1 - Table S9 from Super-Enhancer–Associated Long Noncoding RNA HCCL5 Is Activated by ZEB1 and Promotes the Malignancy of Hepatocellular Carcinoma
Authors: Peng Li , Jiang Binyuan , Yuan Xiaoqing , Qiu Yuntan , Peng Jiangyun , Huang Yongsheng , Zhang Chaoyang , Zhang Yin , Lin Zhaoyu , Li Jinsong , Yao Weicheng , Deng Weixi , Zhang Yaqin , Meng Meng , Pan Xi , Li Chunquan , Yin Dong , Bi Xinyu , Li Guancheng , Lin De-Chen
Published: April 2023

Supplementary Table 1. Primers used for RACE Supplementary Table 2. Probe sequences used for Northern blotting Supplementary Table 3. Primers used for the construction of lncRNA HCCL5 overexpression and interference vectors Supplementary Table 4. Primer pairs for enhancer regions in construction of luciferase-related vectors Supplementary Table 5. Primer pairs for enhancer regions in ChIP-Qpcr Supplementary Table 6. Clinic-pathological characteristics of 15-pair HCC patients (Discovery set) Supplementary Table 7. Clinic-pathological characteristics of 196 overall patients (Validation set) Supplementary Table 8. The clinic-pathological characteristics of 15-pair patients according to HCCL5 expression (Discovery set) Supplementary Table 9. The clinic-pathological characteristics of 196 overall patients according to HCCL5 expression (Validation set)
Supplementary Data from Randomly Distributed K14+ Breast Tumor Cells Polarize to the Leading Edge and Guide Collective Migration in Response to Chemical and Mechanical Environmental Cues
Authors: Hwang Priscilla Y. , Brenot Audrey , King Ashley C. , Longmore Gregory D. , George Steven C.
Published: April 2023

These are supplemental figures 1-5, which contain extra data supporting figures 1-7
Supplementary Data from Anti–PD-L1 Treatment Results in Functional Remodeling of the Macrophage Compartment
Authors: Xiong Huizhong , Mittman Stephanie , Rodriguez Ryan , Moskalenko Marina , Pacheco-Sanchez Patricia , Yang Yagai , Nickles Dorothee , Cubas Rafael
Published: April 2023

Supplementary Material and Methods
Figure S4 from Anti–PD-L1 Treatment Results in Functional Remodeling of the Macrophage Compartment
Authors: Xiong Huizhong , Mittman Stephanie , Rodriguez Ryan , Moskalenko Marina , Pacheco-Sanchez Patricia , Yang Yagai , Nickles Dorothee , Cubas Rafael
Published: April 2023

Tumor supernatant from aPDL1 treated MC38 tumors drive BMDM polarization that enhances T cell proliferation and activation
Supplementary Figure 5 from Targeting Hippo-Dependent and Hippo-Independent YAP1 Signaling for the Treatment of Childhood Rhabdomyosarcoma
Authors: Slemmons Katherine K. , Yeung Choh , Baumgart Joshua T. , Juarez Jhazeel O. Martinez , McCalla Amy , Helman Lee J.
Published: April 2023

H&E pictures of Rh30 tumors in Figure 6.
Figure S6 from Oncogenic Properties of the Antisense lncRNA COMET in BRAF- and RET-Driven Papillary Thyroid Carcinomas
Authors: Esposito Roberta , Esposito Daniela , Pallante Pierlorenzo , Fusco Alfredo , Ciccodicola Alfredo , Costa Valerio
Published: April 2023

COMET KD and VMR efficacy in BCPAP cells
Supplementary Figure 1 from Targeting Hippo-Dependent and Hippo-Independent YAP1 Signaling for the Treatment of Childhood Rhabdomyosarcoma
Authors: Slemmons Katherine K. , Yeung Choh , Baumgart Joshua T. , Juarez Jhazeel O. Martinez , McCalla Amy , Helman Lee J.
Published: April 2023

