Search Results - "Fijneman, Remond J"

Data-Independent Acquisition Mass Spectrometry Analysis of FFPE Rectal Cancer Samples Offers In-Depth Proteomics Characterization of the Response to Neoadjuvant Chemoradiotherapy by Stanojevic, Aleksandra, Samiotaki, Martina, Lygirou, Vasiliki, Marinkovic, Mladen, Nikolic, Vladimir, Stojanovic-Rundic, Suzana, Jankovic, Radmila, Vlahou, Antonia, Panayotou, George, Fijneman, Remond J. A., Castellví-Bel, Sergi, Zoidakis, Jerome, Cavic, Milena

“…Locally advanced rectal cancer (LARC) presents a challenge in identifying molecular markers linked to the response to neoadjuvant chemoradiotherapy (nCRT)…”
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Detection and characterization of lung cancer using cell-free DNA fragmentomes by 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.

“…Non-invasive approaches for cell-free DNA (cfDNA) assessment provide an opportunity for cancer detection and intervention. Here, we use a machine learning…”
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CIBRA identifies genomic alterations with a system-wide impact on tumor biology by Lakbir, Soufyan, Buranelli, Caterina, Meijer, Gerrit A, Heringa, Jaap, Fijneman, Remond J A, Abeln, Sanne

“…Abstract Motivation Genomic instability is a hallmark of cancer, leading to many somatic alterations. Identifying which alterations have a system-wide impact…”
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Cancer treatment monitoring using cell-free DNA fragmentomes by van ’t Erve, Iris, Alipanahi, Bahar, Lumbard, Keith, Skidmore, Zachary L., Rinaldi, Lorenzo, Millberg, Laurel K., Carey, Jacob, Chesnick, Bryan, Cristiano, Stephen, Portwood, Carter, Wu, Tony, Peters, Erica, Bolhuis, Karen, Punt, Cornelis J. A., Tom, Jennifer, Bach, Peter B., Dracopoli, Nicholas C., Meijer, Gerrit A., Scharpf, Robert B., Velculescu, Victor E., Fijneman, Remond J. A., Leal, Alessandro

“…Circulating cell-free DNA (cfDNA) assays for monitoring individuals with cancer typically rely on prior identification of tumor-specific mutations. Here, we…”
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Aurora kinase A (AURKA) interaction with Wnt and Ras-MAPK signalling pathways in colorectal cancer by Jacobsen, Annika, Bosch, Linda J. W., Martens-de Kemp, Sanne R., Carvalho, Beatriz, Sillars-Hardebol, Anke H., Dobson, Richard J., de Rinaldis, Emanuele, Meijer, Gerrit A., Abeln, Sanne, Heringa, Jaap, Fijneman, Remond J. A., Feenstra, K. Anton

“…Hyperactivation of Wnt and Ras-MAPK signalling are common events in development of colorectal adenomas. Further progression from adenoma-to-carcinoma is…”
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Silencing Core Spliceosome Sm Gene Expression Induces a Cytotoxic Splicing Switch in the Proteasome Subunit Beta 3 mRNA in Non-Small Cell Lung Cancer Cells by Blijlevens, Maxime, Komor, Malgorzata A, Sciarrillo, Rocco, Smit, Egbert F, Fijneman, Remond J A, van Beusechem, Victor W

“…The core spliceosomal Sm proteins were recently proposed as cancer-selective lethal targets in non-small cell lung cancer (NSCLC). In contrast, the loss of the…”
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KCNQ1 and lymphovascular invasion are key features in a prognostic classifier for stage II and III colon cancer by Uil, Sjoerd H, Coupé, Veerle M H, Bril, Herman, Meijer, Gerrit A, Fijneman, Remond J A, Stockmann, Hein B A C

“…The risk of recurrence after resection of a stage II or III colon cancer, and therefore qualification for adjuvant chemotherapy (ACT), is traditionally based…”
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Comparison of NTRK fusion detection methods in microsatellite-instability-high metastatic colorectal cancer by Schraa, Suzanna J., Stelloo, Ellen, Laclé, Miangela M., Swennenhuis, Joost F., Brosens, Lodewijk A. A., Fijneman, Remond J. A., Feitsma, Harma, Koopman, Miriam, de Leng, Wendy W., Vink, Geraldine R., Bol, Guus M.

