bluuebunny/crossref_metadata_2025 huggingface dataset:
Supplementary Figure from Targeting Glucose Metabolism Sensitizes Pancreatic Cancer to MEK Inhibition
Authors: Yan Liang , Tu Bo , Yao Jun , Gong Jing , Carugo Alessandro , Bristow Christopher A. , Wang Qiuyun , Zhu Cihui , Dai Bingbing , Kang Ya'an , Han Leng , Feng Ningping , Jin Yanqing , Fleming Jason , Heffernan Timothy P. , Yao Wantong , Ying Haoqiang
Published: April 2023

Supplementary Figures S1-S6.
Supplementary Figure S1 from YTHDF1 Promotes Gastric Carcinogenesis by Controlling Translation of FZD7
Authors: Pi Jingnan , Wang Wen , Ji Ming , Wang Xiaoshuang , Wei Xueju , Jin Jing , Liu Tao , Qiang Jiaqi , Qi Zhihong , Li Feng , Liu Yue , Ma Yanni , Si Yanmin , Huo Yue , Gao Yufeng , Chen Yiying , Dong Lei , Su Rui , Chen Jianjun , Rao Shuan , Yi Ping , Yu Shuyang , Wang Fang , Yu Jia
Published: April 2023

YTHDF1 is highly mutated and upregulated in gastric cancer.
Supplementary Data from Small-Molecule Natural Product Physachenolide C Potentiates Immunotherapy Efficacy by Targeting BET Proteins
Authors: Tewary Poonam , Brooks Alan D. , Xu Ya-Ming , Wijeratne E.M. Kithsiri , Babyak Ashley L. , Back Timothy C. , Chari Raj , Evans Christine N. , Henrich Curtis J. , Meyer Thomas J. , Edmondson Elijah F. , de Aquino Maria T. Prudente , Kanagasabai Thanigaivelan , Shanker Anil , Gunatilaka A.A. Leslie , Sayers Thomas J.
Published: April 2023

Supplementary Materials & Methods, Supplementary Figures 1-10 with Figure Legends
Supplementary Material and Methods from Cancer Cell Fitness Is Dynamic
Authors: Lenz Luana S. , Faccioni Juliano L. , Bracco Paula A. , Santos Jephesson A.F. , Pereira Luiza C. , Buss Julieti H. , Tamborindeguy Mauricio T. , Torgo Daphne , Monteiro Thayana , Mantovani Giovana B. , Santo Carolina N. , Marcolin Julia C. , Dalsin Eloisa , Vigo Alvaro , Callegari-Jacques Sidia M. , Silva Andrew O. , Onzi Giovana R. , Begnini Karine R. , Lenz Guido
Published: April 2023

File describing in more detail the methods.
Supplementary Fig. S7 from Cancer Cell Fitness Is Dynamic
Authors: Lenz Luana S. , Faccioni Juliano L. , Bracco Paula A. , Santos Jephesson A.F. , Pereira Luiza C. , Buss Julieti H. , Tamborindeguy Mauricio T. , Torgo Daphne , Monteiro Thayana , Mantovani Giovana B. , Santo Carolina N. , Marcolin Julia C. , Dalsin Eloisa , Vigo Alvaro , Callegari-Jacques Sidia M. , Silva Andrew O. , Onzi Giovana R. , Begnini Karine R. , Lenz Guido
Published: April 2023

Supplementary Fig. S7 ïƒª Comparison of Dynafit results with growth rate. a, GR and DynaFit Cumulative Hypothesis plot results b. GR2 versus CS1-GR2 c. GR3 versus CS1-GR2 d. GR3 versus CS1-GR3 of untreated (green), treated only with cytotoxic drugs (red) and the combination of epigenetic modulators and cytotoxic drugs (blue).
Table S7 from High-Density, Targeted Monitoring of Tyrosine Phosphorylation Reveals Activated Signaling Networks in Human Tumors
Authors: Stopfer Lauren E. , Flower Cameron T. , Gajadhar Aaron S. , Patel Bhavin , Gallien Sebastien , Lopez-Ferrer Daniel , White Forest M.
Published: April 2023

Clinical data for tumor specimens analyzed.
Table S6 from High-Density, Targeted Monitoring of Tyrosine Phosphorylation Reveals Activated Signaling Networks in Human Tumors
Authors: Stopfer Lauren E. , Flower Cameron T. , Gajadhar Aaron S. , Patel Bhavin , Gallien Sebastien , Lopez-Ferrer Daniel , White Forest M.
Published: April 2023

Light to heavy ratios and Z-score normalized pTyr abundances for peptides identified in colon tumors.
Supplementary Fig. S5 from Cancer Cell Fitness Is Dynamic
Authors: Lenz Luana S. , Faccioni Juliano L. , Bracco Paula A. , Santos Jephesson A.F. , Pereira Luiza C. , Buss Julieti H. , Tamborindeguy Mauricio T. , Torgo Daphne , Monteiro Thayana , Mantovani Giovana B. , Santo Carolina N. , Marcolin Julia C. , Dalsin Eloisa , Vigo Alvaro , Callegari-Jacques Sidia M. , Silva Andrew O. , Onzi Giovana R. , Begnini Karine R. , Lenz Guido
Published: April 2023

Supplementary Fig. S5 ïƒª Growth characteristics of individual treated colonies. a, GR of all colonies used in Fig. 1e. Mean {plus minus} SD in red. b. Pairwise correlations among the three GRs. c. Mean {plus minus} variance of GR2 of U251 glioma colonies according to the number of cells in CS1 or all colonies. Growth rate of colonies with 1 and 2 cells were different from all growth rates (ANOVA, Tukey's multiple comparison post-hoc test). d, Distribution of the number of colonies in each bin for Fig. 1e. e, GR of the indicated cell lines at high and low density. f, CVP and g, hypothesis plot of the glioma cell line A172wt (WT), GFP-tagged alone (GFP) or in the presence of 100 fold excess of untagged cells (GFP 1:100).
Table S4 from High-Density, Targeted Monitoring of Tyrosine Phosphorylation Reveals Activated Signaling Networks in Human Tumors
Authors: Stopfer Lauren E. , Flower Cameron T. , Gajadhar Aaron S. , Patel Bhavin , Gallien Sebastien , Lopez-Ferrer Daniel , White Forest M.
Published: April 2023

Quantitative reproducibility comparison between SureQuant pTyr and DDA.
Table S3 from High-Density, Targeted Monitoring of Tyrosine Phosphorylation Reveals Activated Signaling Networks in Human Tumors
Authors: Stopfer Lauren E. , Flower Cameron T. , Gajadhar Aaron S. , Patel Bhavin , Gallien Sebastien , Lopez-Ferrer Daniel , White Forest M.
Published: April 2023

Tyrosine phosphorylated peptides identified in discovery analyses of colorectal tumors.
Table S2 from High-Density, Targeted Monitoring of Tyrosine Phosphorylation Reveals Activated Signaling Networks in Human Tumors
Authors: Stopfer Lauren E. , Flower Cameron T. , Gajadhar Aaron S. , Patel Bhavin , Gallien Sebastien , Lopez-Ferrer Daniel , White Forest M.
Published: April 2023

Custom pathway and substrate-kinase libraries for tumor-specific pathway enrichment analyses.
Supplementary Fig. S2 from Cancer Cell Fitness Is Dynamic
Authors: Lenz Luana S. , Faccioni Juliano L. , Bracco Paula A. , Santos Jephesson A.F. , Pereira Luiza C. , Buss Julieti H. , Tamborindeguy Mauricio T. , Torgo Daphne , Monteiro Thayana , Mantovani Giovana B. , Santo Carolina N. , Marcolin Julia C. , Dalsin Eloisa , Vigo Alvaro , Callegari-Jacques Sidia M. , Silva Andrew O. , Onzi Giovana R. , Begnini Karine R. , Lenz Guido
Published: April 2023

