bluuebunny/crossref_metadata_2025 huggingface dataset:
Suppl Fig. 1 from Inhibiting Mitochondrial DNA Ligase IIIα Activates Caspase 1–Dependent Apoptosis in Cancer Cells
Authors: Sallmyr Annahita , Matsumoto Yoshihiro , Roginskaya Vera , Van Houten Bennett , Tomkinson Alan E.
Published: April 2023

Characterization of HeLa Rho minus cells. Panel A. Amplification of specific fragments and nuclear and mitochondrial DNA using the polymerase chain reaction showing the absence of mitochondrial DNA in HeLa Rho minus cells. Panel B. Immunofluorescence of HeLa and HeLa Rho minus stained with Mitotracker Red. Panel C. Effect of L67 on the proliferation of HeLa and HeLa Rho minus cells grown in media containing pyruvate and uridine.
Supplementary Figures S1-S15 from High-Order Drug Combinations Are Required to Effectively Kill Colorectal Cancer Cells
Authors: Horn Thomas , Ferretti Stéphane , Ebel Nicolas , Tam Angela , Ho Samuel , Harbinski Fred , Farsidjani Ali , Zubrowski Matthew , Sellers William R. , Schlegel Robert , Porter Dale , Morris Erick , Wuerthner Jens , Jeay Sébastien , Greshock Joel , Halilovic Ensar , Garraway Levi A. , Caponigro Giordano , Lehár Joseph
Published: April 2023

From images to synergies (S1); Reproducibility of data from two screens (S2); Single agent responses and selectivity (S3); Screen-wide comparison of Caspase 3/7 activation and growth inhibition (S4); Heatmaps of growth inhibition and Capase 3/7 activation, and examples of broadly synergistic combinations targeting RAS/MAPK and/or PI3K/AKT pathways (S5); Combinations targeting RAS/MAPK and PI3K/AKT pathways at different nodes show similar efficacies (S6); Combinations involving RTKs (S7); Heatmaps of growth inhibition and Capase 3/7 activation, and examples of combinations targeting RAS/MAPK or PI3K/AKT pathways and other cellular processes (S8); Synergies of triple combination increase with synergies of underlying drug pairs (S9); Heatmap of synergies, growth inhibition, and Caspase 3/7 activation for triple combinations after hierarchical clustering (S10); Triple combinations targeting RAS/MAPK and PI3K/AKT pathways (S11); Triple combinations targeting RAS/MAPK and/or PI3K/AKT pathways and other cellular processes (S12); Combination targeting MDM2 and MEK in p53 wild-type models (S13); Sequential treatment of p53 wild-type lines with triple combination targeting MDM2, MEK, and BCL-2/-XL (S14); High order combinations to kill 'robust' cell lines (S15).
Supplementary Figure S4 from HER2 and EGFR Overexpression Support Metastatic Progression of Prostate Cancer to Bone
Authors: Day Kathleen C. , Hiles Guadalupe Lorenzatti , Kozminsky Molly , Dawsey Scott J. , Paul Alyssa , Broses Luke J. , Shah Rajal , Kunja Lakshmi P. , Hall Christopher , Palanisamy Nallasivam , Daignault-Newton Stephanie , El-Sawy Layla , Wilson Steven James , Chou Andrew , Ignatoski Kathleen Woods , Keller Evan , Thomas Dafydd , Nagrath Sunitha , Morgan Todd , Day Mark L.
Published: April 2023

Workflow schematic for microfluidic CTC isolation.
Supplementary materials from Pancreatic Cancer Risk Associated with Prediagnostic Plasma Levels of Leptin and Leptin Receptor Genetic Polymorphisms
Authors: Babic Ana , Bao Ying , Qian Zhi Rong , Yuan Chen , Giovannucci Edward L. , Aschard Hugues , Kraft Peter , Amundadottir Laufey T. , Stolzenberg-Solomon Rachael , Morales-Oyarvide Vicente , Ng Kimmie , Stampfer Meir J. , Ogino Shuji , Buring Julie E. , Sesso Howard D. , Gaziano John Michael , Rifai Nader , Pollak Michael N. , Anderson Matthew L. , Cochrane Barbara B. , Luo Juhua , Manson JoAnn E. , Fuchs Charles S. , Wolpin Brian M.
Published: April 2023

Supplementary Table 1. Number of pancreatic cancer cases by cohort with available plasma leptin levels and genotyped SNPs at LEPR Supplementary Table 2. Characteristics of controls from five prospective cohorts Supplementary Table 3. Partial Spearman correlation coefficients between plasma leptin and covariates among controls Supplementary Table 4. Odds ratios (ORs) and 95% confidence intervals (CIs) for pancreatic cancer according to quintiles of plasma leptin in sensitivity analyses excluding diabetics and short time intervals from blood collection to cancer diagnosis Supplementary Table 5. Multivariate-adjusted ORs (95% CI) for pancreatic cancer by plasma leptin, among subgroups* Supplementary Table 6. Association between SNPs at the LEPR gene and risk of pancreatic cancer among men Supplementary Table 7. Genomic and functional support for rs10493380 and correlated (r2 {greater than or equal to} 0.6) surrogate variants in HaploReg and Regulome DB Supplementary Table 8. Association between single nucleotide polymorphisms at the LEPR gene and plasma leptin among controls Supplementary Figure 1. Association results, recombination hotspots and linkage disequilibrium for single nucleotide polymorphisms at the LEPR gene region among women.
Supplementary Figure S2 from HER2 and EGFR Overexpression Support Metastatic Progression of Prostate Cancer to Bone
Authors: Day Kathleen C. , Hiles Guadalupe Lorenzatti , Kozminsky Molly , Dawsey Scott J. , Paul Alyssa , Broses Luke J. , Shah Rajal , Kunja Lakshmi P. , Hall Christopher , Palanisamy Nallasivam , Daignault-Newton Stephanie , El-Sawy Layla , Wilson Steven James , Chou Andrew , Ignatoski Kathleen Woods , Keller Evan , Thomas Dafydd , Nagrath Sunitha , Morgan Todd , Day Mark L.
Published: April 2023

Fluorescence in situ hybridization analysis of ERBB2.
Supplementary Materials and Methods from Preclinical Evidence That 3′-Deoxy-3′-[18F]Fluorothymidine PET Can Visualize Recovery of Hematopoiesis after Gemcitabine Chemotherapy
Authors: Schelhaas Sonja , Held Annelena , Bäumer Nicole , Viel Thomas , Hermann Sven , Müller-Tidow Carsten , Jacobs Andreas H.
Published: April 2023

Description of additional methods used for acquisition of the supplementary data.
Supplementary Figure S3 from Preclinical Evidence That 3′-Deoxy-3′-[18F]Fluorothymidine PET Can Visualize Recovery of Hematopoiesis after Gemcitabine Chemotherapy
Authors: Schelhaas Sonja , Held Annelena , Bäumer Nicole , Viel Thomas , Hermann Sven , Müller-Tidow Carsten , Jacobs Andreas H.
Published: April 2023

