Detection and characterization of lung cancer using cell-free DNA fragmentomes
Mathios, Dimitrios, Johansen, Jakob Sidenius, Cristiano, Stephen, Medina, Jamie E., Phallen, Jillian, Larsen, Klaus R., Bruhm, Daniel C., Niknafs, Noushin, Ferreira, Leonardo, Adleff, Vilmos, Chiao, Jia Yuee, Leal, Alessandro, Noe, Michael, White, James R., Arun, Adith S., Hruban, Carolyn, Annapragada, Akshaya V., Jensen, Sarah Østrup, Ørntoft, Mai-Britt Worm, Madsen, Anders Husted, Carvalho, Beatriz, de Wit, Meike, Carey, Jacob, Dracopoli, Nicholas C., Maddala, Tara, Fang, Kenneth C., Hartman, Anne-Renee, Forde, Patrick M., Anagnostou, Valsamo, Brahmer, Julie R., Fijneman, Remond J. A., Nielsen, Hans Jørgen, Meijer, Gerrit A., Andersen, Claus Lindbjerg, Mellemgaard, Anders, Bojesen, Stig E., Scharpf, Robert B., Velculescu, Victor E.
Published in Nature communications (20.08.2021)
Published in Nature communications (20.08.2021)
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Dynamics of Tumor and Immune Responses during Immune Checkpoint Blockade in Non-Small Cell Lung Cancer
Anagnostou, Valsamo, Forde, Patrick M, White, James R, Niknafs, Noushin, Hruban, Carolyn, Naidoo, Jarushka, Marrone, Kristen, Sivakumar, I K Ashok, Bruhm, Daniel C, Rosner, Samuel, Phallen, Jillian, Leal, Alessandro, Adleff, Vilmos, Smith, Kellie N, Cottrell, Tricia R, Rhymee, Lamia, Palsgrove, Doreen N, Hann, Christine L, Levy, Benjamin, Feliciano, Josephine, Georgiades, Christos, Verde, Franco, Illei, Peter, Li, Qing Kay, Gabrielson, Edward, Brock, Malcolm V, Isbell, James M, Sauter, Jennifer L, Taube, Janis, Scharpf, Robert B, Karchin, Rachel, Pardoll, Drew M, Chaft, Jamie E, Hellmann, Matthew D, Brahmer, Julie R, Velculescu, Victor E
Published in Cancer research (Chicago, Ill.) (15.03.2019)
Published in Cancer research (Chicago, Ill.) (15.03.2019)
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White blood cell and cell-free DNA analyses for detection of residual disease in gastric cancer
Leal, Alessandro, van Grieken, Nicole C. T., Palsgrove, Doreen N., Phallen, Jillian, Medina, Jamie E., Hruban, Carolyn, Broeckaert, Mark A. M., Anagnostou, Valsamo, Adleff, Vilmos, Bruhm, Daniel C., Canzoniero, Jenna V., Fiksel, Jacob, Nordsmark, Marianne, Warmerdam, Fabienne A. R. M., Verheul, Henk M. W., van Spronsen, Dick Johan, Beerepoot, Laurens V., Geenen, Maud M., Portielje, Johanneke E. A., Jansen, Edwin P. M., van Sandick, Johanna, Meershoek-Klein Kranenbarg, Elma, van Laarhoven, Hanneke W. M., van der Peet, Donald L., van de Velde, Cornelis J. H., Verheij, Marcel, Fijneman, Remond, Scharpf, Robert B., Meijer, Gerrit A., Cats, Annemieke, Velculescu, Victor E.