Supplementary Fig. S2 ïƒªDynaFit implementations. a, data collected from Supplementary Fig. S1c is given as input to the two DynaFit apps. The Python bootstrap app and the R predictive modeling app are based on different analytical strategies. b, Colony Variance Plot formed by the Python app and c, its hypothesis plot. d, Colony Variance Plot formed by the R app and e, its hypothesis plot.
Supplementary Data from High-Density, Targeted Monitoring of Tyrosine Phosphorylation Reveals Activated Signaling Networks in Human Tumors
Authors: Stopfer Lauren E. , Flower Cameron T. , Gajadhar Aaron S. , Patel Bhavin , Gallien Sebastien , Lopez-Ferrer Daniel , White Forest M.
Published: April 2023

Supplementary figures, table legends, and methods.
Supplementary Data from Multiparametric Photoacoustic Analysis of Human Thyroid Cancers In Vivo
Authors: Kim Jeesu , Park Byullee , Ha Jeonghoon , Steinberg Idan , Hooper Sarah M. , Jeong Chaiho , Park Eun-Yeong , Choi Wonseok , Liang Tie , Bae Ja Seong , Managuli Ravi , Kim Yongmin , Gambhir Sanjiv S. , Lim Dong-Jun , Kim Chulhong
Published: April 2023

Supplementary figures 1-18 and tables 1-7
Supplementary File S1 from Fragmentation of Small-Cell Lung Cancer Regulatory States in Heterotypic Microenvironments
Authors: Schaff Dylan L. , Singh Shambhavi , Kim Kee-Beom , Sutcliffe Matthew D. , Park Kwon-Sik , Janes Kevin A.
Published: April 2023

List of candidate regulatory heterogeneities, adjusted dispersion values, and range of TPM values from stochastic profiling of 10-cell samples and split-pool controls. Individual worksheets are for SCLC spheroids of KP1-GFP cells (Sheet 1) or Chga-GFP;Rbâ^†/â^†;p53â^†/â^†;p130â^†/+;Crebbp-/- (RPC) cells (Sheet 2) and KP1-GFP liver colonies in athymic nude (Sheet 3) or C57BL/6 x 129S F1 hybrid (Sheet 4) animals.
Supplementary Data from Fragmentation of Small-Cell Lung Cancer Regulatory States in Heterotypic Microenvironments
Authors: Schaff Dylan L. , Singh Shambhavi , Kim Kee-Beom , Sutcliffe Matthew D. , Park Kwon-Sik , Janes Kevin A.
Published: April 2023

Supplementary Figure S1-S13, Supplementary Table ST1, and captions for Supplementary Files S1-S2.
Table S8 from EGFR Activates a TAZ-Driven Oncogenic Program in Glioblastoma
Authors: Gao Minling , Fu Yi , Zhou Weiqiang , Gui Gege , Lal Bachuchu , Li Yunqing , Xia Shuli , Ji Hongkai , Eberhart Charles G. , Laterra John , Ying Mingyao
Published: April 2023

Key resources
Supplementary Figure 6 from Hedgehog Signaling Regulates Metabolism and Polarization of Mammary Tumor-Associated Macrophages
Authors: Hinshaw Dominique C. , Hanna Ann , Lama-Sherpa Tshering , Metge Brandon , Kammerud Sarah C. , Benavides Gloria A. , Kumar Atul , Alsheikh Heba Allah , Mota Mateus , Chen Dongquan , Ballinger Scott W. , Rathmell Jeffrey C. , Ponnazhagan Selvarangan , Darley-Usmar Victor , Samant Rajeev S. , Shevde Lalita A.
Published: April 2023

Supplementary Figure 6
Table S5 from EGFR Activates a TAZ-Driven Oncogenic Program in Glioblastoma
Authors: Gao Minling , Fu Yi , Zhou Weiqiang , Gui Gege , Lal Bachuchu , Li Yunqing , Xia Shuli , Ji Hongkai , Eberhart Charles G. , Laterra John , Ying Mingyao
Published: April 2023

Transcription factor motifs with high similarity to the TAZ binding motif (related to Figure 4).
Table S4 from EGFR Activates a TAZ-Driven Oncogenic Program in Glioblastoma
Authors: Gao Minling , Fu Yi , Zhou Weiqiang , Gui Gege , Lal Bachuchu , Li Yunqing , Xia Shuli , Ji Hongkai , Eberhart Charles G. , Laterra John , Ying Mingyao
Published: April 2023

TAZ binding peaks and genes as identified by ChIP-Seq (related to Figure 4).
Table S3 from EGFR Activates a TAZ-Driven Oncogenic Program in Glioblastoma
Authors: Gao Minling , Fu Yi , Zhou Weiqiang , Gui Gege , Lal Bachuchu , Li Yunqing , Xia Shuli , Ji Hongkai , Eberhart Charles G. , Laterra John , Ying Mingyao
Published: April 2023

Merged DE genes that were altered by either 4-hour or 24-hour EGF treatment (related to Figure 4).
Supplementary Data from Oncogenic Ras Disrupts Epithelial Integrity by Activating the Transmembrane Serine Protease Hepsin
Authors: Tervonen Topi A. , Pant Shishir M. , Belitškin Denis , Englund Johanna I. , Närhi Katja , Haglund Caj , Kovanen Panu E. , Verschuren Emmy W. , Klefström Juha
Published: April 2023

Including Supplementary Materials and Methods, Supplementary Figures and Figure Legends 1-5, Supplementary Tables 1-7, and Supplementary References
Supplementary Data from Circulating Small Extracellular Vesicles Activate TYRO3 to Drive Cancer Metastasis and Chemoresistance
Authors: Park Miso , Kim Ji Won , Kim Kyu Min , Kang Seungmin , Kim Wankyu , Kim Jin-Ki , Cho Youngnam , Lee Hyungjae , Baek Moon Chang , Bae Ju-Hyun , Lee Seung Hyun , Jeong Sung Baek , Lim Sung Chul , Jun Dae Won , Cho Sung Yun , Kim Yeonji , Choi Yong June , Kang Keon Wook
Published: April 2023

Supplementary methods and figures
Supplementary Data from Targeting DDX3X Triggers Antitumor Immunity via a dsRNA-Mediated Tumor-Intrinsic Type I Interferon Response
Authors: Choi Hyeongjwa , Kwon Juntae , Cho Min Soon , Sun Yifan , Zheng Xiaofeng , Wang Jing , Bouker Kerrie B. , Casey John L. , Atkins Michael B. , Toretsky Jeffrey , Han Cecil
Published: April 2023

Supplementary Information
Supplementary Table 4 from Whole-Exome Sequencing of Radiation-Induced Thymic Lymphoma in Mouse Models Identifies Notch1 Activation as a Driver of p53 Wild-Type Lymphoma
Authors: Lee Chang-Lung , Brock Kennedy D. , Hasapis Stephanie , Zhang Dadong , Sibley Alexander B. , Qin Xiaodi , Gresham Jeremy S. , Caraballo Isibel , Luo Lixia , Daniel Andrea R. , Hilton Matthew J. , Owzar Kouros , Kirsch David G.
Published: April 2023