[18F]FLT accumulation in hematopoietic organs could also be noted after paclitaxel therapy.
Supplementary Methods and References from The BRCA1-Δ11q Alternative Splice Isoform Bypasses Germline Mutations and Promotes Therapeutic Resistance to PARP Inhibition and Cisplatin
Authors: Wang Yifan , Bernhardy Andrea J. , Cruz Cristina , Krais John J. , Nacson Joseph , Nicolas Emmanuelle , Peri Suraj , van der Gulden Hanneke , van der Heijden Ingrid , O'Brien Shane W. , Zhang Yong , Harrell Maribel I. , Johnson Shawn F. , Candido Dos Reis Francisco J. , Pharoah Paul D. P. , Karlan Beth , Gourley Charlie , Lambrechts Diether , Chenevix-Trench Georgia , Olsson Håkan , Benitez Javier J. , Greene Mark H. , Gore Martin , Nussbaum Robert , Sadetzki Siegal , Gayther Simon A. , Kjaer Susanne K. , D'Andrea Alan D. , Shapiro Geoffrey I. , Wiest David L. , Connolly Denise C. , Daly Mary B. , Swisher Elizabeth M. , Bouwman Peter , Jonkers Jos , Balmaña Judith , Serra Violeta , Johnson Neil
Published: April 2023

Description of additional methods and procedures used in the study. Also includes Supplementary References.
Supplementary Figure S6 from The BRCA1-Δ11q Alternative Splice Isoform Bypasses Germline Mutations and Promotes Therapeutic Resistance to PARP Inhibition and Cisplatin
Authors: Wang Yifan , Bernhardy Andrea J. , Cruz Cristina , Krais John J. , Nacson Joseph , Nicolas Emmanuelle , Peri Suraj , van der Gulden Hanneke , van der Heijden Ingrid , O'Brien Shane W. , Zhang Yong , Harrell Maribel I. , Johnson Shawn F. , Candido Dos Reis Francisco J. , Pharoah Paul D. P. , Karlan Beth , Gourley Charlie , Lambrechts Diether , Chenevix-Trench Georgia , Olsson Håkan , Benitez Javier J. , Greene Mark H. , Gore Martin , Nussbaum Robert , Sadetzki Siegal , Gayther Simon A. , Kjaer Susanne K. , D'Andrea Alan D. , Shapiro Geoffrey I. , Wiest David L. , Connolly Denise C. , Daly Mary B. , Swisher Elizabeth M. , Bouwman Peter , Jonkers Jos , Balmaña Judith , Serra Violeta , Johnson Neil
Published: April 2023

FOX2 binding motifs are proximal to the BRCA1-11q cryptic slice site.
Table S2 from Beta-Blocker Drug Use and Survival among Patients with Pancreatic Adenocarcinoma
Authors: Udumyan Ruzan , Montgomery Scott , Fang Fang , Almroth Henrik , Valdimarsdottir Unnur , Ekbom Anders , Smedby Karin E. , Fall Katja
Published: April 2023

Lists other medications used by the study cohort and associated ATC codes.
Tables S1-S6 from Engineering and Functional Characterization of Fusion Genes Identifies Novel Oncogenic Drivers of Cancer
Authors: Lu Hengyu , Villafane Nicole , Dogruluk Turgut , Grzeskowiak Caitlin L. , Kong Kathleen , Tsang Yiu Huen , Zagorodna Oksana , Pantazi Angeliki , Yang Lixing , Neill Nicholas J. , Kim Young Won , Creighton Chad J. , Verhaak Roel G. , Mills Gordon B. , Park Peter J. , Kucherlapati Raju , Scott Kenneth L.
Published: April 2023

Fusion genes and their sequences from TCGA (S1-2); Primers for fusion PCR (S3); BRAF mutants and mutagenesis primers (S4); (q)PCR primers for expression detection (S5); Fusion gene construction efficiency and success rate (S6)
Figure S4 from p62/SQSTM1 Cooperates with Hyperactive mTORC1 to Regulate Glutathione Production, Maintain Mitochondrial Integrity, and Promote Tumorigenesis
Authors: Lam Hilaire C. , Baglini Christian V. , Lope Alicia Llorente , Parkhitko Andrey A. , Liu Heng-Jia , Alesi Nicola , Malinowska Izabela A. , Ebrahimi-Fakhari Darius , Saffari Afshin , Yu Jane J. , Pereira Ana , Khabibullin Damir , Ogorek Barbara , Nijmeh Julie , Kavanagh Taylor , Handen Adam , Chan Stephen Y. , Asara John M. , Oldham William M. , Diaz-Meco Maria T. , Moscat Jorge , Sahin Mustafa , Priolo Carmen , Henske Elizabeth P.
Published: April 2023

Regulation of Nrf2 and NFkB by p62 in Tsc2-null cells and tumors
Figure S3 from p62/SQSTM1 Cooperates with Hyperactive mTORC1 to Regulate Glutathione Production, Maintain Mitochondrial Integrity, and Promote Tumorigenesis
Authors: Lam Hilaire C. , Baglini Christian V. , Lope Alicia Llorente , Parkhitko Andrey A. , Liu Heng-Jia , Alesi Nicola , Malinowska Izabela A. , Ebrahimi-Fakhari Darius , Saffari Afshin , Yu Jane J. , Pereira Ana , Khabibullin Damir , Ogorek Barbara , Nijmeh Julie , Kavanagh Taylor , Handen Adam , Chan Stephen Y. , Asara John M. , Oldham William M. , Diaz-Meco Maria T. , Moscat Jorge , Sahin Mustafa , Priolo Carmen , Henske Elizabeth P.
Published: April 2023

H2DCFDA controls
Figure S2 from p62/SQSTM1 Cooperates with Hyperactive mTORC1 to Regulate Glutathione Production, Maintain Mitochondrial Integrity, and Promote Tumorigenesis
Authors: Lam Hilaire C. , Baglini Christian V. , Lope Alicia Llorente , Parkhitko Andrey A. , Liu Heng-Jia , Alesi Nicola , Malinowska Izabela A. , Ebrahimi-Fakhari Darius , Saffari Afshin , Yu Jane J. , Pereira Ana , Khabibullin Damir , Ogorek Barbara , Nijmeh Julie , Kavanagh Taylor , Handen Adam , Chan Stephen Y. , Asara John M. , Oldham William M. , Diaz-Meco Maria T. , Moscat Jorge , Sahin Mustafa , Priolo Carmen , Henske Elizabeth P.
Published: April 2023

Sod2 overexpression reduces the percentage of MitoSOX positive cells assessed by flow cytometry
Supplementary Figure Legends from IDH2 Mutations Define a Unique Subtype of Breast Cancer with Altered Nuclear Polarity
Authors: Chiang Sarah , Weigelt Britta , Wen Huei-Chi , Pareja Fresia , Raghavendra Ashwini , Martelotto Luciano G. , Burke Kathleen A. , Basili Thais , Li Anqi , Geyer Felipe C. , Piscuoglio Salvatore , Ng Charlotte K.Y. , Jungbluth Achim A. , Balss Jörg , Pusch Stefan , Baker Gabrielle M. , Cole Kimberly S. , von Deimling Andreas , Batten Julie M. , Marotti Jonathan D. , Soh Hwei-Choo , McCalip Benjamin L. , Serrano Jonathan , Lim Raymond S. , Siziopikou Kalliopi P. , Lu Song , Liu Xiaolong , Hammour Tarek , Brogi Edi , Snuderl Matija , Iafrate A. John , Reis-Filho Jorge S. , Schnitt Stuart J.
Published: April 2023

