bluuebunny/crossref_metadata_2025 huggingface dataset:
Data from Diet-Associated Inflammation Modulates Inflammation and WNT Signaling in the Rectal Mucosa, and the Response to Supplementation with Dietary Fiber
Authors: Malcomson Fiona C. , Willis Naomi D. , McCallum Iain , Xie Long , Shivappa Nitin , Wirth Michael D. , Hébert James R. , Kocaadam-Bozkurt Betul , Özturan-Sirin Aycil , Kelly Seamus B. , Bradburn D. Michael , Belshaw Nigel J. , Johnson Ian T. , Mathers John C.
Published: April 2023

Abstract
Inflammation drives colorectal cancer development, and colorectal cancer risk is influenced by dietary factors, including dietary fiber. Hyperactive WNT signaling occurs in colorectal cancer and may regulate inflammation. This study investigated (i) relationships between the inflammatory potential of diet, assessed using the Energy-adjusted Dietary Inflammatory Index (E-DII), and markers of WNT signaling, and (ii) whether DII status modulated the response to supplementation with two types of dietary fiber. Seventy-five healthy participants were supplemented with resistant starch and/or polydextrose (PD) or placebo for 50 days. Rectal biopsies were collected before and after intervention and used to assess WNT pathway gene expression and crypt cell proliferation. E-DII scores were calculated from food frequency questionnaire data. High-sensitivity C-reactive protein (hsCRP) and fecal calprotectin concentrations were quantified. hsCRP concentration was significantly greater in participants with higher E-DII scores [least square means (LSM) 4.7 vs. 2.4 mg/L, P = 0.03]. Baseline E-DII score correlated with FOSL1 (β = 0.503, P = 0.003) and WNT11 (β = 0.472, P = 0.006) expression, after adjusting for age, gender, body mass index, endoscopy procedure, and smoking status. WNT11 expression was more than 2-fold greater in individuals with higher E-DII scores (LSM 0.131 vs. 0.059, P = 0.002). Baseline E-DII modulated the effects of PD supplementation on FOSL1 expression (P = 0.04). More proinflammatory diets were associated with altered WNT signaling and appeared to modulate the effects of PD supplementation on expression of FOSL1. This is the first study to investigate relationships between the E-DII and molecular markers of WNT signaling in rectal tissue of healthy individuals.

Prevention Relevance: Our finding that more inflammatory dietary components may impact large bowel health through effects on a well-recognized pathway involved in cancer development will strengthen the evidence base for dietary advice to help prevent bowel cancer.
Data from Losartan and Vitamin D Inhibit Colonic Tumor Development in a Conditional Apc-Deleted Mouse Model of Sporadic Colon Cancer
Authors: Dougherty Urszula , Mustafi Reba , Haider Haider I. , Khalil Abdurahman , Souris Jeffrey S. , Joseph Loren , Hart John , Konda Vani J. , Zhang Wei , Pekow Joel , Li Yan Chun , Bissonnette Marc
Published: April 2023

Abstract
Colorectal cancer is a leading cause of cancer deaths. The renin-angiotensin system (RAS) is upregulated in colorectal cancer, and epidemiologic studies suggest RAS inhibitors reduce cancer risk. Because vitamin D (VD) receptor negatively regulates renin, we examined anticancer efficacy of VD and losartan (L), an angiotensin receptor blocker. Control Apc+/LoxP mice and tumor-forming Apc+/LoxP Cdx2P-Cre mice were randomized to unsupplemented Western diet (UN), or diets supplemented with VD, L, or VD+L, the latter to assess additive or synergistic effects. At 6 months, mice were killed. Plasma Ca2+, 25(OH)D3, 1α, 25(OH)2D3, renin, and angiotensin II (Ang II) were quantified. Colonic transcripts were assessed by qPCR and proteins by immunostaining and blotting. Cancer incidence and tumor burden were significantly lower in Cre+ VD and Cre+ L, but not in the Cre+ VD+L group. In Apc+/LoxP mice, VD increased plasma 1,25(OH)2D3 and colonic VDR. In Apc+/LoxP-Cdx2P-Cre mice, plasma renin and Ang II, and colonic tumor AT1, AT2, and Cyp27B1 were increased and VDR downregulated. L increased, whereas VD decreased plasma renin and Ang II in Cre+ mice. VD or L inhibited tumor development, while exerting differential effects on plasma VD metabolites and RAS components. We speculate that AT1 is critical for tumor development, whereas RAS suppression plays a key role in VD chemoprevention. When combined with L, VD no longer increases active VD and colonic VDR in Cre- mice nor suppresses renin and Ang II in Cre+ mice, likely contributing to lack of chemopreventive efficacy of the combination.
Data from Identification of a Human Airway Epithelial Cell Subpopulation with Altered Biophysical, Molecular, and Metastatic Properties
Authors: Pagano Paul C. , Tran Linh M. , Bendris Nawal , O'Byrne Sean , Tse Henry T. , Sharma Shivani , Hoech Jonathan W. , Park Stacy J. , Liclican Elvira L. , Jing Zhe , Li Rui , Krysan Kostyantyn , Paul Manash K. , Fontebasso Yari , Larsen Jill E. , Hakimi Shaina , Seki Atsuko , Fishbein Michael C. , Gimzewski James K. , Carlo Dino Di , Minna John D. , Walser Tonya C. , Dubinett Steven M.
Published: April 2023

Abstract
Lung cancers are documented to have remarkable intratumoral genetic heterogeneity. However, little is known about the heterogeneity of biophysical properties, such as cell motility, and its relationship to early disease pathogenesis and micrometastatic dissemination. In this study, we identified and selected a subpopulation of highly migratory premalignant airway epithelial cells that were observed to migrate through microscale constrictions at up to 100-fold the rate of the unselected immortalized epithelial cell lines. This enhanced migratory capacity was found to be Rac1-dependent and heritable, as evidenced by maintenance of the phenotype through multiple cell divisions continuing more than 8 weeks after selection. The morphology of this lung epithelial subpopulation was characterized by increased cell protrusion intensity. In a murine model of micrometastatic seeding and pulmonary colonization, the motility-selected premalignant cells exhibit both enhanced survival in short-term assays and enhanced outgrowth of premalignant lesions in longer-term assays, thus overcoming important aspects of “metastatic inefficiency.” Overall, our findings indicate that among immortalized premalignant airway epithelial cell lines, subpopulations with heritable motility-related biophysical properties exist, and these may explain micrometastatic seeding occurring early in the pathogenesis of lung cancer. Understanding, targeting, and preventing these critical biophysical traits and their underlying molecular mechanisms may provide a new approach to prevent metastatic behavior. Cancer Prev Res; 10(9); 514–24. ©2017 AACR.