Published in Nature communications (27.01.2020)
Published in Nature communications (27.01.2020)
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Early Noninvasive Detection of Response to Targeted Therapy in Non-Small Cell Lung Cancer
Phallen, Jillian, Leal, Alessandro, Woodward, Brian D, Forde, Patrick M, Naidoo, Jarushka, Marrone, Kristen A, Brahmer, Julie R, Fiksel, Jacob, Medina, Jamie E, Cristiano, Stephen, Palsgrove, Doreen N, Gocke, Christopher D, Bruhm, Daniel C, Keshavarzian, Parissa, Adleff, Vilmos, Weihe, Elizabeth, Anagnostou, Valsamo, Scharpf, Robert B, Velculescu, Victor E, Husain, Hatim
Published in Cancer research (Chicago, Ill.) (15.03.2019)
Published in Cancer research (Chicago, Ill.) (15.03.2019)
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Journal Article
Single-molecule genome-wide mutation profiles of cell-free DNA for non-invasive detection of cancer
Bruhm, Daniel C., Mathios, Dimitrios, Foda, Zachariah H., Annapragada, Akshaya V., Medina, Jamie E., Adleff, Vilmos, Chiao, Elaine Jiayuee, Ferreira, Leonardo, Cristiano, Stephen, White, James R., Mazzilli, Sarah A., Billatos, Ehab, Spira, Avrum, Zaidi, Ali H., Mueller, Jeffrey, Kim, Amy K., Anagnostou, Valsamo, Phallen, Jillian, Scharpf, Robert B., Velculescu, Victor E.
Published in Nature genetics (01.08.2023)
Published in Nature genetics (01.08.2023)
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DNA methylation and gene expression as determinants of genome-wide cell-free DNA fragmentation
Noë, Michaël, Mathios, Dimitrios, Annapragada, Akshaya V., Koul, Shashikant, Foda, Zacharia H., Medina, Jamie E., Cristiano, Stephen, Cherry, Christopher, Bruhm, Daniel C., Niknafs, Noushin, Adleff, Vilmos, Ferreira, Leonardo, Easwaran, Hari, Baylin, Stephen, Phallen, Jillian, Scharpf, Robert B., Velculescu, Victor E.
Published in Nature communications (06.08.2024)
Published in Nature communications (06.08.2024)
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Journal Article
Genome-wide cell-free DNA fragmentation in patients with cancer
Cristiano, Stephen, Leal, Alessandro, Phallen, Jillian, Fiksel, Jacob, Adleff, Vilmos, Bruhm, Daniel C., Jensen, Sarah Østrup, Medina, Jamie E., Hruban, Carolyn, White, James R., Palsgrove, Doreen N., Niknafs, Noushin, Anagnostou, Valsamo, Forde, Patrick, Naidoo, Jarushka, Marrone, Kristen, Brahmer, Julie, Woodward, Brian D., Husain, Hatim, van Rooijen, Karlijn L., Ørntoft, Mai-Britt Worm, Madsen, Anders Husted, van de Velde, Cornelis J. H., Verheij, Marcel, Cats, Annemieke, Punt, Cornelis J. A., Vink, Geraldine R., van Grieken, Nicole C. T., Koopman, Miriam, Fijneman, Remond J. A., Johansen, Julia S., Nielsen, Hans Jørgen, Meijer, Gerrit A., Andersen, Claus Lindbjerg, Scharpf, Robert B., Velculescu, Victor E.
Published in Nature (London) (01.06.2019)
Published in Nature (London) (01.06.2019)
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Journal Article
Detecting Liver Cancer Using Cell-Free DNA Fragmentomes
Foda, Zachariah H, Annapragada, Akshaya V, Boyapati, Kavya, Bruhm, Daniel C, Vulpescu, Nicholas A, Medina, Jamie E, Mathios, Dimitrios, Cristiano, Stephen, Niknafs, Noushin, Luu, Harry T, Goggins, Michael G, Anders, Robert A, Sun, Jing, Meta, Shruti H, Thomas, David L, Kirk, Gregory D, Adleff, Vilmos, Phallen, Jillian, Scharpf, Robert B, Kim, Amy K, Velculescu, Victor E
Published in Cancer discovery (01.03.2023)
Published in Cancer discovery (01.03.2023)
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Integrated Genomic, Epigenomic, and Expression Analyses of Ovarian Cancer Cell Lines
Papp, Eniko, Hallberg, Dorothy, Konecny, Gottfried E., Bruhm, Daniel C., Adleff, Vilmos, Noë, Michaël, Kagiampakis, Ioannis, Palsgrove, Doreen, Conklin, Dylan, Kinose, Yasuto, White, James R., Press, Michael F., Drapkin, Ronny, Easwaran, Hariharan, Baylin, Stephen B., Slamon, Dennis, Velculescu, Victor E., Scharpf, Robert B.