Legends for Supplementary Figures S1-S5
Supplementary Figures from Differential Expression of VEGFA Isoforms Regulates Metastasis and Response to Anti-VEGFA Therapy in Sarcoma
Authors: English William R. , Lunt Sarah Jane , Fisher Matthew , Lefley Diane V. , Dhingra Mohit , Lee Yu-Chin , Bingham Karina , Hurrell Jack E. , Lyons Scott K. , Kanthou Chryso , Tozer Gillian M.
Published: April 2023

The supplementary data file contains the following data and figures: Fig S1- CD31 and CD34 co-localize to the vasculature in fs120-LS and fs188-LS subcutaneous tumors. Fig S2 - VEGFR1 activity has no effect on tumor growth or vascular density of subcutaneous fs120-LS or fs188-LS tumors. Fig S3 - fs120-LS and fs188-LS cells metastasize to the lung early during subcutaneous tumor growth. Fig S4 - fs120-LS cells express higher levels of PlGF2 than fs188-LS cells in vitro, with no difference in levels of PLGF2 detected in subcutaneous tumors. Fig S5 - Expression of laminin and collagen-I in lysates of fs120-LS and fs188-LS subcutaneous tumors. Fig S6 - Quantification of single cell migration using live video microscopy. Fig S7 - Localization of CD11b cells with respect to intravenously injected fibrosarcoma cells within the lung. Fig S8 - Summary of results showing key differences between fibrosarcomas expressing VEGF120 and VEGF188 and the effects of B20-4.1.1 and stromal VEGFR1 activity. Fig S9 - Effect of cediranib on survival of fs120-LS cells in the lung 48 h after iv injection.
Supplemental Materials and Methods from INT6/EIF3E Controls the RNF8-Dependent Ubiquitylation Pathway and Facilitates DNA Double-Strand Break Repair in Human Cells
Authors: Morris Christelle , Tomimatsu Nozomi , Burma Sandeep , Jalinot Pierre
Published: April 2023

Supplemental Materials and Methods: Additional information on siRNAs and antibodies used in this study, along with procedures for cell cycle and images analyses.
Figure S7 from INT6/EIF3E Controls the RNF8-Dependent Ubiquitylation Pathway and Facilitates DNA Double-Strand Break Repair in Human Cells
Authors: Morris Christelle , Tomimatsu Nozomi , Burma Sandeep , Jalinot Pierre
Published: April 2023

S7 shows the effect of INT6 silencing on RNF168 recruitment to DNA damage foci
Figure S4 from INT6/EIF3E Controls the RNF8-Dependent Ubiquitylation Pathway and Facilitates DNA Double-Strand Break Repair in Human Cells
Authors: Morris Christelle , Tomimatsu Nozomi , Burma Sandeep , Jalinot Pierre
Published: April 2023

S4 corresponds to a rescue experiment showing that expression of INT6 from a siRNA-resistant expression vector restores formation of RAD51 foci
Figure S3 from INT6/EIF3E Controls the RNF8-Dependent Ubiquitylation Pathway and Facilitates DNA Double-Strand Break Repair in Human Cells
Authors: Morris Christelle , Tomimatsu Nozomi , Burma Sandeep , Jalinot Pierre
Published: April 2023

S3 shows the defect of RAD51 recruitment to DNA damage foci 3h after irradiation using two different anti-INT6 siRNAs
Supplementary Figures and Tables from Imaging of Esophageal Lymph Node Metastases by Desorption Electrospray Ionization Mass Spectrometry
Authors: Abbassi-Ghadi Nima , Golf Ottmar , Kumar Sacheen , Antonowicz Stefan , McKenzie James S. , Huang Juzheng , Strittmatter Nicole , Kudo Hiromi , Jones Emrys A. , Veselkov Kirill , Goldin Robert , Takats Zoltan , Hanna George B.
Published: April 2023

Table S1: Glycerophospholipid relative abundances compared between lymph node metastases (LNM) and primary tumor by means of ANOVA. Table S2: Glycerophospholipid relative abundances compared between malignant tissue (lymph node metastases and primary tumor) and non-malignant lymph node tissue types by means of ANOVA. Table S3: Contingency table comparing immunohistochemistry reference test and mass spectrometry image tissue classification prediction images. Table S4: Contingency Table comparing immunohistochemistry reference test and mass spectrometry image tissue classification prediction images (TCPI) - with re-classification of positive capsular identification on TCPI as normal lymph nodes. Figure S1: DESI-MS of normal lymph node with carbon deposits from smoking. Figure S2: DESI-MS of lymph node with macro-metastases. Figure S3: Internal cross validation - lipidomic profile of lymph node metastases versus lymph node metastases response to chemotherapy. Figure S4: Mass spectrometry image tissue classification prediction images compared to matched AE1/AE3 immunohistochemistry images of 90 lymph node (LN) data set. Figure S5: DESI-MS of mouse brain cryo-section with a spatial resolution of 20μm per pixel. Figure S6: DESI-MS of mouse brain cryo-section with a spatial resolution of 75μm and 30 scans per second. Supplementary Figure S7: Image alignment of histology image and Mass Spectrometry Image (MSI) for tissue specific pixel labeling. Supplementary Figure S8: Overview for the creation of a composite database of tissue specific mass spectra. Tissue specific mass spectra extracted from representative pixels of Mass Spectrometry Images from individual samples are used to populate combined data units of that tissue type with further sub-classification of its sample origin.
Supporting Infortmation from Monitoring Tumor Response to Antivascular Therapy Using Non-Contrast Intravoxel Incoherent Motion Diffusion-Weighted MRI
Authors: Shi Changzheng , Liu Dexiang , Xiao Zeyu , Zhang Dong , Liu Guanfu , Liu Guanshu , Chen Hanwei , Luo Liangping
Published: April 2023

The method and results of data analyses of MRI measurements in the tumor rim and tumor core. Figure S1 is the Illustration of manual segmentation method used in the study. Figure S2 shows the longitudinal changes of the true diffusion coefficient D in different parts of the tumors. Figure S3 shows the longitudinal changes of Ktrans measured in DCE MRI in different parts of the tumors. Figure S4 shows the longitudinal changes of pseudo-diffusion coefficient D* measured by IVIM in different parts of the tumors and their correlation with Ktrans . Figure S5 shows the longitudinal changes of perfusion fraction f measured by IVIM in in different parts of the tumors and their correlation with Ktrans . Figure S6 shows the longitudinal changes of fD* by IVIM in in different parts of the tumors and their correlation with Ktrans . Figure S7 shows the comparison of the correlation between early IVIM measures (day2) and later tumor volume change (day8) in different parts of the tumor.
Table S2: Correlation between EMP markers and AE signaling in MSKCC and TCGA datasets from Disrupting Androgen Receptor Signaling Induces Snail-Mediated Epithelial–Mesenchymal Plasticity in Prostate Cancer
Authors: Miao Lu , Yang Lin , Li Rui , Rodrigues Daniel N. , Crespo Mateus , Hsieh Jer-Tsong , Tilley Wayne D. , de Bono Johann , Selth Luke A. , Raj Ganesh V.
Published: April 2023