See related editorial by Hynds and Janes, p. 491
Data from A Distinct Epidemiologic Pattern of Precancerous Lesions of Esophageal Squamous Cell Carcinoma in a High-risk Area of Huai'an, Jiangsu Province, China
Authors: Pan Da , Su Ming , Zhang Ting , Miao Caiyun , Fu Lingmeng , Yang Ligang , Song Guang , Raine Philip J. , Wang Shaokang , Sun Guiju
Published: April 2023

Abstract
Better understanding of esophageal precancerous lesions (EPL) can inform prevention strategies for esophageal squamous cell carcinoma (ESCC). Here, a cross-sectional epidemiologic study based on the Early Diagnosis and Early Treatment Project of Esophageal Cancer database from 2011 to 2017 was performed to fully investigate and characterize the epidemiology of EPL in rural Huai'an District. Data of 11,518 participants ages 35–75 years were collected through face-to-face interviews by questionnaire. Participants underwent a routine endoscopy examination, tissues were biopsied, and diagnosed according to the histologic criteria of dysplasia. Unconditional univariate and multivariate logistic regression analyses were performed to obtain crude and adjusted odds ratios and corresponding 95% confidence intervals, respectively. A total of 667 subjects were diagnosed with EPL. Factors associated with an increased risk of EPL included: drinking shallow well water and surface water, irregular diet, excessive smoking, exposure to secondhand smoke, consumption of corn, corn flour, pickled food, fried food, and hot food, and having a history of digestive system diseases. In addition, liquor use, but not other alcohol types, contributed to risk of EPL. Consumption of deep well water and vegetables, fruits, and animal livers were associated with lower EPL risk. This study suggested a completely distinct pattern that alcohol use plays only a minor role in EPL and excessive tobacco use shows a significant association in rural Huai'an District, while eating habits and environmental exposure may be the dominant factors. This work may be promising to provide scientific evidence to support primary prevention of ESCC in this region.
Data from Upper Gastrointestinal Cancer in China: Spatial Epidemiologic Evidence from Screening Areas
Authors: Li Peng , Jing Jing , Li Rui , Ge Miao , Jia Peng , Hu Wenbiao , Qi Xin , Wei Wen-Qiang , Zhuang Guihua
Published: April 2023

Abstract
Upper gastrointestinal cancer (UGIC) including esophageal cancer and gastric cancer, which has been a significant burden in China. Few studies have explored the spatial pattern and association of incidence and mortality using nationwide data. This study aims to explore the spatial pattern and association of incidence and mortality between esophageal cancer and gastric cancer, and identify high-risk areas of the cancers to provide scientific evidence for tailoring endoscopic screening programs. We collected UGIC data in 2014 from a National Cancer Report, and then adopted methods of correlation analysis and spatial statistics to identify high-risk areas on the cancers and to explore the pattern. The results show a spatial autocorrelation on the spatial distribution of incidence and mortality of esophageal and gastric cancers, and the relative risks were from 2.52 (95% CI (confidence interval), 2.37–2.67; P < 0.001) to 3.80 (95% CI, 3.46–4.18; P < 0.001) in primary risk areas, respectively. Moreover, esophageal cancer shows an upward and then downward trend from west to east, and from south to north, yet gastric cancer exhibits an upward and then downward trend only from south to north. This study indicates habitants in overlapping risk areas have heavier cancer burdens, and suggests esophageal cancer and gastric cancer have a significant correlation. Therefore, more endoscopic screening attention should focus on overlapping risk areas.
Data from Simultaneous Measurement of 92 Serum Protein Biomarkers for the Development of a Multiprotein Classifier for Ovarian Cancer Detection
Authors: Skubitz Amy P.N. , Boylan Kristin L.M. , Geschwind Kate , Cao Qing , Starr Timothy K. , Geller Melissa A. , Celestino Joseph , Bast Robert C. , Lu Karen H. , Koopmeiners Joseph S.
Published: April 2023

Abstract
The best known ovarian cancer biomarker, CA125, is neither adequately sensitive nor specific for screening the general population. By using a combination of proteins for screening, it may be possible to increase the sensitivity and specificity over CA125 alone. In this study, we used Proseek Multiplex Oncology II plates to simultaneously measure the expression of 92 cancer-related proteins in serum using proximity extension assays. This technology combines the sensitivity of the PCR with the specificity of antibody-based detection methods, allowing multiplex biomarker detection and high-throughput quantification. We analyzed 1 μL of sera from each of 61 women with ovarian cancer and compared the values obtained with those from 88 age-matched healthy women. Principle component analysis and unsupervised hierarchical clustering separated the ovarian cancer patients from the healthy, with minimal misclassification. Data from the Proseek plates for CA125 levels exhibited a strong correlation with clinical values for CA125. We identified 52 proteins that differed significantly (P < 0.006) between ovarian cancer and healthy samples, several of which are novel serum biomarkers for ovarian cancer. In total, 40 proteins had an estimated area under the ROC curve of 0.70 or greater, suggesting their potential to serve as biomarkers for ovarian cancer. CA125 alone achieved a sensitivity of 93.4% at a specificity of 98%. By adding the Oncology II values for five proteins to CA125 in a multiprotein classifier, we increased the assay sensitivity to 98.4% at a specificity of 98%, thereby improving the sensitivity and specificity of CA125 alone.
Data from Unconjugated Bilirubin Is a Novel Prognostic Biomarker for Nasopharyngeal Carcinoma and Inhibits Its Metastasis via Antioxidation Activity
Authors: Deng Cheng-Cheng , Xu Miao , Li Jing , Luo Xiao-Lin , Zhu Yu-Jia , Jiang Rou , Zhang Meng-Xia , Lei Jin-Ju , Lian Yi-Fan , Zou Xiong , You Rui , Chen Li-Zhen , Feng Qi-Sheng , Bei Jin-Xin , Chen Ming-Yuan , Zeng Yi-Xin
Published: April 2023

Abstract
Distant metastasis is the most common cause of treatment failure and mortality in nasopharyngeal carcinoma (NPC) patients. Thus, it is important to understand the mechanism of NPC metastasis and identify reliable prognostic factors. In this study, we investigated the prognostic value of unconjugated bilirubin (UCB), which was previously considered a byproduct of heme catabolism, in NPC patients and examined the effects of UCB on NPC metastasis. The receiver operating characteristic analysis–generated UCB cutoff point for DMFS was 9.7 μmol/L. We found that higher UCB levels were significantly associated with favorable distant metastasis-free survival (DMFS, 93.3% vs. 84.2%, P < 0.001) in NPC patients and was an independent predictor for DMFS (HR, 0.416; 95% confidence interval, 0.280–0.618; P < 0.001). We next found that UCB treatment impaired the invasion capability of NPC cells and potently inhibited lung metastasis of NPC cells in nude mice. Further investigation showed that UCB inhibited reactive oxygen species production, which is involved in the repression of ERK1/2 activation and matrix metalloproteinase-2 (MMP-2) expression. Moreover, lower levels of ERK1/2 phosphorylation and MMP-2 expression were observed in the NPC lung metastases of nude mice administered UCB. Taken together, our results indicate that UCB is a significantly favorable factor for DMFS in NPC patients and may play an important role in NPC chemoprevention. Cancer Prev Res; 9(2); 180–8. ©2015 AACR.
Data from Fluvastatin Inhibits HMG-CoA Reductase and Prevents Non–Small Cell Lung Carcinogenesis
Authors: Zhang Tianshun , Bai Ruihua , Wang Qiushi , Wang Keke , Li Xiang , Liu Kangdong , Ryu Joohyun , Wang Ting , Chang Xiaoyu , Ma Weiya , Bode Ann M. , Xia Qingxin , Song Yongping , Dong Zigang
Published: April 2023