Validation of recurrent somatic mutations
Supplementary Table 2 from Whole-Exome Sequencing of Radiation-Induced Thymic Lymphoma in Mouse Models Identifies Notch1 Activation as a Driver of p53 Wild-Type Lymphoma
Authors: Lee Chang-Lung , Brock Kennedy D. , Hasapis Stephanie , Zhang Dadong , Sibley Alexander B. , Qin Xiaodi , Gresham Jeremy S. , Caraballo Isibel , Luo Lixia , Daniel Andrea R. , Hilton Matthew J. , Owzar Kouros , Kirsch David G.
Published: April 2023

Called somatic mutations
Supplementary Files 1-11 from Protein Signatures of NK Cell–Mediated Melanoma Killing Predict Response to Immunotherapies
Authors: Cappello Sabrina , Sung Hsu-Min , Ickes Christian , Gibhardt Christine S. , Vultur Adina , Bhat Hilal , Hu Zhongwen , Brafford Patricia , Denger Andreas , Stejerean-Todoran Ioana , Köhn Rixa-Mareike , Lorenz Verena , Künzel Nicolas , Salinas Gabriela , Stanisz Hedwig , Legler Tobias , Rehling Peter , Schön Michael P. , Lang Karl S. , Helms Volkhard , Herlyn Meenhard , Hoth Markus , Kummerow Carsten , Bogeski Ivan
Published: April 2023

A file containing RPPA and RNAseq datasets, pathway analyses and prediction calculations presented in the main figures.
Supplementary Data from FSTL1 Secreted by Activated Fibroblasts Promotes Hepatocellular Carcinoma Metastasis and Stemness
Authors: Loh Jia-Jian , Li Tsz-Wai , Zhou Lei , Wong Tin-Lok , Liu Xue , Ma Victor W.S. , Lo Chung-Mau , Man Kwan , Lee Terence K. , Ning Wen , Tong Man , Ma Stephanie
Published: April 2023

Supplemental MM, Figures and Tables
Supplementary Table S2 from Valosin-Containing Protein Stabilizes Mutant p53 to Promote Pancreatic Cancer Growth
Authors: Wang Jieqiong , Chen Yajie , Huang Canhua , Hao Qian , Zeng Shelya X. , Omari Sara , Zhang Yu , Zhou Xiang , Lu Hua
Published: April 2023

Supplementary Table S2 shows antibodies used for Western blotting.
Supplementary Table 1 from Valosin-Containing Protein Stabilizes Mutant p53 to Promote Pancreatic Cancer Growth
Authors: Wang Jieqiong , Chen Yajie , Huang Canhua , Hao Qian , Zeng Shelya X. , Omari Sara , Zhang Yu , Zhou Xiang , Lu Hua
Published: April 2023

Supplementary Table S1 shows the sequences of siRNAs and the targeting sequences of high scored sgRNAs for CRISPR/Cas9.
Supplementary Data from Valosin-Containing Protein Stabilizes Mutant p53 to Promote Pancreatic Cancer Growth
Authors: Wang Jieqiong , Chen Yajie , Huang Canhua , Hao Qian , Zeng Shelya X. , Omari Sara , Zhang Yu , Zhou Xiang , Lu Hua
Published: April 2023

Wang et al suppl infor
Supplementary Data from Porphyromonas gingivalis Promotes Colorectal Carcinoma by Activating the Hematopoietic NLRP3 Inflammasome
Authors: Wang Xi , Jia Yiqun , Wen Liling , Mu Wenxin , Wu Xianrui , Liu Tao , Liu Xiangqi , Fang Juan , Luan Yizhao , Chen Ping , Gao Jinlong , Nguyen Ky-Anh , Cui Jun , Zeng Gucheng , Lan Ping , Chen Qianming , Cheng Bin , Wang Zhi
Published: April 2023

Supplementary Data from Porphyromonas gingivalis Promotes Colorectal Carcinoma by Activating the Hematopoietic NLRP3 Inflammasome
Supplementary Data from Unraveling Ewing Sarcoma Tumorigenesis Originating from Patient-Derived Mesenchymal Stem Cells
Authors: Sole Anna , Grossetête Sandrine , Heintzé Maxime , Babin Loelia , Zaïdi Sakina , Revy Patrick , Renouf Benjamin , De Cian Anne , Giovannangeli Carine , Pierre-Eugène Cécile , Janoueix-Lerosey Isabelle , Couronné Lucile , Kaltenbach Sophie , Tomishima Mark , Jasin Maria , Grünewald Thomas G.P. , Delattre Olivier , Surdez Didier , Brunet Erika
Published: April 2023

SupReferences+SupMAt&Met+Suptables+SupFig
Supplementary Information from Assessing Lung Cancer Absolute Risk Trajectory Based on a Polygenic Risk Model
Authors: Hung Rayjean J. , Warkentin Matthew T. , Brhane Yonathan , Chatterjee Nilanjan , Christiani David C. , Landi Maria Teresa , Caporaso Neil E. , Liu Geoffrey , Johansson Mattias , Albanes Demetrius , Marchand Loic Le , Tardon Adonina , Rennert Gad , Bojesen Stig E. , Chen Chu , Field John K. , Kiemeney Lambertus A. , Lazarus Philip , Zienolddiny Shanbeth , Lam Stephen , Andrew Angeline S. , Arnold Susanne M. , Aldrich Melinda C. , Bickeböller Heike , Risch Angela , Schabath Matthew B. , McKay James D. , Brennan Paul , Amos Christopher I.
Published: April 2023

Supplementary materials, Tables and Figures
Supplementary Data from The BRCA1 Pseudogene Negatively Regulates Antitumor Responses through Inhibition of Innate Immune Defense Mechanisms
Authors: Han Yoo Jane , Zhang Jing , Lee Jung-Hyun , Mason Jennifer M. , Karginova Olga , Yoshimatsu Toshio F. , Hao Qinyu , Hurley Ian , Brunet Laia Paré , Prat Aleix , Prasanth Kannanganattu V. , Gack Michaela U. , Olopade Olufunmilayo I.
Published: April 2023

supplementary figures and table
Supplementary Tables S1-S12 from RNA Splicing Factors SRRM3 and SRRM4 Distinguish Molecular Phenotypes of Castration-Resistant Neuroendocrine Prostate Cancer
Authors: Labrecque Mark P. , Brown Lisha G. , Coleman Ilsa M. , Lakely Bryce , Brady Nicholas J. , Lee John K. , Nguyen Holly M. , Li Dapei , Hanratty Brian , Haffner Michael C. , Rickman David S. , True Lawrence D. , Lin Daniel W. , Lam Hung-Ming , Alumkal Joshi J. , Corey Eva , Nelson Peter S. , Morrissey Colm
Published: April 2023

All supplementary tables. Tables S1-S12
Supplementary Materials and Methods from RNA Splicing Factors SRRM3 and SRRM4 Distinguish Molecular Phenotypes of Castration-Resistant Neuroendocrine Prostate Cancer
Authors: Labrecque Mark P. , Brown Lisha G. , Coleman Ilsa M. , Lakely Bryce , Brady Nicholas J. , Lee John K. , Nguyen Holly M. , Li Dapei , Hanratty Brian , Haffner Michael C. , Rickman David S. , True Lawrence D. , Lin Daniel W. , Lam Hung-Ming , Alumkal Joshi J. , Corey Eva , Nelson Peter S. , Morrissey Colm
Published: April 2023

Supplementary Materials and Methods
Figure S7 from MYCN-Amplified Neuroblastoma Is Addicted to Iron and Vulnerable to Inhibition of the System Xc-/Glutathione Axis
Authors: Floros Konstantinos V. , Cai JinYang , Jacob Sheeba , Kurupi Richard , Fairchild Carter K. , Shende Mayuri , Coon Colin M. , Powell Krista M. , Belvin Benjamin R. , Hu Bin , Puchalapalli Madhavi , Ramamoorthy Sivapriya , Swift Kimberly , Lewis Janina P. , Dozmorov Mikhail G. , Glod John , Koblinski Jennifer E. , Boikos Sosipatros A. , Faber Anthony C.
Published: April 2023