Correlation between EMP markers and AE signaling in MSKCC and TCGA datasets
Supplemental Table 1 from Transcription Factor ZBP-89 Drives a Feedforward Loop of β-Catenin Expression in Colorectal Cancer
Authors: Essien Bryan E. , Sundaresan Sinju , Ocadiz-Ruiz Ramon , Chavis Aaron , Tsao Amy C. , Tessier Arthur J. , Hayes Michael M. , Photenhauer Amanda , Saqui-Salces Milena , Kang Anthony J. , Shah Yatrik M. , Győrffy Balazs , Merchant Juanita L.
Published: April 2023

Percentage of APC, CTNNB1 and ZNF148 mutations in CRC (TCGA)
Figure S1: Effect of treatment protocol on AR gene expression in C4-2 and LAPC4 cells from Disrupting Androgen Receptor Signaling Induces Snail-Mediated Epithelial–Mesenchymal Plasticity in Prostate Cancer
Authors: Miao Lu , Yang Lin , Li Rui , Rodrigues Daniel N. , Crespo Mateus , Hsieh Jer-Tsong , Tilley Wayne D. , de Bono Johann , Selth Luke A. , Raj Ganesh V.
Published: April 2023

C4-2 and LAPC4 cells were subjected to treatment protocol (Fig.1A); the canonical AR target genes including KLK3 and NKX3.1 were assessed by real-time PCR analysis. Data from three independent
Supplementary information from IL4 Primes the Dynamics of Breast Cancer Progression via DUSP4 Inhibition
Authors: Gaggianesi Miriam , Turdo Alice , Chinnici Aurora , Lipari Elisa , Apuzzo Tiziana , Benfante Antonina , Sperduti Isabella , Di Franco Simone , Meraviglia Serena , Lo Presti Elena , Dieli Francesco , Caputo Valentina , Militello Gabriella , Vieni Salvatore , Stassi Giorgio , Todaro Matilde
Published: April 2023

Supplementary Material and Methods and Supplementary Figure Legends
Supplemental Figure 4 from IKBKE Is a Substrate of EGFR and a Therapeutic Target in Non–Small Cell Lung Cancer with Activating Mutations of EGFR
Authors: Challa Sridevi , Guo Jian-Ping , Ding Xiaowen , Xu Cheng-Xiong , Li Yajuan , Kim Donghwa , Smith Matthew A. , Cress Douglas W. , Coppola Domenico , Haura Eric B. , Cheng Jin Q.
Published: April 2023

EGFR mutant NSCLCs express high levels of pIKBKE-Y153.
Supplemental Figure 1 from IKBKE Is a Substrate of EGFR and a Therapeutic Target in Non–Small Cell Lung Cancer with Activating Mutations of EGFR
Authors: Challa Sridevi , Guo Jian-Ping , Ding Xiaowen , Xu Cheng-Xiong , Li Yajuan , Kim Donghwa , Smith Matthew A. , Cress Douglas W. , Coppola Domenico , Haura Eric B. , Cheng Jin Q.
Published: April 2023

Association of IKBKE level with overall survival
Supplementary Table S2 from Targeting of PYK2 Synergizes with EGFR Antagonists in Basal-like TNBC and Circumvents HER3-Associated Resistance via the NEDD4–NDRG1 Axis
Authors: Verma Nandini , Müller Anna-Katharina , Kothari Charu , Panayotopoulou Effrosini , Kedan Amir , Selitrennik Michael , Mills Gordon B. , Nguyen Lan K. , Shin Sungyoung , Karn Thomas , Holtrich Uwe , Lev Sima
Published: April 2023

Supplementary Table 2. Web links to affymetrix array data
Supplementary Figure S4 from Targeting of PYK2 Synergizes with EGFR Antagonists in Basal-like TNBC and Circumvents HER3-Associated Resistance via the NEDD4–NDRG1 Axis
Authors: Verma Nandini , Müller Anna-Katharina , Kothari Charu , Panayotopoulou Effrosini , Kedan Amir , Selitrennik Michael , Mills Gordon B. , Nguyen Lan K. , Shin Sungyoung , Karn Thomas , Holtrich Uwe , Lev Sima
Published: April 2023

Supplementary Figure 4. PYK2 interacts with HER3 in a kinase dependent manner and suppresses NDRG1-induced HER3 proteasomal degradation.
Supplementary Materials and Methods from A Hyaluronidase-Responsive Nanoparticle-Based Drug Delivery System for Targeting Colon Cancer Cells
Authors: Zhang Mingzhen , Xu Changlong , Wen Liuqing , Han Moon Kwon , Xiao Bo , Zhou Jun , Zhang Yuchen , Zhang Zhan , Viennois Emilie , Merlin Didier
Published: April 2023

Supplementary Materials and Methods
Supplementary Figure S3 from Targeting of PYK2 Synergizes with EGFR Antagonists in Basal-like TNBC and Circumvents HER3-Associated Resistance via the NEDD4–NDRG1 Axis
Authors: Verma Nandini , Müller Anna-Katharina , Kothari Charu , Panayotopoulou Effrosini , Kedan Amir , Selitrennik Michael , Mills Gordon B. , Nguyen Lan K. , Shin Sungyoung , Karn Thomas , Holtrich Uwe , Lev Sima
Published: April 2023

Supplementary Figure 3. Combined inhibition of PYK2/FAK and EGFR enhances pro-apoptotic signals and reduces pro-survival signals.
Supplementary Figure 6 from αvβ6 Integrin Promotes Castrate-Resistant Prostate Cancer through JNK1-Mediated Activation of Androgen Receptor
Authors: Lu Huimin , Wang Tao , Li Jing , Fedele Carmine , Liu Qin , Zhang Jianzhong , Jiang Zhong , Jain Dhanpat , Iozzo Renato V. , Violette Shelia M. , Weinreb Paul H. , Davis Roger J. , Gioeli Daniel , FitzGerald Thomas J. , Altieri Dario C. , Languino Lucia R.
Published: April 2023

ERK1 and p38 are not activated by alphavbeta6 integrin upon ligand binding.
Supplementary Methods, Tables 1-8, Figures 1-5 from Transcriptome Analysis of Triple-Negative Breast Cancer Reveals an Integrated mRNA-lncRNA Signature with Predictive and Prognostic Value
Authors: Jiang Yi-Zhou , Liu Yi-Rong , Xu Xiao-En , Jin Xi , Hu Xin , Yu Ke-Da , Shao Zhi-Ming
Published: April 2023

