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1,137 results on '"Wirtz, Denis"'

1. 3D genomic mapping reveals multifocality of human pancreatic precancers

Author

Braxton, Alicia M., Kiemen, Ashley L., Grahn, Mia P., Forjaz, André, Parksong, Jeeun, Mahesh Babu, Jaanvi, Lai, Jiaying, Zheng, Lily, Niknafs, Noushin, Jiang, Liping, Cheng, Haixia, Song, Qianqian, Reichel, Rebecca, Graham, Sarah, Damanakis, Alexander I., Fischer, Catherine G., Mou, Stephanie, Metz, Cameron, Granger, Julie, Liu, Xiao-Ding, Bachmann, Niklas, Zhu, Yutong, Liu, YunZhou, Almagro-Pérez, Cristina, Jiang, Ann Chenyu, Yoo, Jeonghyun, Kim, Bridgette, Du, Scott, Foster, Eli, Hsu, Jocelyn Y., Rivera, Paula Andreu, Chu, Linda C., Liu, Fengze, Fishman, Elliot K., Yuille, Alan, Roberts, Nicholas J., Thompson, Elizabeth D., Scharpf, Robert B., Cornish, Toby C., Jiao, Yuchen, Karchin, Rachel, Hruban, Ralph H., Wu, Pei-Hsun, Wirtz, Denis, and Wood, Laura D.

Published
2024
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4. PanIN or IPMN? Redefining Lesion Size in 3 Dimensions

Author

Kiemen, Ashley L., Dequiedt, Lucie, Shen, Yu, Zhu, Yutong, Matos-Romero, Valentina, Forjaz, André, Campbell, Kurtis, Dhana, Will, Cornish, Toby, Braxton, Alicia M., Wu, Pei-Hsun, Fishman, Elliot K., Wood, Laura D., Wirtz, Denis, and Hruban, Ralph H.

Published
2024
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5. Search for temporal cell segmentation robustness in phase-contrast microscopy videos

Author

Gómez-de-Mariscal, Estibaliz, Jayatilaka, Hasini, Çiçek, Özgün, Brox, Thomas, Wirtz, Denis, and Muñoz-Barrutia, Arrate

Subjects
Computer Science - Computer Vision and Pattern Recognition, Computer Science - Machine Learning, Electrical Engineering and Systems Science - Signal Processing, Quantitative Biology - Quantitative Methods
Abstract

Studying cell morphology changes in time is critical to understanding cell migration mechanisms. In this work, we present a deep learning-based workflow to segment cancer cells embedded in 3D collagen matrices and imaged with phase-contrast microscopy. Our approach uses transfer learning and recurrent convolutional long-short term memory units to exploit the temporal information from the past and provide a consistent segmentation result. Lastly, we propose a geometrical-characterization approach to studying cancer cell morphology. Our approach provides stable results in time, and it is robust to the different weight initialization or training data sampling. We introduce a new annotated dataset for 2D cell segmentation and tracking, and an open-source implementation to replicate the experiments or adapt them to new image processing problems.

Published
2021

6. PanIN and CAF transitions in pancreatic carcinogenesis revealed with spatial data integration

Author

Bell, Alexander T.F., Mitchell, Jacob T., Kiemen, Ashley L., Lyman, Melissa, Fujikura, Kohei, Lee, Jae W., Coyne, Erin, Shin, Sarah M., Nagaraj, Sushma, Deshpande, Atul, Wu, Pei-Hsun, Sidiropoulos, Dimitrios N., Erbe, Rossin, Stern, Jacob, Chan, Rena, Williams, Stephen, Chell, James M., Ciotti, Lauren, Zimmerman, Jacquelyn W., Wirtz, Denis, Ho, Won Jin, Zaidi, Neeha, Thompson, Elizabeth, Jaffee, Elizabeth M., Wood, Laura D., Fertig, Elana J., and Kagohara, Luciane T.