Published in Cell reports (Cambridge) (27.11.2018)
Published in Cell reports (Cambridge) (27.11.2018)
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Genome-wide repeat landscapes in cancer and cell-free DNA
Annapragada, Akshaya V, Niknafs, Noushin, White, James R, Bruhm, Daniel C, Cherry, Christopher, Medina, Jamie E, Adleff, Vilmos, Hruban, Carolyn, Mathios, Dimitrios, Foda, Zachariah H, Phallen, Jillian, Scharpf, Robert B, Velculescu, Victor E
Published in Science translational medicine (13.03.2024)
Published in Science translational medicine (13.03.2024)
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Cell-Free DNA Fragmentomes in the Diagnostic Evaluation of Patients With Symptoms Suggestive of Lung Cancer
Leal, Alessandro I.C., Mathios, Dimitrios, Jakubowski, Debbie, Johansen, Jakob S., Lau, Anna, Wu, Tony, Cristiano, Stephen, Medina, Jamie E., Phallen, Jillian, Bruhm, Daniel C., Carey, Jacob, Dracopoli, Nicholas C., Bojesen, Stig E., Scharpf, Robert B., Velculescu, Victor E., Vachani, Anil, Bach, Peter B.
Published in Chest (01.10.2023)
Published in Chest (01.10.2023)
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Journal Article
Multimodal genomic features predict outcome of immune checkpoint blockade in non-small-cell lung cancer
Anagnostou, Valsamo, Niknafs, Noushin, Marrone, Kristen, Bruhm, Daniel C, White, James R, Naidoo, Jarushka, Hummelink, Karlijn, Monkhorst, Kim, Lalezari, Ferry, Lanis, Mara, Rosner, Samuel, Reuss, Joshua E, Smith, Kellie N, Adleff, Vilmos, Rodgers, Kristen, Belcaid, Zineb, Rhymee, Lamia, Levy, Benjamin, Feliciano, Josephine, Hann, Christine L, Ettinger, David S, Georgiades, Christos, Verde, Franco, Illei, Peter, Li, Qing Kay, Baras, Alexander S, Gabrielson, Edward, Brock, Malcolm V, Karchin, Rachel, Pardoll, Drew M, Baylin, Stephen B, Brahmer, Julie R, Scharpf, Robert B, Forde, Patrick M, Velculescu, Victor E
Published in Nature cancer (01.01.2020)
Published in Nature cancer (01.01.2020)
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Early detection of ovarian cancer using cell-free DNA fragmentomes and protein biomarkers
Medina, Jamie E, Annapragada, Akshaya V, Lof, Pien, Short, Sarah, Bartolomucci, Adrianna L, Mathios, Dimitrios, Koul, Shashikant, Niknafs, Noushin, Noe, Michael, Foda, Zachariah H, Bruhm, Daniel C, Hruban, Carolyn, Vulpescu, Nicholas A, Jung, Euihye, Dua, Renu, Canzoniero, Jenna V, Cristiano, Stephen, Adleff, Vilmos, Symecko, Heather, van den Broek, Daan, Sokoll, Lori J, Baylin, Stephen B, Press, Michael F, Slamon, Dennis J, Konecny, Gottfried E, Therkildsen, Christina, Carvalho, Beatriz, Meijer, Gerrit A, Andersen, Claus Lindbjerg, Domchek, Susan M, Drapkin, Ronny, Scharpf, Robert B, Phallen, Jillian, Lok, Christine A R, Velculescu, Victor E
Published in Cancer discovery (30.09.2024)
Published in Cancer discovery (30.09.2024)
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Journal Article
Integrative Tumor and Immune Cell Multi-omic Analyses Predict Response to Immune Checkpoint Blockade in Melanoma
Anagnostou, Valsamo, Bruhm, Daniel C., Niknafs, Noushin, White, James R., Shao, Xiaoshan M., Sidhom, John William, Stein, Julie, Tsai, Hua-Ling, Wang, Hao, Belcaid, Zineb, Murray, Joseph, Balan, Archana, Ferreira, Leonardo, Ross-Macdonald, Petra, Wind-Rotolo, Megan, Baras, Alexander S., Taube, Janis, Karchin, Rachel, Scharpf, Robert B., Grasso, Catherine, Ribas, Antoni, Pardoll, Drew M., Topalian, Suzanne L., Velculescu, Victor E.