Supplementary Methods. Supplementary Table S1. Selected mRNAs and lncRNAs by comparing the expression profiles in 33 paired tumor and adjacent normal tissues of triple-negative breast cancer. Supplementary Table S2. Primers for the real-time RT-PCR analysis of mRNAs and lncRNAs included in the signature. Supplementary Table S3. Cutoff value for each RNA. Supplementary Table S4. Univariate Cox proportional hazards regression analysis of the integrated RNA signature and clinicopathological characteristics with recurrence-free survival. Supplementary Table S5. Clinicopathologic characteristics of patients with triple-negative breast cancer who received neoadjuvant chemotherapy. Supplementary Table S6. Multivariate logistic regression analysis of the integrated RNA signature and clinicopathological characteristics with pathological complete remission. Supplementary Table S7. Top ten mRNAs co-expressed with lncRNAs AK124454 and HIF1A-AS2. Supplementary Table S8. Top ten gene-ontology terms and pathways in which the co-expressed mRNAs involved. Supplementary Figure S1. Flowchart of RNA filtration. Supplementary Figure S2. Flowchart of study design, patient selection and analytical strategy. Supplementary Figure S3. Hierarchical clustering of 33 paired tumor and adjacent normal breast tissues with the 5 differentially expressed RNAs using Euclidean distance and average linkage clustering. Supplementary Figure S4. Validation of the expression of each mRNA/lncRNA incorporated in the integrated signature in the 33 paired tumor and adjacent normal tissues from the training set using quantitative real-time polymerase chain reaction (qRT-PCR). Supplementary Figure S5. Predictive values of taxane benefit using the integrated signature.
Supplementary Figure 2 from αvβ6 Integrin Promotes Castrate-Resistant Prostate Cancer through JNK1-Mediated Activation of Androgen Receptor
Authors: Lu Huimin , Wang Tao , Li Jing , Fedele Carmine , Liu Qin , Zhang Jianzhong , Jiang Zhong , Jain Dhanpat , Iozzo Renato V. , Violette Shelia M. , Weinreb Paul H. , Davis Roger J. , Gioeli Daniel , FitzGerald Thomas J. , Altieri Dario C. , Languino Lucia R.
Published: April 2023

alphavbeta6 integrin promotes prostate cancer growth in castrated athymic nu/nu mice.
Supplemental Materials and Methods from Efficacy of Cotargeting Angiopoietin-2 and the VEGF Pathway in the Adjuvant Postsurgical Setting for Early Breast, Colorectal, and Renal Cancers
Authors: Wu Florence T.H. , Man Shan , Xu Ping , Chow Annabelle , Paez-Ribes Marta , Lee Christina R. , Pirie-Shepherd Steven R. , Emmenegger Urban , Kerbel Robert S.
Published: April 2023

Supplemental Materials and Methods
Supplemental Figures and Tables from Efficacy of Cotargeting Angiopoietin-2 and the VEGF Pathway in the Adjuvant Postsurgical Setting for Early Breast, Colorectal, and Renal Cancers
Authors: Wu Florence T.H. , Man Shan , Xu Ping , Chow Annabelle , Paez-Ribes Marta , Lee Christina R. , Pirie-Shepherd Steven R. , Emmenegger Urban , Kerbel Robert S.
Published: April 2023

Supplemental Figure S1. Primary LM2-4luc16 breast tumors treated with CVX-2000, vehicle only, sunitinib, CVX-060, or sunitinib plus CVX-060. Supplemental Figure S2. Direct inhibitory effects of sunitinib and regorafenib on endothelial Tie2 vs. VEGFR2 tyrosine kinases. Supplemental Figure S3. Bioluminescent images from the LM2-4luc16 breast cancer adjuvant therapy experiments. Supplemental Figure S4. Primary orthotopic HCT116luc or HT29luc caecal tumors and HCT116luc-derived experimental liver metastases treated with regorafenib, CVX-060, or their combination. Supplemental Figure S5. Adjuvant regorafenib vs. CVX-060 therapies after resection of HCT116luc primary orthotopic caecal tumors. Supplemental Figure S6. Adjuvant regorafenib vs. CVX-060 therapies after resection of HT29luc primary orthotopic caecal tumors. Supplemental Figure S7. Bioluminescent images from the unresected RENCAluc metastatic renal cancer experiment. Supplemental Figure S8. Bioluminescent images from the resected RENCAluc renal cancer adjuvant therapy experiment. Supplemental Table S1. Randomized Phase III Clinical Trials of VEGF Pathway Inhibitors as Adjuvant (Postsurgical) Therapies for Resectable Cancers. Supplemental Table S2. Phase II/III Clinical Trials of Trebananib (AMG386, anti-Ang2/Ang1 peptibody) in Advanced or Metastatic Cancers. Supplemental Table S3. Relative inhibition of various kinases by pazopanib,sorafemib, sunitinib, vandetanib - data from the published literature. Supplemental Table S4. Relative binding affinity for various protein kinases estimated for several antiangiogenic tyrosine kinase inhibitors - data from the published literature. Supplemental Methods. Supplemental References.
Supplementary Tables from Assessment of Breast Cancer Risk Factors Reveals Subtype Heterogeneity
Authors: Holm Johanna , Eriksson Louise , Ploner Alexander , Eriksson Mikael , Rantalainen Mattias , Li Jingmei , Hall Per , Czene Kamila
Published: April 2023

Online-only supplementary tables and figures: 1. Supplementary Table 1. Cross-validated Confusion matrix for true vs. predicted subtypes in the subset of data with PAM50 subtypes available. 2. Supplementary Table 2: Case-only analysis with Luminal A as reference group: Genetic background risk. 3. Supplementary Table 3: Case-only analysis with Luminal A as reference group: Reproductive risk factors. 4. Supplementary Table 4: Case-only analysis with Luminal A as reference group: Bodyshape at age 18, Ever hormone replacement therapy (HRT) use, age at menarche, mammographic density (MD), benign breast disease (BBD). 5. Supplementary Table 5: Risk of breast cancer overall and by subtype as defined by the St Gallen IHC proxy: Genetic background risk. 6. Supplementary Table 6: Risk of breast cancer overall and by subtype as defined by the St Gallen IHC proxy: Reproductive risk factors. 7. Supplementary Table 7: Risk for breast cancer overall and by subtype as defined by the St Gallen IHC proxy: Bodyshape at age 18, Ever hormone replacement therapy (HRT) use, age at menarche, mammographic density (MD), benign breast disease (BBD).
Supplemental figures and legends from Antibody–Drug Conjugates Bearing Pyrrolobenzodiazepine or Tubulysin Payloads Are Immunomodulatory and Synergize with Multiple Immunotherapies
Authors: Rios-Doria Jonathan , Harper Jay , Rothstein Raymond , Wetzel Leslie , Chesebrough Jon , Marrero Allison , Chen Cui , Strout Patrick , Mulgrew Kathy , McGlinchey Kelly , Fleming Ryan , Bezabeh Binyam , Meekin John , Stewart David , Kennedy Maureen , Martin Philip , Buchanan Andrew , Dimasi Nazzareno , Michelotti Emil , Hollingsworth Robert
Published: April 2023