Published
2024
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11. YAP and TAZ regulate cell volume

Author

Perez-Gonzalez, Nicolas A, Rochman, Nash D, Yao, Kai, Tao, Jiaxiang, Le, Minh-Tam Tran, Flanary, Shannon, Sablich, Lucia, Toler, Ben, Crentsil, Eliana, Takaesu, Felipe, Lambrus, Bram, Huang, Jessie, Fu, Vivian, Chengappa, Pragati, Jones, Tia M, Holland, Andrew J, An, Steven, Wirtz, Denis, Petrie, Ryan J, Guan, Kun-Liang, and Sun, Sean X

Subjects
Biochemistry and Cell Biology, Biological Sciences, Aetiology, 1.1 Normal biological development and functioning, 2.1 Biological and endogenous factors, Underpinning research, Cell Cycle, Cell Cycle Proteins, Cell Size, Cells, Cultured, Cytoskeleton, HEK293 Cells, Humans, Trans-Activators, Transcription Factors, Transcriptional Coactivator with PDZ-Binding Motif Proteins, Medical and Health Sciences, Developmental Biology, Biological sciences, Biomedical and clinical sciences
Abstract

How mammalian cells regulate their physical size is currently poorly understood, in part due to the difficulty in accurately quantifying cell volume in a high-throughput manner. Here, using the fluorescence exclusion method, we demonstrate that the mechanosensitive transcriptional regulators YAP (Yes-associated protein) and TAZ (transcriptional coactivator with PDZ-binding motif) are regulators of single-cell volume. The role of YAP/TAZ in volume regulation must go beyond its influence on total cell cycle duration or cell shape to explain the observed changes in volume. Moreover, for our experimental conditions, volume regulation by YAP/TAZ is independent of mTOR. Instead, we find that YAP/TAZ directly impacts the cell division volume, and YAP is involved in regulating intracellular cytoplasmic pressure. Based on the idea that YAP/TAZ is a mechanosensor, we find that inhibiting myosin assembly and cell tension slows cell cycle progression from G1 to S. These results suggest that YAP/TAZ may be modulating cell volume in combination with cytoskeletal tension during cell cycle progression.

Published
2019

12. Multi-compartment tumor organoids

Author

Lee, Meng-Horng, Russo, Gabriella C., Rahmanto, Yohan Suryo, Du, Wenxuan, Crawford, Ashleigh J., Wu, Pei-Hsun, Gilkes, Daniele, Kiemen, Ashley, Miyamoto, Tsutomu, Yu, Yu, Habibi, Mehran, Shih, Ie-Ming, Wang, Tian-Li, and Wirtz, Denis

Published
2022
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15. FIGURE 5 from Small Extracellular Vesicles Promote Stiffness-mediated Metastasis

Author

Sneider, Alexandra, primary, Liu, Ying, primary, Starich, Bartholomew, primary, Du, Wenxuan, primary, Nair, Praful R., primary, Marar, Carolyn, primary, Faqih, Najwa, primary, Ciotti, Gabrielle E., primary, Kim, Joo Ho, primary, Krishnan, Sejal, primary, Ibrahim, Salma, primary, Igboko, Muna, primary, Locke, Alexus, primary, Lewis, Daniel M., primary, Hong, Hanna, primary, Karl, Michelle N., primary, Vij, Raghav, primary, Russo, Gabriella C., primary, Gómez-de-Mariscal, Estibaliz, primary, Habibi, Mehran, primary, Muñoz-Barrutia, Arrate, primary, Gu, Luo, primary, Eisinger-Mathason, T.S. Karin, primary, and Wirtz, Denis, primary

Published
2024
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16. Table S1 from Small Extracellular Vesicles Promote Stiffness-mediated Metastasis