Abstract
Lung cancer is the leading cause of cancer-related death worldwide. However, promising agents for lung cancer prevention are still very limited. Identification of preventive targets and novel effective preventive agents is urgently needed for clinical applications. In this study, we found that fluvastatin targeted 3-Hydroxy-3-methylglutaryl coenzyme A (HMG-CoA) reductase (HMGCR), which a rate-limiting enzyme in the mevalonate pathway, and inhibited non–small cell lung cancer (NSCLC) tumorigenesis. Initially, we demonstrated that HMGCR is overexpressed in human lung adenocarcinoma tissues compared with normal tissues. Knockdown of HMGCR in NSCLC cells attenuated growth and induced apoptosis in vitro and in vivo. Furthermore, we found that fluvastatin, an inhibitor of HMGCR, suppressed NSCLC cell growth and induced apoptosis. Intriguingly, fluvastastin functions by inhibiting the HMGCR-driven Braf/MEK/ERK1/2 and Akt signaling pathways. Notably, fluvastatin attenuated tumor growth in 4-(methylnitrosamino)-1-(3-pyridyl)-1-butanone (NNK)-induced lung tumorigenesis and in a patient-derived xenograft lung tumor model. Overall, our findings suggest that fluvastatin might be promising chemopreventive or potential therapeutic drug against NSCLC tumorigenesis, providing hope for rapid clinical translation.
Data from Diallyl Disulfide (DADS), a Constituent of Garlic, Inactivates NF-κB and Prevents Colitis-Induced Colorectal Cancer by Inhibiting GSK-3β
Authors: Saud Shakir M. , Li Weidong , Gray Zane , Matter Matthias S. , Colburn Nancy H. , Young Matthew R. , Kim Young S.
Published: April 2023

Abstract
There is a strong belief that garlic has medicinal properties and may even reduce the risk of developing certain cancers including those of the gastrointestinal tract. The chemopreventive effects of garlic may be attributed to the anti-inflammatory properties of the sulfur-containing constituents of garlic, which includes diallyl disulfide (DADS). Here, we demonstrate that DADS prevented colorectal tumorigenesis in a mouse model of colitis-induced colorectal cancer. Supplementation with 85 ppm of DADS (60 mg daily human equivalent dose) in the diet of FVB/N mice treated with chemical carcinogen azoxymethane (AOM) and colonic irritant dextran sodium sulfate (DSS) resulted in the reduction in tumor incidence, tumor number, and tumor burden by 21.54%, 47.3%, and 66.4%, respectively. Further analysis revealed that mice fed the DADS-supplemented diet resolved the initial DSS-induced inflammation faster than those on the control diet, preventing prolonged inflammation and cellular transformation. Subsequent mechanistic studies in vitro suggest that DADS chemopreventive effects are mediated through NF-κB signaling. When SW480 colorectal cancer cells were treated with DADS, NF-κB nuclear localization and activity were diminished. Interestingly, NF-κB suppression was found to be dependent on DADS inhibition of GSK-3β, a positive regulator of NF-κB. Inhibition of GSK-3β and loss of nuclear NF-κB activity were also observed in vivo in AOM/DSS-treated mice fed a diet supplemented with 85 ppm DADS. Our results indicate that DADS can prevent tumorigenesis by suppressing inflammation, a process largely involving GSK-3β inhibition and consequential reduction in NF-κB nuclear localization. Cancer Prev Res; 9(7); 607–15. ©2016 AACR.
Data from Isorhapontigenin (ISO) Inhibits Invasive Bladder Cancer Formation In Vivo and Human Bladder Cancer Invasion In Vitro by Targeting STAT1/FOXO1 Axis
Authors: Jiang Guosong , Wu Amy D. , Huang Chao , Gu Jiayan , Zhang Liping , Huang Haishan , Liao Xin , Li Jingxia , Zhang Dongyun , Zeng Xingruo , Jin Honglei , Huang Haojie , Huang Chuanshu
Published: April 2023

Abstract
Although our most recent studies have identified Isorhapontigenin (ISO), a novel derivative of stilbene that isolated from a Chinese herb Gnetum cleistostachyum, for its inhibition of human bladder cancer growth, nothing is known whether ISO possesses an inhibitory effect on bladder cancer invasion. Thus, we addressed this important question in current study and discovered that ISO treatment could inhibit mouse-invasive bladder cancer development following bladder carcinogen N-butyl-N-(4-hydroxybutyl) nitrosamine (BBN) exposure in vivo. We also found that ISO suppressed human bladder cancer cell invasion accompanied by upregulation of the forkhead box class O 1 (FOXO1) mRNA transcription in vitro. Accordingly, FOXO1 was profoundly downregulated in human bladder cancer tissues and was negatively correlated with bladder cancer invasion. Forced expression of FOXO1 specifically suppressed high-grade human bladder cancer cell invasion, whereas knockdown of FOXO1 promoted noninvasive bladder cancer cells becoming invasive bladder cancer cells. Moreover, knockout of FOXO1 significantly increased bladder cancer cell invasion and abolished the ISO inhibition of invasion in human bladder cancer cells. Further studies showed that the inhibition of Signal transducer and activator of transcription 1 (STAT1) phosphorylation at Tyr701 was crucial for ISO upregulation of FOXO1 transcription. Furthermore, this study revealed that metalloproteinase-2 (MMP-2) was a FOXO1 downstream effector, which was also supported by data obtained from mouse model of ISO inhibition BBN-induced mouse-invasive bladder cancer formation. These findings not only provide a novel insight into the understanding of mechanism of bladder cancer's propensity to invasion, but also identify a new role and mechanisms underlying the natural compound ISO that specifically suppresses such bladder cancer invasion through targeting the STAT1–FOXO1–MMP-2 axis. Cancer Prev Res; 9(7); 567–80. ©2016 AACR.
Supplementary Table 3 from A Molecularly Annotated Platform of Patient-Derived Xenografts (“Xenopatients”) Identifies HER2 as an Effective Therapeutic Target in Cetuximab-Resistant Colorectal Cancer
Authors: Bertotti Andrea , Migliardi Giorgia , Galimi Francesco , Sassi Francesco , Torti Davide , Isella Claudio , Corà Davide , Di Nicolantonio Federica , Buscarino Michela , Petti Consalvo , Ribero Dario , Russolillo Nadia , Muratore Andrea , Massucco Paolo , Pisacane Alberto , Molinaro Luca , Valtorta Emanuele , Sartore-Bianchi Andrea , Risio Mauro , Capussotti Lorenzo , Gambacorta Marcello , Siena Salvatore , Medico Enzo , Sapino Anna , Marsoni Silvia , Comoglio Paolo M. , Bardelli Alberto , Trusolino Livio
Published: April 2023