Published in Cell reports. Medicine (17.11.2020)
Published in Cell reports. Medicine (17.11.2020)
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Abstract 6101: PLASMUT: An R Package for estimating the probability of tumor-specific mutations in cell-free DNA
Arun, Adith S., Medina, Jamie E., Cristiano, Stephen, Bruhm, Daniel C., Fijneman, Remond J., Meijer, Gerrit A., Leal, Alessandro, Velculescu, Victor E., Scharpf, Robert B.
Published in Cancer research (Chicago, Ill.) (22.03.2024)
Published in Cancer research (Chicago, Ill.) (22.03.2024)
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Journal Article
Integrative tumor and immune cell multi-omic analyses to predict melanoma response to immune checkpoint blockade
Anagnostou, Valsamo, Bruhm, Daniel C., Niknafs, Noushin, White, James R, Sidhom, John-William, Stein, Julie E., Tsai, Hua-Ling, Wang, Hao, Belcaid, Zineb, Murray, Joseph Christopher, Ross-Macdonald, Petra B., Wind-Rotolo, Megan, Baras, Alexander S, Taube, Janis M., Scharpf, Robert B., Grasso, Catherine, Ribas, Antoni, Pardoll, Drew M., Topalian, Suzanne Louise, Velculescu, Victor E.
Published in Journal of clinical oncology (20.05.2020)
Published in Journal of clinical oncology (20.05.2020)
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Abstract 974: DNA methylation and gene expression as determinants of genome-wide cell-free DNA fragmentation
Noë, Michaël, Annapragada, Akshaya V., Foda, Zachariah H., Medina, Jamie E., Mathios, Dimitrios, Cristiano, Stephen, Cherry, Christopher, Bruhm, Daniel C., Niknafs, Noushin, Adleff, Vilmos, Ferreira, Leonardo, Easwaran, Hari, Baylin, Stephen, Phallen, Jillian, Scharpf, Robert B., Velculescu, Victor E.
Published in Cancer research (Chicago, Ill.) (22.03.2024)
Published in Cancer research (Chicago, Ill.) (22.03.2024)
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Abstract 2422: Liquid biopsy approaches for monitoring metastatic pancreatic cancer in immunotherapy treated patients
Hruban, Carolyn Anna, Chen, Inna, Bruhm, Daniel C., Koul, Shashikant, Yao, Jennie, Theile, Susann, Boyapati, Kavya, Vulpescu, Nicholas A., Annapragada, Akshaya, Ferreira, Leonardo, Cristiano, Stephen, Foda, Zachariah H., Adleff, Vilmos, Johansen, Julia, Phallen, Jillian, Scharpf, Robert B., Velculescu, Victor E.
Published in Cancer research (Chicago, Ill.) (22.03.2024)
Published in Cancer research (Chicago, Ill.) (22.03.2024)
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