Author

Sneider, Alexandra, primary, Liu, Ying, primary, Starich, Bartholomew, primary, Du, Wenxuan, primary, Nair, Praful R., primary, Marar, Carolyn, primary, Faqih, Najwa, primary, Ciotti, Gabrielle E., primary, Kim, Joo Ho, primary, Krishnan, Sejal, primary, Ibrahim, Salma, primary, Igboko, Muna, primary, Locke, Alexus, primary, Lewis, Daniel M., primary, Hong, Hanna, primary, Karl, Michelle N., primary, Vij, Raghav, primary, Russo, Gabriella C., primary, Gómez-de-Mariscal, Estibaliz, primary, Habibi, Mehran, primary, Muñoz-Barrutia, Arrate, primary, Gu, Luo, primary, Eisinger-Mathason, T.S. Karin, primary, and Wirtz, Denis, primary

Published
2024
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17. Figure S4 from Small Extracellular Vesicles Promote Stiffness-mediated Metastasis

Author

Sneider, Alexandra, primary, Liu, Ying, primary, Starich, Bartholomew, primary, Du, Wenxuan, primary, Nair, Praful R., primary, Marar, Carolyn, primary, Faqih, Najwa, primary, Ciotti, Gabrielle E., primary, Kim, Joo Ho, primary, Krishnan, Sejal, primary, Ibrahim, Salma, primary, Igboko, Muna, primary, Locke, Alexus, primary, Lewis, Daniel M., primary, Hong, Hanna, primary, Karl, Michelle N., primary, Vij, Raghav, primary, Russo, Gabriella C., primary, Gómez-de-Mariscal, Estibaliz, primary, Habibi, Mehran, primary, Muñoz-Barrutia, Arrate, primary, Gu, Luo, primary, Eisinger-Mathason, T.S. Karin, primary, and Wirtz, Denis, primary

Published
2024
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18. FIGURE 3 from Small Extracellular Vesicles Promote Stiffness-mediated Metastasis

Author

Sneider, Alexandra, primary, Liu, Ying, primary, Starich, Bartholomew, primary, Du, Wenxuan, primary, Nair, Praful R., primary, Marar, Carolyn, primary, Faqih, Najwa, primary, Ciotti, Gabrielle E., primary, Kim, Joo Ho, primary, Krishnan, Sejal, primary, Ibrahim, Salma, primary, Igboko, Muna, primary, Locke, Alexus, primary, Lewis, Daniel M., primary, Hong, Hanna, primary, Karl, Michelle N., primary, Vij, Raghav, primary, Russo, Gabriella C., primary, Gómez-de-Mariscal, Estibaliz, primary, Habibi, Mehran, primary, Muñoz-Barrutia, Arrate, primary, Gu, Luo, primary, Eisinger-Mathason, T.S. Karin, primary, and Wirtz, Denis, primary

Published
2024
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19. FIGURE 4 from Small Extracellular Vesicles Promote Stiffness-mediated Metastasis

Author

Sneider, Alexandra, primary, Liu, Ying, primary, Starich, Bartholomew, primary, Du, Wenxuan, primary, Nair, Praful R., primary, Marar, Carolyn, primary, Faqih, Najwa, primary, Ciotti, Gabrielle E., primary, Kim, Joo Ho, primary, Krishnan, Sejal, primary, Ibrahim, Salma, primary, Igboko, Muna, primary, Locke, Alexus, primary, Lewis, Daniel M., primary, Hong, Hanna, primary, Karl, Michelle N., primary, Vij, Raghav, primary, Russo, Gabriella C., primary, Gómez-de-Mariscal, Estibaliz, primary, Habibi, Mehran, primary, Muñoz-Barrutia, Arrate, primary, Gu, Luo, primary, Eisinger-Mathason, T.S. Karin, primary, and Wirtz, Denis, primary

Published
2024
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20. Supplementary Methods from Small Extracellular Vesicles Promote Stiffness-mediated Metastasis