Figure S7. Auranofin induces ferroptosis in vivo.
Video 3 Intravital imaging of BrafV600E melanoma cells expressing GCaMP6s [parental, Gnaq-/-, and Gnaq-/- cells introduced with Gnaq (Gnaq-/- + Gnaq)]. from Intravital Imaging Identifies the VEGF–TXA2 Axis as a Critical Promoter of PGE2 Secretion from Tumor Cells and Immune Evasion
Authors: Konishi Yoshinobu , Ichise Hiroshi , Watabe Tetsuya , Oki Choji , Tsukiji Shinya , Hamazaki Yoko , Murakawa Yasuhiro , Takaori-Kondo Akifumi , Terai Kenta , Matsuda Michiyuki
Published: April 2023

Intravital imaging of BrafV600E melanoma cells expressing GCaMP6s. Images represent the fold increase in fluorescence intensity shown in IMD mode as in Figure 1E. Images were acquired every 3 seconds for 15 minutes. From left to right: parental melanoma, Gnaq-/- melanoma, and Gnaq-/- melanoma cells introduced with Gnaq (Gnaq-/- + Gnaq). Genetic ablation of Gnaq abolished active Ca2+ transients observed in parental cells, which was restored by the introduction of Gnaq in Gnaq-/- melanoma. Scale bar = 60 µm. Times are shown in minutes (m) and seconds (s).
Video 2 Live imaging of BrafV600E melanoma cells expressing GCaMP6s in vivo and in vitro. from Intravital Imaging Identifies the VEGF–TXA2 Axis as a Critical Promoter of PGE2 Secretion from Tumor Cells and Immune Evasion
Authors: Konishi Yoshinobu , Ichise Hiroshi , Watabe Tetsuya , Oki Choji , Tsukiji Shinya , Hamazaki Yoko , Murakawa Yasuhiro , Takaori-Kondo Akifumi , Terai Kenta , Matsuda Michiyuki
Published: April 2023

Live imaging of BrafV600E melanoma cells expressing GCaMP6s in vivo and in vitro. Pseudo colors represent the fluorescence intensity as in Figure 1C. Images were acquired every 6 seconds for 20 minutes. A small population of tumor cells continuously shows active Ca2+ transients repeatedly in vivo, but not in vitro. Scale bar = 60 µm. Times are shown in minutes (m) and seconds (s).
Figure S4 from MYCN-Amplified Neuroblastoma Is Addicted to Iron and Vulnerable to Inhibition of the System Xc-/Glutathione Axis
Authors: Floros Konstantinos V. , Cai JinYang , Jacob Sheeba , Kurupi Richard , Fairchild Carter K. , Shende Mayuri , Coon Colin M. , Powell Krista M. , Belvin Benjamin R. , Hu Bin , Puchalapalli Madhavi , Ramamoorthy Sivapriya , Swift Kimberly , Lewis Janina P. , Dozmorov Mikhail G. , Glod John , Koblinski Jennifer E. , Boikos Sosipatros A. , Faber Anthony C.
Published: April 2023

Figure S4. SLC40A1 promoter and first exon are highly methylated in the MYCN overexpressing NBs.
Video 1 Live imaging of MDCK cells expressing the PKA biosensor. from Intravital Imaging Identifies the VEGF–TXA2 Axis as a Critical Promoter of PGE2 Secretion from Tumor Cells and Immune Evasion
Authors: Konishi Yoshinobu , Ichise Hiroshi , Watabe Tetsuya , Oki Choji , Tsukiji Shinya , Hamazaki Yoko , Murakawa Yasuhiro , Takaori-Kondo Akifumi , Terai Kenta , Matsuda Michiyuki
Published: April 2023

Live imaging of MDCK cells expressing the PKA biosensor. BrafV600E melanoma cells expressing the DREADD hM3 were stimulated by 1 μM CNO treatment at 60 seconds. PKA activation in surrounding MDCK cells was observed 30 seconds after stimulation. Scale bar = 100 µm. Times are shown in minutes (m) and seconds (s).
Supplementary Data from Intravital Imaging Identifies the VEGF–TXA2 Axis as a Critical Promoter of PGE2 Secretion from Tumor Cells and Immune Evasion
Authors: Konishi Yoshinobu , Ichise Hiroshi , Watabe Tetsuya , Oki Choji , Tsukiji Shinya , Hamazaki Yoko , Murakawa Yasuhiro , Takaori-Kondo Akifumi , Terai Kenta , Matsuda Michiyuki
Published: April 2023

Supplementary Method, Reference, Figures 1-8, Tables 1-2
Supplementary Data from Targeting the Extracellular HSP90 Co-Chaperone Morgana Inhibits Cancer Cell Migration and Promotes Anticancer Immunity
Authors: Seclì Laura , Avalle Lidia , Poggio Pietro , Fragale Giuseppe , Cannata Cristiana , Conti Laura , Iannucci Andrea , Carrà Giovanna , Rubinetto Cristina , Miniscalco Barbara , Hirsch Emilio , Poli Valeria , Morotti Alessandro , De Andrea Marco , Turco Emilia , Cavallo Federica , Fusella Federica , Brancaccio Mara
Published: April 2023

Supplementary Figures
Supplementary Data from Targeting the Extracellular HSP90 Co-Chaperone Morgana Inhibits Cancer Cell Migration and Promotes Anticancer Immunity
Authors: Seclì Laura , Avalle Lidia , Poggio Pietro , Fragale Giuseppe , Cannata Cristiana , Conti Laura , Iannucci Andrea , Carrà Giovanna , Rubinetto Cristina , Miniscalco Barbara , Hirsch Emilio , Poli Valeria , Morotti Alessandro , De Andrea Marco , Turco Emilia , Cavallo Federica , Fusella Federica , Brancaccio Mara
Published: April 2023

Supplementary Materials
Supplementary Data from Loss of SDHB Promotes Dysregulated Iron Homeostasis, Oxidative Stress, and Sensitivity to Ascorbate
Authors: Goncalves Judith , Moog Sophie , Morin Aurélie , Gentric Géraldine , Müller Sebastian , Morrell Alexander P. , Kluckova Katarina , Stewart Theodora J. , Andoniadou Cynthia L. , Lussey-Lepoutre Charlotte , Bénit Paule , Thakker Alpesh , Vettore Lisa , Roberts Jennie , Rodriguez Raphaël , Mechta-Grigoriou Fatima , Gimenez-Roqueplo Anne-Paule , Letouzé Eric , Tennant Daniel A. , Favier Judith
Published: April 2023

- Supplementary Figure 1 - Supplementary Figure 2 - Supplementary Figure 3 - Supplementary Figure 4 - Supplementary Figure 5 - Supplementary Figure 6 - Supplementary Table 1 - Supplementary Table 2 - Supplementary Table 3 - Supplementary Table 4 - Supplementary Methods -
Supplementary Data from An Oncolytic Virus Expressing IL15/IL15Rα Combined with Off-the-Shelf EGFR-CAR NK Cells Targets Glioblastoma
Authors: Ma Rui , Lu Ting , Li Zhenlong , Teng Kun-Yu , Mansour Anthony G. , Yu Melissa , Tian Lei , Xu Bo , Ma Shoubao , Zhang Jianying , Barr Tasha , Peng Yong , Caligiuri Michael A. , Yu Jianhua
Published: April 2023