DNMTi treatment in additional RMS cell lines.
Supplementary figure legends, materials and methods from 4E-BP1 Is a Tumor Suppressor Protein Reactivated by mTOR Inhibition in Head and Neck Cancer
Authors: Wang Zhiyong , Feng Xiaodong , Molinolo Alfredo A. , Martin Daniel , Vitale-Cross Lynn , Nohata Nijiro , Ando Mizuo , Wahba Amy , Amornphimoltham Panomwat , Wu Xingyu , Gilardi Mara , Allevato Michael , Wu Victoria , Steffen Dana J. , Tofilon Philip , Sonenberg Nahum , Califano Joseph , Chen Qianming , Lippman Scott M. , Gutkind J. Silvio
Published: April 2023

Supplemental material shows figure lengends from Figure S1 to S6, together with supplementary materials and methods.
Supplementary Materials and Methods from Targeted Metabolomics Identifies the Cytochrome P450 Monooxygenase Eicosanoid Pathway as a Novel Therapeutic Target of Colon Tumorigenesis
Authors: Wang Weicang , Yang Jun , Edin Matthew L. , Wang Yuxin , Luo Ying , Wan Debin , Yang Haixia , Song Chun-Qing , Xue Wen , Sanidad Katherine Z. , Song Mingyue , Bisbee Heather A. , Bradbury Jennifer A. , Nan Guanjun , Zhang Jianan , Shih Pei-an Betty , Lee Kin Sing Stephen , Minter Lisa M. , Kim Daeyoung , Xiao Hang , Liu Jun-Yan , Hammock Bruce D. , Zeldin Darryl C. , Zhang Guodong
Published: April 2023

Supplementary Materials and Methods
Supplementary Figure 2 from Whole Genome–Derived Tiled Peptide Arrays Detect Prediagnostic Autoantibody Signatures in Non–Small-Cell Lung Cancer
Authors: Yan Yuanqing , Sun Nan , Wang Hong , Kobayashi Makoto , Ladd Jon J. , Long James P. , Lo Ken C. , Patel Jigar , Sullivan Eric , Albert Thomas , Goodman Gary E. , Do Kim-Anh , Hanash Samir M.
Published: April 2023

Distribution of AUCs for reactivity of random peptides between cases and controls
Supplementary Figure 1 from Whole Genome–Derived Tiled Peptide Arrays Detect Prediagnostic Autoantibody Signatures in Non–Small-Cell Lung Cancer
Authors: Yan Yuanqing , Sun Nan , Wang Hong , Kobayashi Makoto , Ladd Jon J. , Long James P. , Lo Ken C. , Patel Jigar , Sullivan Eric , Albert Thomas , Goodman Gary E. , Do Kim-Anh , Hanash Samir M.
Published: April 2023

Array design and Synthesis
Figure S3 from Selective EGLN Inhibition Enables Ablative Radiotherapy and Improves Survival in Unresectable Pancreatic Cancer
Authors: Fujimoto Tara N. , Colbert Lauren E. , Huang Yanqing , Molkentine Jessica M. , Deorukhkar Amit , Baseler Laura , de la Cruz Bonilla Marimar , Yu Meifang , Lin Daniel , Gupta Sonal , Cabeceiras Peter K. , Kingsley Charles V. , Tailor Ramesh C. , Sawakuchi Gabriel O. , Koay Eugene J. , Piwnica-Worms Helen , Maitra Anirban , Taniguchi Cullen M.
Published: April 2023

Figure S3. KPC mice in each cohort are similar. Characteristics of KPC mice enrolled on the study in each cohort broken down by (A) age (B) weight and (C) tumor volume at the time of diagnosis. Error bars represent s.e.m.
Suppl Table S2 from TET2-Dependent Hydroxymethylome Plasticity Reduces Melanoma Initiation and Progression
Authors: Bonvin Elise , Radaelli Enrico , Bizet Martin , Luciani Flavie , Calonne Emilie , Putmans Pascale , Nittner David , Singh Nitesh Kumar , Santagostino Sara Francesca , Petit Valérie , Larue Lionel , Marine Jean Christophe , Fuks François
Published: April 2023