Author

Sneider, Alexandra, primary, Liu, Ying, primary, Starich, Bartholomew, primary, Du, Wenxuan, primary, Nair, Praful R., primary, Marar, Carolyn, primary, Faqih, Najwa, primary, Ciotti, Gabrielle E., primary, Kim, Joo Ho, primary, Krishnan, Sejal, primary, Ibrahim, Salma, primary, Igboko, Muna, primary, Locke, Alexus, primary, Lewis, Daniel M., primary, Hong, Hanna, primary, Karl, Michelle N., primary, Vij, Raghav, primary, Russo, Gabriella C., primary, Gómez-de-Mariscal, Estibaliz, primary, Habibi, Mehran, primary, Muñoz-Barrutia, Arrate, primary, Gu, Luo, primary, Eisinger-Mathason, T.S. Karin, primary, and Wirtz, Denis, primary

Published
2024
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21. FIGURE 2 from Small Extracellular Vesicles Promote Stiffness-mediated Metastasis

Author

Sneider, Alexandra, primary, Liu, Ying, primary, Starich, Bartholomew, primary, Du, Wenxuan, primary, Nair, Praful R., primary, Marar, Carolyn, primary, Faqih, Najwa, primary, Ciotti, Gabrielle E., primary, Kim, Joo Ho, primary, Krishnan, Sejal, primary, Ibrahim, Salma, primary, Igboko, Muna, primary, Locke, Alexus, primary, Lewis, Daniel M., primary, Hong, Hanna, primary, Karl, Michelle N., primary, Vij, Raghav, primary, Russo, Gabriella C., primary, Gómez-de-Mariscal, Estibaliz, primary, Habibi, Mehran, primary, Muñoz-Barrutia, Arrate, primary, Gu, Luo, primary, Eisinger-Mathason, T.S. Karin, primary, and Wirtz, Denis, primary

Published
2024
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22. FIGURE 1 from Small Extracellular Vesicles Promote Stiffness-mediated Metastasis

Author

Sneider, Alexandra, primary, Liu, Ying, primary, Starich, Bartholomew, primary, Du, Wenxuan, primary, Nair, Praful R., primary, Marar, Carolyn, primary, Faqih, Najwa, primary, Ciotti, Gabrielle E., primary, Kim, Joo Ho, primary, Krishnan, Sejal, primary, Ibrahim, Salma, primary, Igboko, Muna, primary, Locke, Alexus, primary, Lewis, Daniel M., primary, Hong, Hanna, primary, Karl, Michelle N., primary, Vij, Raghav, primary, Russo, Gabriella C., primary, Gómez-de-Mariscal, Estibaliz, primary, Habibi, Mehran, primary, Muñoz-Barrutia, Arrate, primary, Gu, Luo, primary, Eisinger-Mathason, T.S. Karin, primary, and Wirtz, Denis, primary

Published
2024
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23. Data from Small Extracellular Vesicles Promote Stiffness-mediated Metastasis

Author

Sneider, Alexandra, primary, Liu, Ying, primary, Starich, Bartholomew, primary, Du, Wenxuan, primary, Nair, Praful R., primary, Marar, Carolyn, primary, Faqih, Najwa, primary, Ciotti, Gabrielle E., primary, Kim, Joo Ho, primary, Krishnan, Sejal, primary, Ibrahim, Salma, primary, Igboko, Muna, primary, Locke, Alexus, primary, Lewis, Daniel M., primary, Hong, Hanna, primary, Karl, Michelle N., primary, Vij, Raghav, primary, Russo, Gabriella C., primary, Gómez-de-Mariscal, Estibaliz, primary, Habibi, Mehran, primary, Muñoz-Barrutia, Arrate, primary, Gu, Luo, primary, Eisinger-Mathason, T.S. Karin, primary, and Wirtz, Denis, primary

Published
2024
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24. Small extracellular vesicles promote stiffness-mediated metastasis