Figure S1. Expression of tumor-associated antigens in mouse tumor cell lines; Table S1. Number of complete responses in CT26 tumor-bearing mice that were treated with EphA2-Tub or EphA2-PBD; Figure S2. Activity of EphA2-Tub and EphA2-PBD in the Renca tumor model; Fig. S3. Control IgG-ADCs are minimally active in CT26, MCA205, 4T1, and RENCA tumor models, demonstrating target specificity for EphA2-ADC; Figure S4. CD8+ T cells are important for the efficacy of ADCs in the CT26 model; Table S2. Summary of results from combining ADCs with checkpoint inhibitors or TNFR agonists; Figure S5. Blood lymphocyte count of non-tumor bearing BALB/c and C57BL/6 mice following dosing with EphA2-Tub or EphA2-PBD; Figure S6. Combination of EphA2-ADCs with anti-PD1 or PD-L1; Figure S7. Combination of EphA2-ADCs with GITRL FP or OX40L FP; Figure S8. Activity of ADCs in the MCA205 model; Figure S9. Antitumor activity studies in the Renca model; Figure S10. Normalized CD45+ cells in the Renca model; Fig. S11. Detection of EphA2 in syngeneic mouse models via immunohistochemistry; Figure S12. Immunophenotyping of myeloid cells in the Renca model
Supplementary Table 1 from Bap1 Is a Bona Fide Tumor Suppressor: Genetic Evidence from Mouse Models Carrying Heterozygous Germline Bap1 Mutations
Authors: Kadariya Yuwaraj , Cheung Mitchell , Xu Jinfei , Pei Jianming , Sementino Eleonora , Menges Craig W. , Cai Kathy Q. , Rauscher Frank J. , Klein-Szanto Andres J. , Testa Joseph R.
Published: April 2023

Spontaneous malignant tumors identified in Bap1-mutant and Bap1+/+ (WT) mice
Supplemental Figures and Tables from Cardiolipins Are Biomarkers of Mitochondria-Rich Thyroid Oncocytic Tumors
Authors: Zhang Jialing , Yu Wendong , Ryu Seung Woo , Lin John , Buentello Gerardo , Tibshirani Robert , Suliburk James , Eberlin Livia S.
Published: April 2023

This supplemental file contains data that supports the claims and results described in the main manuscript. Figures include full mass spectra data acquired for the representative thyroid samples, examples of fragmentation patterns obtained for all the main molecular classes identified, mass spectra results obtained for confirmatory experiments using lipid standards, examples of 2D DESI-MS ion images and mass spectra for several additional samples, optical images of immunohistochemistry results, mass spectra results for isolated mitochondria experiments, and a table with detailed identification results for all molecules described in the main manuscript.
Supplementary Fig. S1 from Bap1 Is a Bona Fide Tumor Suppressor: Genetic Evidence from Mouse Models Carrying Heterozygous Germline Bap1 Mutations
Authors: Kadariya Yuwaraj , Cheung Mitchell , Xu Jinfei , Pei Jianming , Sementino Eleonora , Menges Craig W. , Cai Kathy Q. , Rauscher Frank J. , Klein-Szanto Andres J. , Testa Joseph R.
Published: April 2023

Spontaneous spindle cell malignant mesothelioma observed in a Bap1+/- knockout mouse; H&E and immunohistochemical characterization
Supplemental Figure Legends from Cardiolipins Are Biomarkers of Mitochondria-Rich Thyroid Oncocytic Tumors
Authors: Zhang Jialing , Yu Wendong , Ryu Seung Woo , Lin John , Buentello Gerardo , Tibshirani Robert , Suliburk James , Eberlin Livia S.
Published: April 2023

Figure legends
Supplementary Data and Methods from Expansion of Tumor-Infiltrating CD8+ T cells Expressing PD-1 Improves the Efficacy of Adoptive T-cell Therapy
Authors: Fernandez-Poma Sarita M. , Salas-Benito Diego , Lozano Teresa , Casares Noelia , Riezu-Boj Jose-Ignacio , Mancheño Uxua , Elizalde Edurne , Alignani Diego , Zubeldia Natalia , Otano Itziar , Conde Enrique , Sarobe Pablo , Lasarte Juan Jose , Hervas-Stubbs Sandra
Published: April 2023

Supplementary Figures: (Fig. S1) Multi-parametric flow cytometric analysis of tumor-infiltrating T lymphocyte subsets from freshly excised MC38 tumors; (Fig. S2) Expression of co-inhibitory and co-stimulatory molecules over the course of tumor progression; (Fig. S3) Tumor-reactivity of CD137+ and PD-1+ TILs, freshly after isolation from tumors and after in vitro expansion; (Fig. S4) Kinetic of expansion of different CD8 TIL subsets isolated from MC38 tumors; (Fig. S5) CDR3 spectratype analysis. Supplementary Tables: (Table S1) Number of CDR3 fragments which dominance hierarchy changed after TIL expansion; (Table S2) Number of TCR-Vbeta families that lose, preserve or acquire new dominant CDR3 fragments after TIL expansion. Supplemental Material and Methods: Spectratyping.
Table S5 from Tissue-Specific Signaling Networks Rewired by Major Somatic Mutations in Human Cancer Revealed by Proteome-Wide Discovery
Authors: Zhao Junfei , Cheng Feixiong , Zhao Zhongming
Published: April 2023

Results from pan-cancer ANOVA including the significance test of each interaction.
Table S2 from Tissue-Specific Signaling Networks Rewired by Major Somatic Mutations in Human Cancer Revealed by Proteome-Wide Discovery
Authors: Zhao Junfei , Cheng Feixiong , Zhao Zhongming
Published: April 2023

List of 693 significantly mutated genes (SMGs) in cancer from TCGA publications and several other publications.
Figure S2 from Regeneration of CD8αβ T Cells from T-cell–Derived iPSC Imparts Potent Tumor Antigen-Specific Cytotoxicity
Authors: Maeda Takuya , Nagano Seiji , Ichise Hiroshi , Kataoka Keisuke , Yamada Daisuke , Ogawa Seishi , Koseki Haruhiko , Kitawaki Toshio , Kadowaki Norimitsu , Takaori-Kondo Akifumi , Masuda Kyoko , Kawamoto Hiroshi
Published: April 2023

LMP2 specific T-iPSCs
Supplementary Tables from Widespread Use of Misidentified Cell Line KB (HeLa): Incorrect Attribution and Its Impact Revealed through Mining the Scientific Literature
Authors: Vaughan Liwen , Glänzel Wolfgang , Korch Christopher , Capes-Davis Amanda
Published: April 2023

Contains the following Supplementary material: Supplementary Table 1: Examples of KB Terminology Supplementary Table 2: "Correct" Dataset, n=57 Supplementary Table 3: "Incorrect" Dataset, n=574 Supplementary Table 4: Sample articles from "Incorrect" dataset, n=171 Supplementary Table 5: Comparing citation counts Supplementary Table 6: KB Use in Citing Articles Supplementary Table 7: Journal Impact Factors Supplementary Table 8: Journal Subject Areas
Supplemental Methods from Evaluation of Alternative In Vivo Drug Screening Methodology: A Single Mouse Analysis
Authors: Murphy Brendan , Yin Han , Maris John M. , Kolb E. Anders , Gorlick Richard , Reynolds C. Patrick , Kang Min H. , Keir Stephen T. , Kurmasheva Raushan T. , Dvorchik Igor , Wu Jianrong , Billups Catherine A. , Boateng Nana , Smith Malcolm A. , Lock Richard B. , Houghton Peter J.
Published: April 2023