Supplementary Materials and Methods
Supplementary Data from TET2 and DNMT3A Mutations Exert Divergent Effects on DNA Repair and Sensitivity of Leukemia Cells to PARP Inhibitors
Authors: Maifrede Silvia , Le Bac Viet , Nieborowska-Skorska Margaret , Golovine Konstantin , Sullivan-Reed Katherine , Dunuwille Wangisa M.B. , Nacson Joseph , Hulse Michael , Keith Kelsey , Madzo Jozef , Caruso Lisa Beatrice , Gazze Zachary , Lian Zhaorui , Padella Antonella , Chitrala Kumaraswamy N. , Bartholdy Boris A. , Matlawska-Wasowska Ksenia , Di Marcantonio Daniela , Simonetti Giorgia , Greiner Georg , Sykes Stephen M. , Valent Peter , Paietta Elisabeth M. , Tallman Martin S. , Fernandez Hugo F. , Litzow Mark R. , Minden Mark D. , Huang Jian , Martinelli Giovanni , Vassiliou George S. , Tempera Italo , Piwocka Katarzyna , Johnson Neil , Challen Grant A. , Skorski Tomasz
Published: April 2023

Supplementary Methods and Results
Supplementary Data from mTORC1 Promotes ARID1A Degradation and Oncogenic Chromatin Remodeling in Hepatocellular Carcinoma
Authors: Zhang Shanshan , Zhou Yu-Feng , Cao Jian , Burley Stephen K. , Wang Hui-Yun , Zheng X.F. Steven
Published: April 2023

Table S2
Supplementary Data from Stress-Mediated Reprogramming of Prostate Cancer One-Carbon Cycle Drives Disease Progression
Authors: Pällmann Nora , Deng Ke , Livgård Marte , Tesikova Martina , Jin Yixin , Frengen Nicolai Sebastian , Kahraman Nermin , Mokhlis Hamada M. , Ozpolat Bulent , Kildal Wanja , Danielsen Havard Emil , Fazli Ladan , Rennie Paul S. , Banerjee Partha P. , Üren Aykut , Jin Yang , Kuzu Omer F. , Saatcioglu Fahri
Published: April 2023

Supplementary Figures
Supplementary Data from Quantitative Analysis of Tyrosine Phosphorylation from FFPE Tissues Reveals Patient-Specific Signaling Networks
Authors: Kohale Ishwar N. , Burgenske Danielle M. , Mladek Ann C. , Bakken Katrina K. , Kuang Jenevieve , Boughey Judy C. , Wang Liewei , Carter Jodi M. , Haura Eric B. , Goetz Matthew P. , Sarkaria Jann N. , White Forest M.
Published: April 2023

Supplementary Data from Quantitative Analysis of Tyrosine Phosphorylation from FFPE Tissues Reveals Patient-Specific Signaling Networks
Table S9 from Fusobacterium Nucleatum Promotes the Development of Colorectal Cancer by Activating a Cytochrome P450/Epoxyoctadecenoic Acid Axis via TLR4/Keap1/NRF2 Signaling
Authors: Kong Cheng , Yan Xuebing , Zhu Yefei , Zhu Huiyuan , Luo Ying , Liu Peipei , Ferrandon Sylvain , Kalady Matthew F. , Gao Renyuan , He Jide , Yin Fang , Qu Xiao , Zheng Jiayi , Gao Yaohui , Wei Qing , Ma Yanlei , Liu Jun-Yan , Qin Huanlong
Published: April 2023

Table S9 shows all primer sequences used in this study.
Supplementary Data from Phenotypic Heterogeneity and Metastasis of Breast Cancer Cells
Authors: Hapach Lauren A. , Carey Shawn P. , Schwager Samantha C. , Taufalele Paul V. , Wang Wenjun , Mosier Jenna A. , Ortiz-Otero Nerymar , McArdle Tanner J. , Goldblatt Zachary E. , Lampi Marsha C. , Bordeleau Francois , Marshall Jocelyn R. , Richardson Isaac M. , Li Jiahe , King Michael R. , Reinhart-King Cynthia A.
Published: April 2023

Supplemental data and methods
Table S7 from Fusobacterium Nucleatum Promotes the Development of Colorectal Cancer by Activating a Cytochrome P450/Epoxyoctadecenoic Acid Axis via TLR4/Keap1/NRF2 Signaling
Authors: Kong Cheng , Yan Xuebing , Zhu Yefei , Zhu Huiyuan , Luo Ying , Liu Peipei , Ferrandon Sylvain , Kalady Matthew F. , Gao Renyuan , He Jide , Yin Fang , Qu Xiao , Zheng Jiayi , Gao Yaohui , Wei Qing , Ma Yanlei , Liu Jun-Yan , Qin Huanlong
Published: April 2023

Table S7 shows representative differentially expressed mRNA between Fusobacterium nucleatum treated and untreated HCT116 cells.
Supplemental Video 4 from Phenotypic Heterogeneity and Metastasis of Breast Cancer Cells
Authors: Hapach Lauren A. , Carey Shawn P. , Schwager Samantha C. , Taufalele Paul V. , Wang Wenjun , Mosier Jenna A. , Ortiz-Otero Nerymar , McArdle Tanner J. , Goldblatt Zachary E. , Lampi Marsha C. , Bordeleau Francois , Marshall Jocelyn R. , Richardson Isaac M. , Li Jiahe , King Michael R. , Reinhart-King Cynthia A.
Published: April 2023

MDA- cells migrating in collagen tracks
Table S3 from Fusobacterium Nucleatum Promotes the Development of Colorectal Cancer by Activating a Cytochrome P450/Epoxyoctadecenoic Acid Axis via TLR4/Keap1/NRF2 Signaling
Authors: Kong Cheng , Yan Xuebing , Zhu Yefei , Zhu Huiyuan , Luo Ying , Liu Peipei , Ferrandon Sylvain , Kalady Matthew F. , Gao Renyuan , He Jide , Yin Fang , Qu Xiao , Zheng Jiayi , Gao Yaohui , Wei Qing , Ma Yanlei , Liu Jun-Yan , Qin Huanlong
Published: April 2023

Table S3 shows the details of generated metagenomic reads in the stool from control subjects and CRC patients.
Table S2 from Fusobacterium Nucleatum Promotes the Development of Colorectal Cancer by Activating a Cytochrome P450/Epoxyoctadecenoic Acid Axis via TLR4/Keap1/NRF2 Signaling
Authors: Kong Cheng , Yan Xuebing , Zhu Yefei , Zhu Huiyuan , Luo Ying , Liu Peipei , Ferrandon Sylvain , Kalady Matthew F. , Gao Renyuan , He Jide , Yin Fang , Qu Xiao , Zheng Jiayi , Gao Yaohui , Wei Qing , Ma Yanlei , Liu Jun-Yan , Qin Huanlong
Published: April 2023

Table S2 shows the concentrations of lipid mediators in the serum from control subjects and CRC patients.
Figure S4 from Diet Alters Entero-Mammary Signaling to Regulate the Breast Microbiome and Tumorigenesis
Authors: Soto-Pantoja David R. , Gaber Mohamed , Arnone Alana A. , Bronson Steven M. , Cruz-Diaz Nildris , Wilson Adam S. , Clear Kenysha Y.J. , Ramirez Manuel U. , Kucera Gregory L. , Levine Edward A. , Lelièvre Sophie A. , Chaboub Lesley , Chiba Akiko , Yadav Hariom , Vidi Pierre-Alexandre , Cook Katherine L.
Published: April 2023