PDF file - 29K
Supplementary Table S3 from Modulation of Activation-Loop Phosphorylation by JAK Inhibitors Is Binding Mode Dependent
Authors: Andraos Rita , Qian Zhiyan , Bonenfant Débora , Rubert Joëlle , Vangrevelinghe Eric , Scheufler Clemens , Marque Fanny , Régnier Catherine H. , De Pover Alain , Ryckelynck Hugues , Bhagwat Neha , Koppikar Priya , Goel Aviva , Wyder Lorenza , Tavares Gisele , Baffert Fabienne , Pissot-Soldermann Carole , Manley Paul W. , Gaul Christoph , Voshol Hans , Levine Ross L. , Sellers William R. , Hofmann Francesco , Radimerski Thomas
Published: April 2023

PDF file - 72K, X-ray crystallographic data collection and refinement statistics. Diffraction data were collected at the Swiss Light Source (beamline X10SA). Raw diffraction data were processed and scaled with the XDS/XSCALE software package. The program BUSTER was used for structure refinement using all diffraction data between 20 and 1.34 Angstr�m resolution, excluding 5% of the data for cross-validation.
Supplementary Table 2 from A Molecularly Annotated Platform of Patient-Derived Xenografts (“Xenopatients”) Identifies HER2 as an Effective Therapeutic Target in Cetuximab-Resistant Colorectal Cancer
Authors: Bertotti Andrea , Migliardi Giorgia , Galimi Francesco , Sassi Francesco , Torti Davide , Isella Claudio , Corà Davide , Di Nicolantonio Federica , Buscarino Michela , Petti Consalvo , Ribero Dario , Russolillo Nadia , Muratore Andrea , Massucco Paolo , Pisacane Alberto , Molinaro Luca , Valtorta Emanuele , Sartore-Bianchi Andrea , Risio Mauro , Capussotti Lorenzo , Gambacorta Marcello , Siena Salvatore , Medico Enzo , Sapino Anna , Marsoni Silvia , Comoglio Paolo M. , Bardelli Alberto , Trusolino Livio
Published: April 2023

PDF file - 29K
Supplementary Figure 5 from A Molecularly Annotated Platform of Patient-Derived Xenografts (“Xenopatients”) Identifies HER2 as an Effective Therapeutic Target in Cetuximab-Resistant Colorectal Cancer
Authors: Bertotti Andrea , Migliardi Giorgia , Galimi Francesco , Sassi Francesco , Torti Davide , Isella Claudio , Corà Davide , Di Nicolantonio Federica , Buscarino Michela , Petti Consalvo , Ribero Dario , Russolillo Nadia , Muratore Andrea , Massucco Paolo , Pisacane Alberto , Molinaro Luca , Valtorta Emanuele , Sartore-Bianchi Andrea , Risio Mauro , Capussotti Lorenzo , Gambacorta Marcello , Siena Salvatore , Medico Enzo , Sapino Anna , Marsoni Silvia , Comoglio Paolo M. , Bardelli Alberto , Trusolino Livio
Published: April 2023

PDF file - 186K
Supplementary Figure 3 from A Molecularly Annotated Platform of Patient-Derived Xenografts (“Xenopatients”) Identifies HER2 as an Effective Therapeutic Target in Cetuximab-Resistant Colorectal Cancer
Authors: Bertotti Andrea , Migliardi Giorgia , Galimi Francesco , Sassi Francesco , Torti Davide , Isella Claudio , Corà Davide , Di Nicolantonio Federica , Buscarino Michela , Petti Consalvo , Ribero Dario , Russolillo Nadia , Muratore Andrea , Massucco Paolo , Pisacane Alberto , Molinaro Luca , Valtorta Emanuele , Sartore-Bianchi Andrea , Risio Mauro , Capussotti Lorenzo , Gambacorta Marcello , Siena Salvatore , Medico Enzo , Sapino Anna , Marsoni Silvia , Comoglio Paolo M. , Bardelli Alberto , Trusolino Livio
Published: April 2023

PDF file - 172K
Supplementary Figure 2 from A Molecularly Annotated Platform of Patient-Derived Xenografts (“Xenopatients”) Identifies HER2 as an Effective Therapeutic Target in Cetuximab-Resistant Colorectal Cancer
Authors: Bertotti Andrea , Migliardi Giorgia , Galimi Francesco , Sassi Francesco , Torti Davide , Isella Claudio , Corà Davide , Di Nicolantonio Federica , Buscarino Michela , Petti Consalvo , Ribero Dario , Russolillo Nadia , Muratore Andrea , Massucco Paolo , Pisacane Alberto , Molinaro Luca , Valtorta Emanuele , Sartore-Bianchi Andrea , Risio Mauro , Capussotti Lorenzo , Gambacorta Marcello , Siena Salvatore , Medico Enzo , Sapino Anna , Marsoni Silvia , Comoglio Paolo M. , Bardelli Alberto , Trusolino Livio
Published: April 2023

PDF file - 158K
Supplementary Figure 1 from Evolutionary Pathways in BRCA1-Associated Breast Tumors
Authors: Martins Filipe C. , De Subhajyoti , Almendro Vanessa , Gönen Mithat , Park So Yeon , Blum Joanne L. , Herlihy William , Ethington Gabrielle , Schnitt Stuart J. , Tung Nadine , Garber Judy E. , Fetten Katharina , Michor Franziska , Polyak Kornelia
Published: April 2023

PDF file - 171K, Optimization and validation of the techniques used.
Supplementary Methods from A Drug Repositioning Approach Identifies Tricyclic Antidepressants as Inhibitors of Small Cell Lung Cancer and Other Neuroendocrine Tumors
Authors: Jahchan Nadine S. , Dudley Joel T. , Mazur Pawel K. , Flores Natasha , Yang Dian , Palmerton Alec , Zmoos Anne-Flore , Vaka Dedeepya , Tran Kim Q.T. , Zhou Margaret , Krasinska Karolina , Riess Jonathan W. , Neal Joel W. , Khatri Purvesh , Park Kwon S. , Butte Atul J. , Sage Julien
Published: April 2023