Supplemental Methods
Article marked from SETD1B Activates iNOS Expression in Myeloid-Derived Suppressor Cells
Authors: Redd Priscilla S. , Ibrahim Mohammed L. , Klement John D. , Sharman Sarah K. , Paschall Amy V. , Yang Dafeng , Nayak-Kapoor Asha , Liu Kebin
Published: April 2023

marked manuscript for review only
Figure S5 from BET Inhibitors Suppress ALDH Activity by Targeting ALDH1A1 Super-Enhancer in Ovarian Cancer
Authors: Yokoyama Yuhki , Zhu Hengrui , Lee Jeong Heon , Kossenkov Andrew V. , Wu Sherry Y. , Wickramasinghe Jayamanna M. , Yin Xiangfan , Palozola Katherine C. , Gardini Alessandro , Showe Louise C. , Zaret Kenneth S. , Liu Qin , Speicher David , Conejo-Garcia Jose R. , Bradner James E. , Zhang Zhiguo , Sood Anil K. , Ordog Tamas , Bitler Benjamin G. , Zhang Rugang
Published: April 2023

ALDH1A1 is not a direct target of BRD4.
Supplementary Table S1 from PP2A Inhibitor PME-1 Drives Kinase Inhibitor Resistance in Glioma Cells
Authors: Kaur Amanpreet , Denisova Oxana V. , Qiao Xi , Jumppanen Mikael , Peuhu Emilia , Ahmed Shafiq U. , Raheem Olayinka , Haapasalo Hannu , Eriksson John , Chalmers Anthony J. , Laakkonen Pirjo , Westermarck Jukka
Published: April 2023

siRNA target sequences used in the study.
Supplementary Figure S2 from PP2A Inhibitor PME-1 Drives Kinase Inhibitor Resistance in Glioma Cells
Authors: Kaur Amanpreet , Denisova Oxana V. , Qiao Xi , Jumppanen Mikael , Peuhu Emilia , Ahmed Shafiq U. , Raheem Olayinka , Haapasalo Hannu , Eriksson John , Chalmers Anthony J. , Laakkonen Pirjo , Westermarck Jukka
Published: April 2023

Clinically relevant kinase inhibitors display synthetic lethality in PME-1 depleted glioma cells. Supplementary figure related to Figure 2.
Supplementary Figure S1 from PP2A Inhibitor PME-1 Drives Kinase Inhibitor Resistance in Glioma Cells
Authors: Kaur Amanpreet , Denisova Oxana V. , Qiao Xi , Jumppanen Mikael , Peuhu Emilia , Ahmed Shafiq U. , Raheem Olayinka , Haapasalo Hannu , Eriksson John , Chalmers Anthony J. , Laakkonen Pirjo , Westermarck Jukka
Published: April 2023

PME-1 depletion sensitizes GBM cells to multikinase inhibitor staurosporine. Supplementary figure related to Figure 1.
Supplementary Figures 1 through 11 from Phospholipase D1 Acts through Akt/TopBP1 and RB1 to Regulate the E2F1-Dependent Apoptotic Program in Cancer Cells
Authors: Kang Dong Woo , Lee Shin Wha , Hwang Won Chan , Lee Bo Hui , Choi Yong-Seok , Suh Young-Ah , Choi Kang-Yell , Min Do Sik
Published: April 2023

Supplementary Figure S1. PLD1 inactivation promotes apoptosis under serum deprived condition. Supplementary Figure S2. Scatter diagrams of gene expression microarray by depletion of PLD1. Supplementary Figure S3. PLD1 inactivation decreases RB1 expression in the tumor tissues from ApcMin/+ mice. Supplementary Figure S4. Loss of PLD1 decreases RB1 expression in the tumor tissues from AOM/DSS mice. Supplementary Figure S5. Epigenetic regulation of RB1 promoter is not affected by depletion and inhibition of PLD1. Supplementary Figure S6. Pre-miR-4465 and -192 decrease RB1 mRNA level. Supplementary Figure S7. IEC-specific PLD1 overexpression in ApcMin/+ mice increases the levels of RB1 and p-Akt. Supplementary Figure S8. PLD1 inhibition decreases Akt phosphorylation in AOM/DSS mice. Supplementary Figure S9. Effect of depletion of p27KIP1, Bim, or NOXA on E2F1-induced apoptosis. Supplementary Figure S10. Effect of RB1, Akt, and anti-miR-4496/-192 on PLD1 inhibition-repressed beta-catenin and c-Myc expression. Supplementary Figure S11. Multivariate survival analysis between expression of PLD1 and proapoptotic E2F1 target genes in CRC patients.
Supplemental Figure Legends from Activation of Wnt/β-Catenin in Ewing Sarcoma Cells Antagonizes EWS/ETS Function and Promotes Phenotypic Transition to More Metastatic Cell States
Authors: Pedersen Elisabeth A. , Menon Rajasree , Bailey Kelly M. , Thomas Dafydd G. , Van Noord Raelene A. , Tran Jenny , Wang Hongwei , Qu Ping Ping , Hoering Antje , Fearon Eric R. , Chugh Rashmi , Lawlor Elizabeth R.
Published: April 2023

Legends for supplementary Figures S1 through S5
Supplementary data from Cellular Prion Protein PrPC and Ecto-5′-Nucleotidase Are Markers of the Cellular Stress Response to Aneuploidy
Authors: Domingues Patrícia H. , Nanduri Lalitha S.Y. , Seget Katarzyna , Venkateswaran Sharavan V. , Agorku David , Viganó Cristina , von Schubert Conrad , Nigg Erich A. , Swanton Charles , Sotillo Rocío , Bosio Andreas , Storchová Zuzana , Hardt Olaf
Published: April 2023

Description of the Supplementary Files
Supplementary Figure S6 from Cellular Prion Protein PrPC and Ecto-5′-Nucleotidase Are Markers of the Cellular Stress Response to Aneuploidy
Authors: Domingues Patrícia H. , Nanduri Lalitha S.Y. , Seget Katarzyna , Venkateswaran Sharavan V. , Agorku David , Viganó Cristina , von Schubert Conrad , Nigg Erich A. , Swanton Charles , Sotillo Rocío , Bosio Andreas , Storchová Zuzana , Hardt Olaf
Published: April 2023