Length of duration of fish oil intervention potentiates microbial shift. A. Time (in days) breast cancer patients were taking oral fish oil or placebo supplements. Short-term administration is classified as less than or equal to 14 days (n=5) and long-term administration is classified as greater than or equal to 17 days (n=8) of intervention. B. Patient BMI by group display no difference in BMI by intervention or length of intervention groups. C. Relative proportional abundance of tumor and tumor-adjacent mammary gland microbiome by group. Each bar represents a subject and each colored box a bacterial taxon. The height of a color box represents the relative abundance of that organism within the sample. 'Other' represents lower abundance taxa. D. Taxonomic profile of identified genera in breast tumor and tumor adjacent mammary gland tissue samples obtained from breast cancer patients taking oral fish oil supplements grouped by length of intervention.
Figure S2 from Diet Alters Entero-Mammary Signaling to Regulate the Breast Microbiome and Tumorigenesis
Authors: Soto-Pantoja David R. , Gaber Mohamed , Arnone Alana A. , Bronson Steven M. , Cruz-Diaz Nildris , Wilson Adam S. , Clear Kenysha Y.J. , Ramirez Manuel U. , Kucera Gregory L. , Levine Edward A. , Lelièvre Sophie A. , Chaboub Lesley , Chiba Akiko , Yadav Hariom , Vidi Pierre-Alexandre , Cook Katherine L.
Published: April 2023

A. Uninfected 4T1 tumor volume from mice treated 1 x weekly control diet-derived fecal transplant. B. Uninfected 4T1 tumor volume from mice treated 1 x weekly lard diet-derived fecal transplant. C. Tumor volume over time of uninfected 4T1 cells mixed with control diet-derived fecal conditioned media infected RAW 264.7 (macrophage) cells. D. Tumor volume over time of uninfected 4T1 cells mixed with lard diet-derived fecal conditioned media infected RAW 264.7 (macrophage) cells. E. Tumor proliferation as determined by Ki67 immunoreactivity. F. Gram-positive bacteria content in 4T1 breast tumors. G. LPS positive bacteria content in 4T1 tumors. H. Infiltrating tumor-associated macrophage content in 4T1 tumors was determined by F4/80 immunoreactivity. n=5-6.*p<0.05
Supplementary Data from TIMP1 Triggers Neutrophil Extracellular Trap Formation in Pancreatic Cancer
Authors: Schoeps Benjamin , Eckfeld Celina , Prokopchuk Olga , Böttcher Jan , Häußler Daniel , Steiger Katja , Demir Ihsan Ekin , Knolle Percy , Soehnlein Oliver , Jenne Dieter E. , Hermann Chris D. , Krüger Achim
Published: April 2023

Supplementary Material and Methods
Supplementary Data from Spatiotemporal Heterogeneity across Metastases and Organ-Specific Response Informs Drug Efficacy and Patient Survival in Colorectal Cancer
Authors: Zhou Jiawei , Li Quefeng , Cao Yanguang
Published: April 2023

Supplementary Data Online
FigureS6 from MTAP Deficiency–Induced Metabolic Reprogramming Creates a Vulnerability to Cotargeting De Novo Purine Synthesis and Glycolysis in Pancreatic Cancer
Authors: Hu Qiangsheng , Qin Yi , Ji Shunrong , Shi Xiuhui , Dai Weixing , Fan Guixiong , Li Shuo , Xu Wenyan , Liu Wensheng , Liu Mengqi , Zhang Zheng , Ye Zeng , Zhou Zhijun , Yang Jingxuan , Zhuo Qifeng , Yu Xianjun , Li Min , Xu Xiaowu
Published: April 2023

Supplementary Figure6
FigureS4 from MTAP Deficiency–Induced Metabolic Reprogramming Creates a Vulnerability to Cotargeting De Novo Purine Synthesis and Glycolysis in Pancreatic Cancer
Authors: Hu Qiangsheng , Qin Yi , Ji Shunrong , Shi Xiuhui , Dai Weixing , Fan Guixiong , Li Shuo , Xu Wenyan , Liu Wensheng , Liu Mengqi , Zhang Zheng , Ye Zeng , Zhou Zhijun , Yang Jingxuan , Zhuo Qifeng , Yu Xianjun , Li Min , Xu Xiaowu
Published: April 2023

Supplementary Figure4
FigureS3 from MTAP Deficiency–Induced Metabolic Reprogramming Creates a Vulnerability to Cotargeting De Novo Purine Synthesis and Glycolysis in Pancreatic Cancer
Authors: Hu Qiangsheng , Qin Yi , Ji Shunrong , Shi Xiuhui , Dai Weixing , Fan Guixiong , Li Shuo , Xu Wenyan , Liu Wensheng , Liu Mengqi , Zhang Zheng , Ye Zeng , Zhou Zhijun , Yang Jingxuan , Zhuo Qifeng , Yu Xianjun , Li Min , Xu Xiaowu
Published: April 2023

Supplementary Figure3
Table S2 from Delta-Like Ligand–Notch1 Signaling Is Selectively Modulated by HPV16 E6 to Promote Squamous Cell Proliferation and Correlates with Cervical Cancer Prognosis
Authors: Khelil Maryam , Griffin Heather , Bleeker Maaike C.G. , Steenbergen Renske D.M. , Zheng Ke , Saunders-Wood Taylor , Samuels Sanne , Rotman Jossie , Vos Wim , van den Akker Brendy E. , de Menezes Renée X. , Kenter Gemma G. , Doorbar John , Jordanova Ekaterina S.
Published: April 2023

Clinicopathological characteristics of DLL4/N1ICD risk groups (Institutional cohort)
Supplementary Materials and Methods from Delta-Like Ligand–Notch1 Signaling Is Selectively Modulated by HPV16 E6 to Promote Squamous Cell Proliferation and Correlates with Cervical Cancer Prognosis
Authors: Khelil Maryam , Griffin Heather , Bleeker Maaike C.G. , Steenbergen Renske D.M. , Zheng Ke , Saunders-Wood Taylor , Samuels Sanne , Rotman Jossie , Vos Wim , van den Akker Brendy E. , de Menezes Renée X. , Kenter Gemma G. , Doorbar John , Jordanova Ekaterina S.
Published: April 2023

The Supplementary materials and methods provide more detail on cell culture; antibodies; scratch assay; immunofluorescence and immunohistochemistry; TMA analysis; Western blots and statistical analysis.
Supplementary Tables S2-S6 from Lipidomic Profiling of Clinical Prostate Cancer Reveals Targetable Alterations in Membrane Lipid Composition
Authors: Butler Lisa M. , Mah Chui Yan , Machiels Jelle , Vincent Andrew D. , Irani Swati , Mutuku Shadrack M. , Spotbeen Xander , Bagadi Muralidhararao , Waltregny David , Moldovan Max , Dehairs Jonas , Vanderhoydonc Frank , Bloch Katarzyna , Das Rajdeep , Stahl Jurgen , Kench James G. , Gevaert Thomas , Derua Rita , Waelkens Etienne , Nassar Zeyad D. , Selth Luke A. , Trim Paul J. , Snel Marten F. , Lynn David J. , Tilley Wayne D. , Horvath Lisa G. , Centenera Margaret M. , Swinnen Johannes V.
Published: April 2023

Results of lipid association analyses
Table S3 from Multilevel Regulation of β-Catenin Activity by SETD2 Suppresses the Transition from Polycystic Kidney Disease to Clear Cell Renal Cell Carcinoma
Authors: Rao Hanyu , Li Xiaoxue , Liu Min , Liu Jing , Feng Wenxin , Tang Huayuan , Xu Jin , Gao Wei-Qiang , Li Li
Published: April 2023