- PDF file 114K, This document provides detailed information on some of the methods employed in our manuscript
Supplementary Figure 6 from VEGF/Neuropilin-2 Regulation of Bmi-1 and Consequent Repression of IGF-IR Define a Novel Mechanism of Aggressive Prostate Cancer
Authors: Goel Hira Lal , Chang Cheng , Pursell Bryan , Leav Irwin , Lyle Stephen , Xi Hualin Simon , Hsieh Chung-Cheng , Adisetiyo Helty , Roy-Burman Pradip , Coleman Ilsa M. , Nelson Peter S. , Vessella Robert L. , Davis Roger J. , Plymate Stephen R. , Mercurio Arthur M.
Published: April 2023

PDF file - 1.8MB, Evaluation of insulin signaling in prostate tumors and cell lines as a function of NRP2 expression and role of VEGF in regulation of Bmi-1
Supplementary Figure 4 from VEGF/Neuropilin-2 Regulation of Bmi-1 and Consequent Repression of IGF-IR Define a Novel Mechanism of Aggressive Prostate Cancer
Authors: Goel Hira Lal , Chang Cheng , Pursell Bryan , Leav Irwin , Lyle Stephen , Xi Hualin Simon , Hsieh Chung-Cheng , Adisetiyo Helty , Roy-Burman Pradip , Coleman Ilsa M. , Nelson Peter S. , Vessella Robert L. , Davis Roger J. , Plymate Stephen R. , Mercurio Arthur M.
Published: April 2023

PDF file - 454K, Role of JNK/c-Jun in regulating NRP2 expression in prostate carcinoma cells
Supplementary Figure 3 from VEGF/Neuropilin-2 Regulation of Bmi-1 and Consequent Repression of IGF-IR Define a Novel Mechanism of Aggressive Prostate Cancer
Authors: Goel Hira Lal , Chang Cheng , Pursell Bryan , Leav Irwin , Lyle Stephen , Xi Hualin Simon , Hsieh Chung-Cheng , Adisetiyo Helty , Roy-Burman Pradip , Coleman Ilsa M. , Nelson Peter S. , Vessella Robert L. , Davis Roger J. , Plymate Stephen R. , Mercurio Arthur M.
Published: April 2023

PDF file - 582K, Analysis of NRP2, IGF-1R and p-AKT in consecutive sections of prostate cancer specimens
Supplementary Figure 2 from VEGF/Neuropilin-2 Regulation of Bmi-1 and Consequent Repression of IGF-IR Define a Novel Mechanism of Aggressive Prostate Cancer
Authors: Goel Hira Lal , Chang Cheng , Pursell Bryan , Leav Irwin , Lyle Stephen , Xi Hualin Simon , Hsieh Chung-Cheng , Adisetiyo Helty , Roy-Burman Pradip , Coleman Ilsa M. , Nelson Peter S. , Vessella Robert L. , Davis Roger J. , Plymate Stephen R. , Mercurio Arthur M.
Published: April 2023

PDF file - 2.5MB, Correlation of NRP2 expression in prostate cancer with clinical parameters and expression of VEGFRs
Supplementary Figure S4 from A Drug Repositioning Approach Identifies Tricyclic Antidepressants as Inhibitors of Small Cell Lung Cancer and Other Neuroendocrine Tumors
Authors: Jahchan Nadine S. , Dudley Joel T. , Mazur Pawel K. , Flores Natasha , Yang Dian , Palmerton Alec , Zmoos Anne-Flore , Vaka Dedeepya , Tran Kim Q.T. , Zhou Margaret , Krasinska Karolina , Riess Jonathan W. , Neal Joel W. , Khatri Purvesh , Park Kwon S. , Butte Atul J. , Sage Julien
Published: April 2023

- PDF file 745K, Expression levels of the GPCRs that are the targets of tricyclic antidepressants
Supplementary Figure S3 from A Drug Repositioning Approach Identifies Tricyclic Antidepressants as Inhibitors of Small Cell Lung Cancer and Other Neuroendocrine Tumors
Authors: Jahchan Nadine S. , Dudley Joel T. , Mazur Pawel K. , Flores Natasha , Yang Dian , Palmerton Alec , Zmoos Anne-Flore , Vaka Dedeepya , Tran Kim Q.T. , Zhou Margaret , Krasinska Karolina , Riess Jonathan W. , Neal Joel W. , Khatri Purvesh , Park Kwon S. , Butte Atul J. , Sage Julien
Published: April 2023

- PDF file 2897K, Molecular mechanisms leading to the cell death induced by the drugs
Video 4 from DEAR1 Is a Chromosome 1p35 Tumor Suppressor and Master Regulator of TGF-β–Driven Epithelial–Mesenchymal Transition
Authors: Chen Nanyue , Balasenthil Seetharaman , Reuther Jacquelyn , Frayna Aileen , Wang Ying , Chandler Dawn S. , Abruzzo Lynne V. , Rashid Asif , Rodriguez Jaime , Lozano Guillermina , Cao Yu , Lokken Erica , Chen Jinyun , Frazier Marsha L. , Sahin Aysegul A. , Wistuba Ignacio I. , Sen Subrata , Lott Steven T. , Killary Ann McNeill
Published: April 2023

Video 4 - MP4 file 4141K, DEAR1-shRNA clone with 2ng/ml TGF-beta
Supplementary Figure S1 from A Drug Repositioning Approach Identifies Tricyclic Antidepressants as Inhibitors of Small Cell Lung Cancer and Other Neuroendocrine Tumors
Authors: Jahchan Nadine S. , Dudley Joel T. , Mazur Pawel K. , Flores Natasha , Yang Dian , Palmerton Alec , Zmoos Anne-Flore , Vaka Dedeepya , Tran Kim Q.T. , Zhou Margaret , Krasinska Karolina , Riess Jonathan W. , Neal Joel W. , Khatri Purvesh , Park Kwon S. , Butte Atul J. , Sage Julien
Published: April 2023

- PDF file 2159K, Inhibitory effects of imipramine, promethazine, and bepridil on SCLC cells in culture
Video 3 from DEAR1 Is a Chromosome 1p35 Tumor Suppressor and Master Regulator of TGF-β–Driven Epithelial–Mesenchymal Transition
Authors: Chen Nanyue , Balasenthil Seetharaman , Reuther Jacquelyn , Frayna Aileen , Wang Ying , Chandler Dawn S. , Abruzzo Lynne V. , Rashid Asif , Rodriguez Jaime , Lozano Guillermina , Cao Yu , Lokken Erica , Chen Jinyun , Frazier Marsha L. , Sahin Aysegul A. , Wistuba Ignacio I. , Sen Subrata , Lott Steven T. , Killary Ann McNeill
Published: April 2023

Video 3 - MP4 file 3352K, DEAR1-shRNA clone without TGF-beta
Video 2 from DEAR1 Is a Chromosome 1p35 Tumor Suppressor and Master Regulator of TGF-β–Driven Epithelial–Mesenchymal Transition
Authors: Chen Nanyue , Balasenthil Seetharaman , Reuther Jacquelyn , Frayna Aileen , Wang Ying , Chandler Dawn S. , Abruzzo Lynne V. , Rashid Asif , Rodriguez Jaime , Lozano Guillermina , Cao Yu , Lokken Erica , Chen Jinyun , Frazier Marsha L. , Sahin Aysegul A. , Wistuba Ignacio I. , Sen Subrata , Lott Steven T. , Killary Ann McNeill
Published: April 2023