DhmR and gene expression tet2+/+ related to Fig 3
Figure S1 from Acidification of Tumor at Stromal Boundaries Drives Transcriptome Alterations Associated with Aggressive Phenotypes
Authors: Rohani Nazanin , Hao Liangliang , Alexis Maria S. , Joughin Brian A. , Krismer Konstantin , Moufarrej Mira N. , Soltis Anthony R. , Lauffenburger Douglas A. , Yaffe Michael B. , Burge Christopher B. , Bhatia Sangeeta N. , Gertler Frank B.
Published: April 2023

Figure S1 shows that pHLIP localization to the acidic tissues in vivo is pH-dependent and pHLIP- CA9 colocalization in lung mets and enrichment of pHLIP and CA9 at tumor stroma interface in mouse and human tumors
Supplementary Table 2 from Functional Analysis and Fine Mapping of the 9p22.2 Ovarian Cancer Susceptibility Locus
Authors: Buckley Melissa A. , Woods Nicholas T. , Tyrer Jonathan P. , Mendoza-Fandiño Gustavo , Lawrenson Kate , Hazelett Dennis J. , Najafabadi Hamed S. , Gjyshi Anxhela , Carvalho Renato S. , Lyra Paulo C. , Coetzee Simon G. , Shen Howard C. , Yang Ally W. , Earp Madalene A. , Yoder Sean J. , Risch Harvey , Chenevix-Trench Georgia , Ramus Susan J. , Phelan Catherine M. , Coetzee Gerhard A. , Noushmehr Houtan , Hughes Timothy R. , Sellers Thomas A. , Goode Ellen L. , Pharoah Paul D. , Gayther Simon A. , Monteiro Alvaro N.A.
Published: April 2023

Genes selected for NanoString analysis. Contains the following tabs: (1) Nanostring gene set: final list for NanoString analysis. Gene Symbol, genes selected for nanostring analysis; Pathway, annotation from literature or from pathways in Tab 10; Cell line, cell line (FTE, iFTSEC283; OSE, iOSE11) in which the BNC2 ChIP-Seq peak was identified in proximity to the TSS. P-value, significance of expression changes using a nominal p-value {less than or equal to} 0.05 (indicated in green highlight); (2) 995 gene list: list of 995 genes/transcripts with TSS within 30 kb of the BNC2 ChIP-Seq peak centers found in both iOSE11 and iFTSEC283 cells; (3)-(9) Coordinates and annotation of BNC2 ChIP-seq peaks and genes with TSS within 30 kb of the BNC2 ChIP-seq peak centers from two replicates each of FTE (iFTSEC283) and OSE (iOSE11) cells, their overlaps; (10) Panther GO analysis results.
Supplementary Data from Nutrient Stress–Dysregulated Antisense lncRNA GLS-AS Impairs GLS-Mediated Metabolism and Represses Pancreatic Cancer Progression
Authors: Deng Shi-Jiang , Chen Heng-Yu , Zeng Zhu , Deng Shichang , Zhu Shuai , Ye Zeng , He Chi , Liu Ming-Liang , Huang Kang , Zhong Jian-Xin , Xu Feng-Yu , Li Qiang , Liu Yang , Wang Chunyou , Zhao Gang
Published: April 2023

Supplementary Figure Legends
Supplementary Data from Nutrient Stress–Dysregulated Antisense lncRNA GLS-AS Impairs GLS-Mediated Metabolism and Represses Pancreatic Cancer Progression
Authors: Deng Shi-Jiang , Chen Heng-Yu , Zeng Zhu , Deng Shichang , Zhu Shuai , Ye Zeng , He Chi , Liu Ming-Liang , Huang Kang , Zhong Jian-Xin , Xu Feng-Yu , Li Qiang , Liu Yang , Wang Chunyou , Zhao Gang
Published: April 2023

Supplementary Table 1: Correlation between GLS-AS expression and clinical characteristics of patient with pancreatic cancer.