Author

Sneider, Alexandra, primary, Liu, Ying, additional, Starich, Bartholomew, additional, Du, Wenxuan, additional, Nair, Praful R, additional, Marar, Carolyn, additional, Faqih, Najwa, additional, Ciotti, Gabrielle E., additional, Kim, Joo Ho, additional, Krishnan, Sejal, additional, Ibrahim, Salma, additional, Igboko, Muna, additional, Locke, Alexus, additional, Lewis, Daniel M, additional, Hong, Hanna, additional, Karl, Michelle N., additional, Vij, Raghav, additional, Russo, Gabriella C, additional, Gómez-de-Mariscal, Estibaliz, additional, Habibi, Mehran, additional, Muñoz-Barrutia, Arrate, additional, Gu, Luo, additional, Eisinger-Mathason, T.S. Karin, additional, and Wirtz, Denis, additional

Published
2024
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31. Tissue Fixation | HubMAP | JHU-TMC v2

Author

Sang Han, Kyu, primary, Wu, Pei-Hsun, additional, Sunshine, Joel, additional, Kiemen, Ashley, additional, James, Miklhail, additional, Reddy, Sashank, additional, and Wirtz, Denis, additional

Published
2024
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32. The Microanatomy of Human Skin in Aging

Author

Han, Kyu Sang, primary, Sander, Inbal, additional, Kumer, Jacqueline, additional, Resnick, Eric, additional, Booth, Clare, additional, Starich, Bartholomew, additional, Walston, Jeremy, additional, Kiemen, Ashley, additional, Reddy, Sashank, additional, Joshu, Corrine, additional, Sunshine, Joel, additional, Wirtz, Denis, additional, and Wu, Pei-Hsun, additional

Published
2024
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34. Local, Sustained, and Targeted Co-Delivery of MEK Inhibitor and Doxorubicin Inhibits Tumor Progression in E-Cadherin-Positive Breast Cancer.

Author

Kuhn, Paul M., Russo, Gabriella C., Crawford, Ashleigh J., Venkatraman, Aditya, Yang, Nanlan, Starich, Bartholomew A., Schneiderman, Zachary, Wu, Pei-Hsun, Vo, Thi, Wirtz, Denis, and Kokkoli, Efrosini

Subjects
TRIPLE-negative breast cancer, BREAST cancer, PEPTIDES, LIPOSOMES, CANCER invasiveness, DOXORUBICIN
Abstract

Effectively utilizing MEK inhibitors in the clinic remains challenging due to off-target toxicity and lack of predictive biomarkers. Recent findings propose E-cadherin, a breast cancer diagnostic indicator, as a predictor of MEK inhibitor success. To address MEK inhibitor toxicity, traditional methodologies have systemically delivered nanoparticles, which require frequent, high-dose injections. Here, we present a different approach, employing a thermosensitive, biodegradable hydrogel with functionalized liposomes for local, sustained release of MEK inhibitor PD0325901 and doxorubicin. The poly(δ-valerolactone-co-lactide)-b-poly(ethylene-glycol)-b-poly(δ-valerolactone-co-lactide) triblock co-polymer gels at physiological temperature and has an optimal degradation time in vivo. Liposomes were functionalized with PR_b, a biomimetic peptide targeting the α5β1 integrin receptor, which is overexpressed in E-cadherin-positive triple negative breast cancer (TNBC). In various TNBC models, the hydrogel-liposome system delivered via local injection reduced tumor progression and improved animal survival without toxic side effects. Our work presents the first demonstration of local, sustained delivery of MEK inhibitors to E-cadherin-positive tumors alongside traditional chemotherapeutics, offering a safe and promising therapeutic strategy. [ABSTRACT FROM AUTHOR]

Published
2024
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45. Substrate stiffness modulates the emergence and magnitude of senescence phenotypes

Author

Starich, Bartholomew, primary, Yang, Fan, additional, Tanrioven, Derin, additional, Kung, Heng-Chung, additional, Baek, Joanne, additional, Nair, Praful R., additional, Kamat, Pratik, additional, Macaluso, Nico, additional, Eoh, Joon, additional, Han, Kyu Sang, additional, Gu, Luo, additional, Sun, Sean, additional, Wu, Pei-Hsun, additional, Wirtz, Denis, additional, and Phillip, Jude M., additional