Video 2 - MP4 file 3383K, Control shRNA clone with 2ng/ml TGF-beta
Supplementary Figure Legends 1-5, Table Legends 1-2 from A Central Role for RAF→MEK→ERK Signaling in the Genesis of Pancreatic Ductal Adenocarcinoma
Authors: Collisson Eric A. , Trejo Christy L. , Silva Jillian M. , Gu Shenda , Korkola James E. , Heiser Laura M. , Charles Roch-Philippe , Rabinovich Brian A. , Hann Byron , Dankort David , Spellman Paul T. , Phillips Wayne A. , Gray Joe W. , McMahon Martin
Published: April 2023

PDF file - 55K
Supplementary Video 6 from IDO Is a Nodal Pathogenic Driver of Lung Cancer and Metastasis Development
Authors: Smith Courtney , Chang Mee Young , Parker Katherine H. , Beury Daniel W. , DuHadaway James B. , Flick Hollie E. , Boulden Janette , Sutanto-Ward Erika , Soler Alejandro Peralta , Laury-Kleintop Lisa D. , Mandik-Nayak Laura , Metz Richard , Ostrand-Rosenberg Suzanne , Prendergast George C. , Muller Alexander J.
Published: April 2023

AVI file - 2.3MB, 360 degree views of the lungs of an Ido1-/- KrasG12D mouse 24 weeks following Ad-cre virus infection. Tumor/vasculature is colored red (exterior)/orange (interior) with surrounding lung tissue colored translucent green
Supplementary Table 7 from TYK2–STAT1–BCL2 Pathway Dependence in T-cell Acute Lymphoblastic Leukemia
Authors: Sanda Takaomi , Tyner Jeffrey W. , Gutierrez Alejandro , Ngo Vu N. , Glover Jason , Chang Bill H. , Yost Arla , Ma Wenxue , Fleischman Angela G. , Zhou Wenjun , Yang Yandan , Kleppe Maria , Ahn Yebin , Tatarek Jessica , Kelliher Michelle A. , Neuberg Donna S. , Levine Ross L. , Moriggl Richard , Müller Mathias , Gray Nathanael S. , Jamieson Catriona H.M. , Weng Andrew P. , Staudt Louis M. , Druker Brian J. , Look A. Thomas
Published: April 2023

XLSX file - 61K, Gene expression profile after TYK2 and STAT1 knockdown in JURKAT cells. See separate file.
Supplementary Methods from The Outgrowth of Micrometastases Is Enabled by the Formation of Filopodium-like Protrusions
Authors: Shibue Tsukasa , Brooks Mary W. , Inan M. Fatih , Reinhardt Ferenc , Weinberg Robert A.
Published: April 2023

PDF file - 216K
Supplementary Figure 12 from Kinetics of Inhibitor Cycling Underlie Therapeutic Disparities between EGFR-Driven Lung and Brain Cancers
Authors: Barkovich Krister J. , Hariono Sujatmi , Garske Adam L. , Zhang Jie , Blair Jimmy A. , Fan Qi-Wen , Shokat Kevan M. , Nicolaides Theodore , Weiss William A.
Published: April 2023

PDF file - 67K
Supplementary Table S1 from Genomic Characterization of Brain Metastases Reveals Branched Evolution and Potential Therapeutic Targets
Authors: Brastianos Priscilla K. , Carter Scott L. , Santagata Sandro , Cahill Daniel P. , Taylor-Weiner Amaro , Jones Robert T. , Van Allen Eliezer M. , Lawrence Michael S. , Horowitz Peleg M. , Cibulskis Kristian , Ligon Keith L. , Tabernero Josep , Seoane Joan , Martinez-Saez Elena , Curry William T. , Dunn Ian F. , Paek Sun Ha , Park Sung-Hye , McKenna Aaron , Chevalier Aaron , Rosenberg Mara , Barker Frederick G. , Gill Corey M. , Van Hummelen Paul , Thorner Aaron R. , Johnson Bruce E. , Hoang Mai P. , Choueiri Toni K. , Signoretti Sabina , Sougnez Carrie , Rabin Michael S. , Lin Nancy U. , Winer Eric P. , Stemmer-Rachamimov Anat , Meyerson Matthew , Garraway Levi , Gabriel Stacey , Lander Eric S. , Beroukhim Rameen , Batchelor Tracy T. , Baselga José , Louis David N. , Getz Gad , Hahn William C.
Published: April 2023

Clinical characteristics of the 86 patients.
Supplementary Table 2 from Evolution of DNA Methylation Is Linked to Genetic Aberrations in Chronic Lymphocytic Leukemia
Authors: Oakes Christopher C. , Claus Rainer , Gu Lei , Assenov Yassen , Hüllein Jennifer , Zucknick Manuela , Bieg Matthias , Brocks David , Bogatyrova Olga , Schmidt Christopher R. , Rassenti Laura , Kipps Thomas J. , Mertens Daniel , Lichter Peter , Döhner Hartmut , Stilgenbauer Stephan , Byrd John C. , Zenz Thorsten , Plass Christoph
Published: April 2023

XLSX file 15K, Supplementary table 2: Primer sequences used for targeted bisulfite-sequencing
Supplementary Table S1 from Clinical Acquired Resistance to RAF Inhibitor Combinations in BRAF-Mutant Colorectal Cancer through MAPK Pathway Alterations
Authors: Ahronian Leanne G. , Sennott Erin M. , Van Allen Eliezer M. , Wagle Nikhil , Kwak Eunice L. , Faris Jason E. , Godfrey Jason T. , Nishimura Koki , Lynch Kerry D. , Mermel Craig H. , Lockerman Elizabeth L. , Kalsy Anuj , Gurski Joseph M. , Bahl Samira , Anderka Kristin , Green Lisa M. , Lennon Niall J. , Huynh Tiffany G. , Mino-Kenudson Mari , Getz Gad , Dias-Santagata Dora , Iafrate A. John , Engelman Jeffrey A. , Garraway Levi A. , Corcoran Ryan B.
Published: April 2023

Supplementary Table S1. Patient characteristics and MAPK pathway reactivating resistance mechanisms of BRAF-mutant CRC patients with clinical acquired resistance to RAF/EGFR or RAF/MEK inhibitor combinations.
Supplementary Figure S4 from Clinical Acquired Resistance to RAF Inhibitor Combinations in BRAF-Mutant Colorectal Cancer through MAPK Pathway Alterations
Authors: Ahronian Leanne G. , Sennott Erin M. , Van Allen Eliezer M. , Wagle Nikhil , Kwak Eunice L. , Faris Jason E. , Godfrey Jason T. , Nishimura Koki , Lynch Kerry D. , Mermel Craig H. , Lockerman Elizabeth L. , Kalsy Anuj , Gurski Joseph M. , Bahl Samira , Anderka Kristin , Green Lisa M. , Lennon Niall J. , Huynh Tiffany G. , Mino-Kenudson Mari , Getz Gad , Dias-Santagata Dora , Iafrate A. John , Engelman Jeffrey A. , Garraway Levi A. , Corcoran Ryan B.
Published: April 2023