Expression of CD230 upon serum-starvation in parental and trisomic cells. Representative dot plots of FSC-A vs CD230-A for HCT116 parental and HCT116 trisomic clones - 18/3 cl2 and 21/3 cl1 and 3 - cultured under normal conditions (10% FBS, control) or under serum-starvation (0% FBS) for 3 days, are shown.
Supplementary figure 7 from The WASF3–NCKAP1–CYFIP1 Complex Is Essential for Breast Cancer Metastasis
Authors: Teng Yong , Qin Haiyan , Bahassan Abdulaziz , Bendzunas N. George , Kennedy Eileen J. , Cowell John K.
Published: April 2023

proliferation studies in cells treated with WANT3 stapled peptides
Supplementary Figure S1 from Cellular Prion Protein PrPC and Ecto-5′-Nucleotidase Are Markers of the Cellular Stress Response to Aneuploidy
Authors: Domingues Patrícia H. , Nanduri Lalitha S.Y. , Seget Katarzyna , Venkateswaran Sharavan V. , Agorku David , Viganó Cristina , von Schubert Conrad , Nigg Erich A. , Swanton Charles , Sotillo Rocío , Bosio Andreas , Storchová Zuzana , Hardt Olaf
Published: April 2023

Hierarchical clustering analysis of multiple cell surface markers in aneuploid cell lines. The expression of 291 cell surface markers (each row represents a single protein) in 5 different aneuploid cell lines (each column represents a different cell line, namely RPE1 5/3 12/3 - trisomy of chromosome 5 and 12 -, RPE1 21/3 - trisomy of chromosome 21 -, HCT116 5/3 - trisomy of chromosome 5 -, RPT1 - RPE1 post-tetraploid clone -, HPT1 - HCT116 post-tetraploid clone -) is shown in a matrix format. The values were normalized to the corresponding parental cell line and are represented by a color scale where red and green colors indicate values of increased- and decreased-expression, respectively.
Supplementary figure 4 from The WASF3–NCKAP1–CYFIP1 Complex Is Essential for Breast Cancer Metastasis
Authors: Teng Yong , Qin Haiyan , Bahassan Abdulaziz , Bendzunas N. George , Kennedy Eileen J. , Cowell John K.
Published: April 2023

proliferation rate in cells treated with RAC1 inhibitor
Supplementary Figure Legends from Ubiquitous Release of Exosomal Tumor Suppressor miR-6126 from Ovarian Cancer Cells
Authors: Kanlikilicer Pinar , Rashed Mohammed H. , Bayraktar Recep , Mitra Rahul , Ivan Cristina , Aslan Burcu , Zhang Xinna , Filant Justyna , Silva Andreia M. , Rodriguez-Aguayo Cristian , Bayraktar Emine , Pichler Martin , Ozpolat Bulent , Calin George A. , Sood Anil K. , Lopez-Berestein Gabriel
Published: April 2023

Figure Legends for Supplementary Figures
Supplementary Materials and Methods (Word Document File) from CCL2 Produced by the Glioma Microenvironment Is Essential for the Recruitment of Regulatory T Cells and Myeloid-Derived Suppressor Cells
Authors: Chang Alan L. , Miska Jason , Wainwright Derek A. , Dey Mahua , Rivetta Claudia V. , Yu Dou , Kanojia Deepak , Pituch Katarzyna C. , Qiao Jian , Pytel Peter , Han Yu , Wu Meijing , Zhang Lingjiao , Horbinski Craig M. , Ahmed Atique U. , Lesniak Maciej S.
Published: April 2023

Word document file containing supplementary materials and methods, supplementary figure legends, and supplementary table
Figure S6. Treatment with a CCR4 antagonist decreases CCR4+ Tregs and increases T cell/Treg ratios in murine glioma. from CCL2 Produced by the Glioma Microenvironment Is Essential for the Recruitment of Regulatory T Cells and Myeloid-Derived Suppressor Cells
Authors: Chang Alan L. , Miska Jason , Wainwright Derek A. , Dey Mahua , Rivetta Claudia V. , Yu Dou , Kanojia Deepak , Pituch Katarzyna C. , Qiao Jian , Pytel Peter , Han Yu , Wu Meijing , Zhang Lingjiao , Horbinski Craig M. , Ahmed Atique U. , Lesniak Maciej S.
Published: April 2023

(A-C) Vehicle control or C 021-treated mice were analyzed at 1 week post-GL261 injection for the accumulation of various T cell subsets and CD11b+Ly-6G+ MDSCs. (D-G) Quantification of flow cytometric analysis. (H-I) C 021 treatment improved the CD4/Foxp3 ratio and CD8/Foxp3 ratio. Data are representative of at least 2 independent experiments. Data are represented as mean {plus minus} SEM; *P < 0.05, **P < 0.01, ***P < 0.001, and ****P < 0.0001 by Student's t test.
Figure S2. CCL2 mRNA and protein level is detectable GL261 model of GBM. from CCL2 Produced by the Glioma Microenvironment Is Essential for the Recruitment of Regulatory T Cells and Myeloid-Derived Suppressor Cells
Authors: Chang Alan L. , Miska Jason , Wainwright Derek A. , Dey Mahua , Rivetta Claudia V. , Yu Dou , Kanojia Deepak , Pituch Katarzyna C. , Qiao Jian , Pytel Peter , Han Yu , Wu Meijing , Zhang Lingjiao , Horbinski Craig M. , Ahmed Atique U. , Lesniak Maciej S.
Published: April 2023

(A) GL261 cells were orthotopically implanted into the right hemisphere of syngeneic immunocompetent C57BL/6 mice. At 1 week post-intracranial (i.c.) injection whole brains were homogenized followed by Percoll gradient separation of leukocytes and non-leukocytes. qRT-PCR was performed for CCL2 in mice intracranially-injected with GL261 cells (n = 4) or PBS-injected controls (n = 3). (B) Detection of CCL2 protein in both brain hemispheres at 1 week-i.c. GL261 (n = 3). (C) Immunoreactivity for CCL2 was detected at 1 week post-GL261 injection. 20Ã- and 63Ã- magnification. Scale bar = 50 microm. (D) qRT-PCR for CCL1, CCL28, CCL2, CCL22, CCL17, and CCL20 from non-leukocytes (NL) and leukocytes (L) as in (A). Images in C are representative of 3 independent replicates. Data are representative of at least 2 independent experiments. Data are represented as mean {plus minus} SEM; *P < 0.05, **P < 0.01, ***P < 0.001, and ****P < 0.0001 by one-way ANOVA with Tukey's multiple comparisons test (A, D) or Student's t test (B).
Figure S1. Clinical relevance of CCL2 in glioblastoma multiforme. from CCL2 Produced by the Glioma Microenvironment Is Essential for the Recruitment of Regulatory T Cells and Myeloid-Derived Suppressor Cells
Authors: Chang Alan L. , Miska Jason , Wainwright Derek A. , Dey Mahua , Rivetta Claudia V. , Yu Dou , Kanojia Deepak , Pituch Katarzyna C. , Qiao Jian , Pytel Peter , Han Yu , Wu Meijing , Zhang Lingjiao , Horbinski Craig M. , Ahmed Atique U. , Lesniak Maciej S.
Published: April 2023

(A-G) Kaplan-Meier survival curves generated from TCGA data using GBM patients segregated by gene expression for a panel of putative Treg and MDSC recruiting chemokines. (H) GBM patient tissue array stained for CCL2. (I) Key showing CCL2 score corresponding to GBM patient cores. Scale bar = 7 mm. TCGA, The Cancer Genome Atlas. Survival curves were compared with the Log-rank test.