Published
2024
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46. A disrupted compartment boundary underlies abnormal cardiac patterning and congenital heart defects

Author

Kathiriya, Irfan S., primary, Dominguez, Martin H., additional, Rao, Kavitha S., additional, Muncie-Vasic, Jonathon M., additional, Devine, W. Patrick, additional, Hu, Kevin M., additional, Hota, Swetansu K., additional, Garay, Bayardo I., additional, Quintero, Diego, additional, Goyal, Piyush, additional, Matthews, Megan N., additional, Thomas, Reuben, additional, Sukonnik, Tatyana, additional, Perez, Dario Miguel-, additional, Winchester, Sarah, additional, Brower, Emily F., additional, Forjaz, André, additional, Wu, Pei-Hsun, additional, Wirtz, Denis, additional, Kiemen, Ashley L., additional, and Bruneau, Benoit G., additional

Published
2024
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48. Abstract B032: Spatial proteomics and transcriptomics reveal early immune cell organization in human pancreatic intraepithelial neoplasia

Author

Lyman, Melissa R., primary, Mitchell, Jacob T., additional, Kagohara, Luciane T., additional, Huff, Amanda L., additional, Haldar, Daniel, additional, Shin, Sarah, additional, Guinn, Samantha, additional, Barrett, Benjamin, additional, Longway, Gabriella, additional, Hernandez, Alexei, additional, Coyne, Erin, additional, Yuan, Xuan, additional, Andaloori, Lalitya, additional, Lai, Jiaying, additional, Liu, YunZhou, additional, Karchin, Rachel, additional, Gupta, Anuj, additional, Kiemen, Ashley, additional, Forjaz, André, additional, Wirtz, Denis, additional, Wu, Pei-Hsun, additional, Deshpande, Atul, additional, Armstrong, Todd, additional, Azad, Nilofer S., additional, Thompson, Elizabeth, additional, Anders, Robert, additional, Ho, Won Jin, additional, Jaffee, Elizabeth, additional, Fertig, Elana, additional, and Zaidi, Neeha, additional

Published
2024
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49. Abstract B107: Spatial transcriptomics analysis of PanIN reveals loss of pro-inflammatory signaling and the presence of cancer-associated fibroblasts

Author

Bell, Alexander T.F., primary, Mitchell, Jacob T., additional, Kiemen, Ashley L., additional, Lyman, Melissa, additional, Fujikura, Kohei, additional, Lee, Jae W., additional, Coyne, Erin, additional, Shin, Sarah M., additional, Wu, Pei-Hsun, additional, Zimmerman, Jacquelyn W., additional, Wirtz, Denis, additional, Ho, Won J., additional, Zaidi, Neeha, additional, Thompson, Elizabeth, additional, Jaffee, Elizabeth M., additional, Wood, Laura D., additional, Fertig, Elana J., additional, and Kagohara, Luciane T., additional

Published
2024
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50. Magnetic Resonance Imaging–Based Assessment of Pancreatic Fat Strongly Correlates With Histology-Based Assessment of Pancreas Composition

Author

Kiemen, Ashley L., primary, Dbouk, Mohamad, additional, Diwan, Elizabeth Abou, additional, Forjaz, André, additional, Dequiedt, Lucie, additional, Baghdadi, Azarakhsh, additional, Madani, Seyedeh Panid, additional, Grahn, Mia P., additional, Jones, Craig, additional, Vedula, Swaroop, additional, Wu, PeiHsun, additional, Wirtz, Denis, additional, Kern, Scott, additional, Goggins, Michael, additional, Hruban, Ralph H., additional, Kamel, Ihab R., additional, and Canto, Marcia Irene, additional

Published
2024
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