The information of the primers used in ChIP-qPCR analysis.
Supplementary File S3 from Premalignant Oligodendrocyte Precursor Cells Stall in a Heterogeneous State of Replication Stress Prior to Gliomagenesis
Authors: Sutcliffe Matthew D. , Galvao Rui P. , Wang Lixin , Kim Jungeun , Rosenfeld Lauren K. , Singh Shambhavi , Zong Hui , Janes Kevin A.
Published: April 2023

Candidate male- and female-specific regulatory heterogeneities in mutant cells at 12 dpi (Sheet 1) and 90 dpi (Sheet 2). Shared candidates are shown as RHEGs for each day.
Figure S4 from Multilevel Regulation of β-Catenin Activity by SETD2 Suppresses the Transition from Polycystic Kidney Disease to Clear Cell Renal Cell Carcinoma
Authors: Rao Hanyu , Li Xiaoxue , Liu Min , Liu Jing , Feng Wenxin , Tang Huayuan , Xu Jin , Gao Wei-Qiang , Li Li
Published: April 2023

SETD2 overexpression did not change the protein level of S33Y.β-catenin.
Figure S3 from Multilevel Regulation of β-Catenin Activity by SETD2 Suppresses the Transition from Polycystic Kidney Disease to Clear Cell Renal Cell Carcinoma
Authors: Rao Hanyu , Li Xiaoxue , Liu Min , Liu Jing , Feng Wenxin , Tang Huayuan , Xu Jin , Gao Wei-Qiang , Li Li
Published: April 2023

SETD2 deficiency enriched the gene concepts linked to hyperactive Wnt/β-catenin signaling.
Supplementary Data from Multimodal Molecular Imaging Detects Early Responses to Immune Checkpoint Blockade
Authors: Saida Yu , Brender Jeffrey R. , Yamamoto Kazutoshi , Mitchell James B. , Krishna Murali C. , Kishimoto Shun
Published: April 2023

Supplementary Data, including figures 1-6 and tables 1-2.
Figure S2 from Multilevel Regulation of β-Catenin Activity by SETD2 Suppresses the Transition from Polycystic Kidney Disease to Clear Cell Renal Cell Carcinoma
Authors: Rao Hanyu , Li Xiaoxue , Liu Min , Liu Jing , Feng Wenxin , Tang Huayuan , Xu Jin , Gao Wei-Qiang , Li Li
Published: April 2023

SETD2 overexpression inhibits PTECs proliferation, migration and invasion in vitro.
Supplementary Table 4 from Endothelial Reprogramming Stimulated by Oncostatin M Promotes Inflammation and Tumorigenesis in VHL-Deficient Kidney Tissue
Authors: Nguyen-Tran Hieu-Huy , Nguyen Thi-Ngoc , Chen Chen-Yun , Hsu Tien
Published: April 2023

Supplementary Table 4
Supplementary Table 3 from Endothelial Reprogramming Stimulated by Oncostatin M Promotes Inflammation and Tumorigenesis in VHL-Deficient Kidney Tissue
Authors: Nguyen-Tran Hieu-Huy , Nguyen Thi-Ngoc , Chen Chen-Yun , Hsu Tien
Published: April 2023

Supplementary Table 3
Supplementary Methods and Materials from Endothelial Reprogramming Stimulated by Oncostatin M Promotes Inflammation and Tumorigenesis in VHL-Deficient Kidney Tissue
Authors: Nguyen-Tran Hieu-Huy , Nguyen Thi-Ngoc , Chen Chen-Yun , Hsu Tien
Published: April 2023

Supplementary Methods and Materials
Table S9 from Single-Cell RNA Sequencing Reveals the Cellular Origin and Evolution of Breast Cancer in BRCA1 Mutation Carriers
Authors: Hu Li , Su Liming , Cheng Hainan , Mo Chunling , Ouyang Tao , Li Jinfeng , Wang Tianfeng , Fan Zhaoqing , Fan Tie , Lin Benyao , Zhang Jianguang , Xie Yuntao
Published: April 2023

Table S9. Oncogenic mutations detected in the breast tumor tissues from four BRCA1 mutation carriers.
Table S1-S7 from Single-Cell RNA Sequencing Reveals the Cellular Origin and Evolution of Breast Cancer in BRCA1 Mutation Carriers
Authors: Hu Li , Su Liming , Cheng Hainan , Mo Chunling , Ouyang Tao , Li Jinfeng , Wang Tianfeng , Fan Zhaoqing , Fan Tie , Lin Benyao , Zhang Jianguang , Xie Yuntao
Published: April 2023

Table S1. Detailed information on the BRCA1 germline mutation and clinicopathological characteristics of seven patients; Table S2. Cell numbers detected by single cell RNA-seq; Table S3. List of cell type specific marker genes identified at a single cell resolution; Table S4. EMT signature gene set; Table S5. Clinicopathologic information of 8 additional BRCA1 mutation carriers and 14 non-carriers for bulk RNA-seq; Table S6. Clinico-pathologic information of the breast cancers from BRCA1/2 germline mutation carriers from The Cancer Genome Atlas (TCGA) database included in this study for comparisons; Table S7. Clinicopathologic information of 7 BRCA1 mutation carriers and 10 non-carriers whose samples for immunohistochemistry staining.
Table S4 from Treatment with HIV-Protease Inhibitor Nelfinavir Identifies Membrane Lipid Composition and Fluidity as a Therapeutic Target in Advanced Multiple Myeloma
Authors: Besse Lenka , Besse Andrej , Stolze Sara C. , Sobh Amin , Zaal Esther A. , van der Ham Alwin J. , Ruiz Mario , Phuyal Santosh , Büchler Lorina , Sathianathan Marc , Florea Bogdan I. , Borén Jan , Ståhlman Marcus , Huber Julia , Bolomsky Arnold , Ludwig Heinz , Hannich J. Thomas , Loguinov Alex , Everts Bart , Berkers Celia R. , Pilon Marc , Farhan Hesso , Vulpe Christopher D. , Overkleeft Herman S. , Driessen Christoph
Published: April 2023

All identified binding partners of nelfinavir across multiple cell lines
Figure S1-S8 from Single-Cell RNA Sequencing Reveals the Cellular Origin and Evolution of Breast Cancer in BRCA1 Mutation Carriers
Authors: Hu Li , Su Liming , Cheng Hainan , Mo Chunling , Ouyang Tao , Li Jinfeng , Wang Tianfeng , Fan Zhaoqing , Fan Tie , Lin Benyao , Zhang Jianguang , Xie Yuntao
Published: April 2023

Figure S1. Known cell type specific makers used to define clusters; Figure S2. The aberrant proportions of epithelial cells in normal breast tissues from BRCA1 mutation carriers validated by immunohistochemistry staining and bulk RNA-seq data; Figure S3. Impaired differentiation processes of luminal and basal/myoepithelial lineages in normal breast tissue from BRCA1 mutation carriers; Figure S4. Identification and characterization of the tumor cells in BRCA1 mutation carriers; Figure S5. Upregulated and downregulated pathways in tumor cells compared with their putative cells of origin in each BRCA1 mutation carrier; Figure S6. Comparison of the expression levels of KRT14/17 in luminal progenitor cells in normal breast tissue between BRCA1 mutation carriers and non-carriers; Figure S7. Comparison of the basal/mesenchymal features of luminal progenitor cells in normal breast tissue between BRCA1 mutation carriers and non-carriers; Figure S8. Validation of the heterogeneity of basal/mesenchymal features in normal mammary tissue from BRCA1 mutation carriers by bulk RNA-seq
Supplementary Data from Susceptibility-Associated Genetic Variation in NEDD9 Contributes to Prostate Cancer Initiation and Progression
Authors: Han Dong , Owiredu Jude N. , Healy Bridget M. , Li Muqing , Labaf Maryam , Steinfeld Jocelyn S. , Patalano Susan , Gao Shuai , Liu Mingyu , Macoska Jill A. , Zarringhalam Kourosh , Siegfried Kellee R. , Yuan Xin , Rebbeck Timothy R. , Cai Changmeng
Published: April 2023