Supplementary Figure S4. Wild-type KRAS overexpression drives resistance to RAF inhibitor combinations.
Supplementary Fig. 5 from Essential Role of the Linear Ubiquitin Chain Assembly Complex in Lymphoma Revealed by Rare Germline Polymorphisms
Authors: Yang Yibin , Schmitz Roland , Mitala Joseph , Whiting Amanda , Xiao Wenming , Ceribelli Michele , Wright George W. , Zhao Hong , Yang Yandan , Xu Weihong , Rosenwald Andreas , Ott German , Gascoyne Randy D. , Connors Joseph M. , Rimsza Lisa M. , Campo Elias , Jaffe Elaine S. , Delabie Jan , Smeland Erlend B. , Braziel Rita M. , Tubbs Raymond R. , Cook James R. , Weisenburger Dennis D. , Chan Wing C. , Wiestner Adrian , Kruhlak Michael J. , Iwai Kazuhiro , Bernal Federico , Staudt Louis M.
Published: April 2023

PDF file 132K, Specificity of RNF31 stapled peptides in ABC DLBCL
Supplemental Figure legends, Methods, Table S1 from Epithelial-to-Mesenchymal Transition Rewires the Molecular Path to PI3K-Dependent Proliferation
Authors: Salt Megan B. , Bandyopadhyay Sourav , McCormick Frank
Published: April 2023

PDF file 125K, Supplemental Figure legends, Methods and Table S1
Figure S4 from Epithelial-to-Mesenchymal Transition Rewires the Molecular Path to PI3K-Dependent Proliferation
Authors: Salt Megan B. , Bandyopadhyay Sourav , McCormick Frank
Published: April 2023

PDF 963K, Proliferation of epithelial cells after knockdown of TGF-alpha/EREG and ErbB3 in serum and in mesenchymal cells after EGFR expression in H358-TwistER cells
Supplementary Table S2 from FGFR-Mediated Reactivation of MAPK Signaling Attenuates Antitumor Effects of Imatinib in Gastrointestinal Stromal Tumors
Authors: Li Fang , Huynh Hung , Li Xiaoyan , Ruddy David A. , Wang Youzhen , Ong Richard , Chow Pierce , Qiu Shumei , Tam Angela , Rakiec Daniel P. , Schlegel Robert , Monahan John E. , Huang Alan
Published: April 2023

Annotation of cell lines.
Supplementary Table S1 from FGFR-Mediated Reactivation of MAPK Signaling Attenuates Antitumor Effects of Imatinib in Gastrointestinal Stromal Tumors
Authors: Li Fang , Huynh Hung , Li Xiaoyan , Ruddy David A. , Wang Youzhen , Ong Richard , Chow Pierce , Qiu Shumei , Tam Angela , Rakiec Daniel P. , Schlegel Robert , Monahan John E. , Huang Alan
Published: April 2023

Annotation of primary tumor tissues.
Supplementary Figure 8 from Obligate Progression Precedes Lung Adenocarcinoma Dissemination
Authors: Caswell Deborah R. , Chuang Chen-Hua , Yang Dian , Chiou Shin-Heng , Cheemalavagu Shashank , Kim-Kiselak Caroline , Connolly Andrew , Winslow Monte M.
Published: April 2023

PDF file 242K, Nkx2-1neg areas have a selective advantage in primary TMet tumors with significantly higher levels of proliferation and insignificant changes in levels of cell death
Supplementary Figure 6 from Obligate Progression Precedes Lung Adenocarcinoma Dissemination
Authors: Caswell Deborah R. , Chuang Chen-Hua , Yang Dian , Chiou Shin-Heng , Cheemalavagu Shashank , Kim-Kiselak Caroline , Connolly Andrew , Winslow Monte M.
Published: April 2023

PDF file 105K, Generation and validation of the multicolor Motley reporter allele
Supplementary Tables 2 - 6 from Next-Generation Sequencing of Stage IV Squamous Cell Lung Cancers Reveals an Association of PI3K Aberrations and Evidence of Clonal Heterogeneity in Patients with Brain Metastases
Authors: Paik Paul K. , Shen Ronglai , Won Helen , Rekhtman Natasha , Wang Lu , Sima Camelia S. , Arora Arshi , Seshan Venkatraman , Ladanyi Marc , Berger Michael F. , Kris Mark G.
Published: April 2023

Supplementary Table 2. Frequency of selected genes in SQ-MAP vs. TCGA. Supplementary Table 3. Clinical characteristics of patients with resected brain metastases. Supplementary Table 4. Genes exhibiting clonal evolution from primary lung tumors and matched brain metastases. Data from PP1 and PP4 are shown. Supplementary Table 5. List of 279 oncogenes and tumor suppressors covered by the Integrated Mutation Profiling of Actionable Cancer Targets (IMPACT) assay. Supplementary Table 6. Computational estimates of tumor purity (fractional) from whole-exome sequencing data for the paired lung primary and brain metastasis tumor samples compared to pathological evaluation of tumor purity in the same samples.
Supplementary Figure 4 from Obligate Progression Precedes Lung Adenocarcinoma Dissemination
Authors: Caswell Deborah R. , Chuang Chen-Hua , Yang Dian , Chiou Shin-Heng , Cheemalavagu Shashank , Kim-Kiselak Caroline , Connolly Andrew , Winslow Monte M.
Published: April 2023

PDF file 91K, KPT-Late mice have a diverse numbers of disseminated tumor cells
Supplementary Figure 3 from Obligate Progression Precedes Lung Adenocarcinoma Dissemination
Authors: Caswell Deborah R. , Chuang Chen-Hua , Yang Dian , Chiou Shin-Heng , Cheemalavagu Shashank , Kim-Kiselak Caroline , Connolly Andrew , Winslow Monte M.
Published: April 2023

PDF file 91K, KPT-Late mice with lung tumor initiated with adenoviral or lentiviral Cre vectors have similar progression and metastasis
Supplementary Figures from Integrative Genomic Characterization of Oral Squamous Cell Carcinoma Identifies Frequent Somatic Drivers
Authors: Pickering Curtis R. , Zhang Jiexin , Yoo Suk Young , Bengtsson Linnea , Moorthy Shhyam , Neskey David M. , Zhao Mei , Ortega Alves Marcus V. , Chang Kyle , Drummond Jennifer , Cortez Elsa , Xie Tong-xin , Zhang Di , Chung Woonbok , Issa Jean-Pierre J. , Zweidler-McKay Patrick A. , Wu Xifeng , El-Naggar Adel K. , Weinstein John N. , Wang Jing , Muzny Donna M. , Gibbs Richard A. , Wheeler David A. , Myers Jeffrey N. , Frederick Mitchell J.
Published: April 2023

Supplementary Figures PDF - file 648K, This file contains supplementary figures S1-S5. Figure S1 has additional copy number analysis. Figure S2 expands on the integration of gene expression and copy number analysis. Figures S3-S4 provide additional data on the function and mechanism of activated NOTCH1 expression in cell lines. Figure S5 shows inhibition of CASP8 promotes tumorigenesis
Supplementary Figure S4 from Mutant KRAS–Induced Expression of ICAM-1 in Pancreatic Acinar Cells Causes Attraction of Macrophages to Expedite the Formation of Precancerous Lesions
Authors: Liou Geou-Yarh , Döppler Heike , Necela Brian , Edenfield Brandy , Zhang Lizhi , Dawson David W. , Storz Peter
Published: April 2023

Supplementary Figure S4 shows controls for Figure 3A (A, B), data supporting Figure 3B (C), analysis of Raw264.7 cells for polarization markers (D), and controls for polarization of primary macrophages (E,F).
Supplementary Figure Legend from RapidCaP, a Novel GEM Model for Metastatic Prostate Cancer Analysis and Therapy, Reveals Myc as a Driver of Pten-Mutant Metastasis
Authors: Cho Hyejin , Herzka Tali , Zheng Wu , Qi Jun , Wilkinson John E. , Bradner James E. , Robinson Brian D. , Castillo-Martin Mireia , Cordon-Cardo Carlos , Trotman Lloyd C.
Published: April 2023

PDF file 94K, Cho et al Supplementary Figures S1-S8
Supplementary Figure 7 from RapidCaP, a Novel GEM Model for Metastatic Prostate Cancer Analysis and Therapy, Reveals Myc as a Driver of Pten-Mutant Metastasis
Authors: Cho Hyejin , Herzka Tali , Zheng Wu , Qi Jun , Wilkinson John E. , Bradner James E. , Robinson Brian D. , Castillo-Martin Mireia , Cordon-Cardo Carlos , Trotman Lloyd C.
Published: April 2023

PDF file 154K, Molecular and pathology analysis of prostate and its spread to other tissues
Supplementary Figure 4 from RapidCaP, a Novel GEM Model for Metastatic Prostate Cancer Analysis and Therapy, Reveals Myc as a Driver of Pten-Mutant Metastasis
Authors: Cho Hyejin , Herzka Tali , Zheng Wu , Qi Jun , Wilkinson John E. , Bradner James E. , Robinson Brian D. , Castillo-Martin Mireia , Cordon-Cardo Carlos , Trotman Lloyd C.
Published: April 2023

PDF file 199K, Analysis of metastatic prostate cancer in lung reveals the Akt-Myc switch
Supplementary Figure 2 from RapidCaP, a Novel GEM Model for Metastatic Prostate Cancer Analysis and Therapy, Reveals Myc as a Driver of Pten-Mutant Metastasis
Authors: Cho Hyejin , Herzka Tali , Zheng Wu , Qi Jun , Wilkinson John E. , Bradner James E. , Robinson Brian D. , Castillo-Martin Mireia , Cordon-Cardo Carlos , Trotman Lloyd C.
Published: April 2023

PDF file 87K, Typical example of a RapidCaP experiment showing disease progression over time in indicated genotypes
Supplementary Table 4 from Activating mTOR Mutations in a Patient with an Extraordinary Response on a Phase I Trial of Everolimus and Pazopanib
Authors: Wagle Nikhil , Grabiner Brian C. , Van Allen Eliezer M. , Hodis Eran , Jacobus Susanna , Supko Jeffrey G. , Stewart Michelle , Choueiri Toni K. , Gandhi Leena , Cleary James M. , Elfiky Aymen A. , Taplin Mary Ellen , Stack Edward C. , Signoretti Sabina , Loda Massimo , Shapiro Geoffrey I. , Sabatini David M. , Lander Eric S. , Gabriel Stacey B. , Kantoff Philip W. , Garraway Levi A. , Rosenberg Jonathan E.
Published: April 2023

XLSX file 451K, Somatic mutations identified by whole exome sequencing
Supplementary Table 3 from Inflammatory Myofibroblastic Tumors Harbor Multiple Potentially Actionable Kinase Fusions
Authors: Lovly Christine M. , Gupta Abha , Lipson Doron , Otto Geoff , Brennan Tina , Chung Catherine T. , Borinstein Scott C. , Ross Jeffrey S. , Stephens Philip J. , Miller Vincent A. , Coffin Cheryl M.
Published: April 2023

PDF file - 137KB, Summary of genomic coordinates for the kinase fusions identified in this study. The sample number is depicted in the far left column. For tumor samples in which a kinase fusion was identified, the genomic coordinates for of each of the fusion genes is indicated. There were no other recurrent alterations. *The FN1-ALK fusion was detected with RNA sequencing. #Sufficient material was available to verify these kinase fusions with RNA sequencing.
Supplementary Table 2 from Inflammatory Myofibroblastic Tumors Harbor Multiple Potentially Actionable Kinase Fusions
Authors: Lovly Christine M. , Gupta Abha , Lipson Doron , Otto Geoff , Brennan Tina , Chung Catherine T. , Borinstein Scott C. , Ross Jeffrey S. , Stephens Philip J. , Miller Vincent A. , Coffin Cheryl M.
Published: April 2023

PDF file - 53KB, FoundationOne panel. This targeted next generation sequencing platform evaluates for 3769 exons of 236 cancer genes and 47 introns of 19 commonly rearranged genes, including 8 tyrosine kinases.
Supplementary Table S3 from Activation of MET via Diverse Exon 14 Splicing Alterations Occurs in Multiple Tumor Types and Confers Clinical Sensitivity to MET Inhibitors
Authors: Frampton Garrett M. , Ali Siraj M. , Rosenzweig Mark , Chmielecki Juliann , Lu Xinyuan , Bauer Todd M. , Akimov Mikhail , Bufill Jose A. , Lee Carrie , Jentz David , Hoover Rick , Ou Sai-Hong Ignatius , Salgia Ravi , Brennan Tim , Chalmers Zachary R. , Jaeger Savina , Huang Alan , Elvin Julia A. , Erlich Rachel , Fichtenholtz Alex , Gowen Kyle A. , Greenbowe Joel , Johnson Adrienne , Khaira Depinder , McMahon Caitlin , Sanford Eric M. , Roels Steven , White Jared , Greshock Joel , Schlegel Robert , Lipson Doron , Yelensky Roman , Morosini Deborah , Ross Jeffrey S. , Collisson Eric , Peters Malte , Stephens Philip J. , Miller Vincent A.
Published: April 2023

Genomic alterations in lung adenocarcinoma displayed in Figure 2A.