This document contains supplementary Figure 1-6
Supplementary Movie S1A from Treatment with HIV-Protease Inhibitor Nelfinavir Identifies Membrane Lipid Composition and Fluidity as a Therapeutic Target in Advanced Multiple Myeloma
Authors: Besse Lenka , Besse Andrej , Stolze Sara C. , Sobh Amin , Zaal Esther A. , van der Ham Alwin J. , Ruiz Mario , Phuyal Santosh , Büchler Lorina , Sathianathan Marc , Florea Bogdan I. , Borén Jan , Ståhlman Marcus , Huber Julia , Bolomsky Arnold , Ludwig Heinz , Hannich J. Thomas , Loguinov Alex , Everts Bart , Berkers Celia R. , Pilon Marc , Farhan Hesso , Vulpe Christopher D. , Overkleeft Herman S. , Driessen Christoph
Published: April 2023

Control cells, treated only with biotin
Supplementary Data from Germline and Somatic Genetic Variants in the p53 Pathway Interact to Affect Cancer Risk, Progression, and Drug Response
Authors: Zhang Ping , Kitchen-Smith Isaac , Xiong Lingyun , Stracquadanio Giovanni , Brown Katherine , Richter Philipp H. , Wallace Marsha D. , Bond Elisabeth , Sahgal Natasha , Moore Samantha , Nornes Svanhild , De Val Sarah , Surakhy Mirvat , Sims David , Wang Xuting , Bell Douglas A. , Zeron-Medina Jorge , Jiang Yanyan , Ryan Anderson J. , Selfe Joanna L. , Shipley Janet , Kar Siddhartha , Pharoah Paul D. , Loveday Chey , Jansen Rick , Grochola Lukasz F. , Palles Claire , Protheroe Andrew , Millar Val , Ebner Daniel V. , Pagadala Meghana , Blagden Sarah P. , Maughan Timothy S. , Domingo Enric , Tomlinson Ian , Turnbull Clare , Carter Hannah , Bond Gareth L.
Published: April 2023

Supplementary tables S1-S8
Figures 1-3 from Targeting Notch Inhibitors to the Myeloma Bone Marrow Niche Decreases Tumor Growth and Bone Destruction without Gut Toxicity
Authors: Sabol Hayley M. , Ferrari Adam J. , Adhikari Manish , Amorim Tânia , McAndrews Kevin , Anderson Judith , Vigolo Michele , Lehal Rajwinder , Cregor Meloney , Khan Sharmin , Cuevas Pedro L. , Helms Jill A. , Kurihara Noriyoshi , Srinivasan Venkat , Ebetino Frank H. , Boeckman Robert K. , Roodman G. David , Bellido Teresita , Delgado-Calle Jesus
Published: April 2023

Supplementary figures 1, 2, and 3
Supplementary Data File S4 from Targeting the HuR Oncogenic Role with a New Class of Cytoplasmic Dimerization Inhibitors
Authors: Filippova Natalia , Yang Xiuhua , Ananthan Subramaniam , Calano Jennifer , Pathak Vibha , Bratton Larry , Vekariya Rakesh H. , Zhang Sixue , Ofori Edward , Hayward Emily N. , Namkoong David , Crossman David K. , Crowley Michael R. , King Peter H. , Mobley James , Nabors Louis B.
Published: April 2023

File (samples Report Nabors 061019-proteomics) provides proteomic data for neurospheres treated with SRI-42127 versus control for Fig. S13.
Supplementary Data File S2 from Targeting the HuR Oncogenic Role with a New Class of Cytoplasmic Dimerization Inhibitors
Authors: Filippova Natalia , Yang Xiuhua , Ananthan Subramaniam , Calano Jennifer , Pathak Vibha , Bratton Larry , Vekariya Rakesh H. , Zhang Sixue , Ofori Edward , Hayward Emily N. , Namkoong David , Crossman David K. , Crowley Michael R. , King Peter H. , Mobley James , Nabors Louis B.
Published: April 2023

File (tmp-LBN-Inhibitor vs DMSO DESeq2 annotated results with normalized counts) provides RNA-Seq annotated data for Fig. 6 and Table 1, which illustrate transcriptome analysis for PDGx neurospheres treated with SRI-42127 compound versus control.
Supplementary Table from ATR/ATM-Mediated Phosphorylation of BRCA1 T1394 Promotes Homologous Recombinational Repair and G2–M Checkpoint Maintenance
Authors: Foo Tzeh K. , Vincelli Gabriele , Huselid Eric , Her Joonyoung , Zheng Haiyan , Simhadri Srilatha , Wang Meiling , Huo Yanying , Li Tao , Yu Xiaochun , Li Hong , Zhao Weixing , Bunting Samuel F. , Xia Bing
Published: April 2023

Table S1
Supplementary Methods from ATR/ATM-Mediated Phosphorylation of BRCA1 T1394 Promotes Homologous Recombinational Repair and G2–M Checkpoint Maintenance
Authors: Foo Tzeh K. , Vincelli Gabriele , Huselid Eric , Her Joonyoung , Zheng Haiyan , Simhadri Srilatha , Wang Meiling , Huo Yanying , Li Tao , Yu Xiaochun , Li Hong , Zhao Weixing , Bunting Samuel F. , Xia Bing
Published: April 2023

Materials and Methods for supplementary data.
Supplementary Figure S5 from α1-Acid Glycoprotein Enhances the Immunosuppressive and Protumor Functions of Tumor-Associated Macrophages
Authors: Matsusaka Kotaro , Fujiwara Yukio , Pan Cheng , Esumi Shigeyuki , Saito Yoichi , Bi Jing , Nakamura Yuka , Mukunoki Ayumi , Takeo Toru , Nakagata Naomi , Yoshii Daiki , Fukuda Ryo , Nagasaki Taisei , Tanaka Ryusei , Komori Hisakazu , Maeda Hitoshi , Watanabe Hiroshi , Tamada Koji , Komohara Yoshihiro , Maruyama Toru
Published: April 2023

Effects of GROα and CXCL8 on STAT3 activation in tumor cells, and the effect of AGP on tumor proliferation in tumor cells. Several tumor cells were incubated with GROα (1 ng/mL) or CXCL8 (1 ng/mL) for 24 h, followed by the determination of p-STAT3, STAT3, and β-actin expression by western blot analysis (A). Several human tumor cells were incubated with AGP (1 mg/mL) (NCI-H358, n=4 per group; SK-MEL-28, n=4 per group; 786-O, n=4 per group; ES2, n=3 per group; SBC3, n=3 per group; and HepG2, n=4 per group) for 24 h, followed by the determination of tumor proliferation by Cell Counting Kit-8 (B). The experiments were repeated three times with nearly identical results.
Figure S6 from Metabolic Enzyme DLST Promotes Tumor Aggression and Reveals a Vulnerability to OXPHOS Inhibition in High-Risk Neuroblastoma
Authors: Anderson Nicole M. , Qin Xiaodan , Finan Jennifer M. , Lam Andrew , Athoe Jacob , Missiaen Rindert , Skuli Nicolas , Kennedy Annie , Saini Amandeep S. , Tao Ting , Zhu Shizhen , Nissim Itzhak , Look A. Thomas , Qing Guoliang , Simon M. Celeste , Feng Hui
Published: April 2023

Sup. Figure 6