“…Tropomyosin receptor kinase (TRK) inhibitors have been approved for metastatic solid tumors harboring NTRK fusions, but the detection of NTRK fusions is…”
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TPX2 and AURKA promote 20q amplicon-driven colorectal adenoma to carcinoma progression by Sillars-Hardebol, Anke H, Carvalho, Beatriz, Tijssen, Marianne, Beliën, Jeroen A M, de Wit, Meike, Delis-van Diemen, Pien M, Pontén, Fredrik, van de Wiel, Mark A, Fijneman, Remond J A, Meijer, Gerrit A

“…Progression of a colorectal adenoma to invasive cancer occurs in a minority of adenomas and is the most crucial step in colorectal cancer pathogenesis. In the…”
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A scenario‐drafting study to explore potential future implementation pathways of circulating tumor DNA testing in oncology by Kramer, Astrid, Rubio‐Alarcón, Carmen, Broek, Daan, Vessies, Daan C. L., van't Erve, Iris, Meijer, Gerrit A., Vink, Geraldine R., Schuuring, Ed, Fijneman, Remond J. A., Coupé, Veerle M. H., Retèl, Valesca P.

“…Circulating tumor DNA (ctDNA) detection has multiple promising applications in oncology, but the road toward implementation in clinical practice is unclear. We…”
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High expression of secretory leukocyte protease inhibitor (SLPI) in stage III micro-satellite stable colorectal cancer is associated with reduced disease recurrence by Nugteren, Sandrine, den Uil, Sjoerd H., Delis-van Diemen, Pien M., Simons-Oosterhuis, Ytje, Lindenbergh-Kortleve, Dicky J., van Haaften, Daniëlle H., Stockmann, Hein B. A. C., Sanders, Joyce, Meijer, Gerrit A., Fijneman, Remond J. A., Samsom, Janneke N.

“…Secretory leukocyte protease inhibitor (SLPI) is a pleiotropic protein produced by healthy intestinal epithelial cells. SLPI regulates NF-κB activation,…”
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Lumican and versican protein expression are associated with colorectal adenoma-to-carcinoma progression by de Wit, Meike, Carvalho, Beatriz, Delis-van Diemen, Pien M, van Alphen, Carolien, Beliën, Jeroen A M, Meijer, Gerrit A, Fijneman, Remond J A

“…One prominent event associated with colorectal adenoma-to-carcinoma progression is genomic instability. Approximately 85% of colorectal cancer cases exhibit…”
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Identification of Differentially Expressed Splice Variants by the Proteogenomic Pipeline Splicify by Komor, Malgorzata A., Pham, Thang V., Hiemstra, Annemieke C., Piersma, Sander R., Bolijn, Anne S., Schelfhorst, Tim, Delis-van Diemen, Pien M., Tijssen, Marianne, Sebra, Robert P., Ashby, Meredith, Meijer, Gerrit A., Jimenez, Connie R., Fijneman, Remond J.A.

“…Proteogenomics, i.e. comprehensive integration of genomics and proteomics data, is a powerful approach identifying novel protein biomarkers. This is especially…”
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Performance and Dimensionality of Pretreatment MRI Radiomics in Rectal Carcinoma Chemoradiotherapy Prediction by Marinkovic, Mladen, Stojanovic-Rundic, Suzana, Stanojevic, Aleksandra, Tomasevic, Aleksandar, Jankovic, Radmila, Zoidakis, Jerome, Castellví-Bel, Sergi, Fijneman, Remond J A, Cavic, Milena, Radulovic, Marko

“…(1) Background: This study aimed to develop a machine learning model based on radiomics of pretreatment magnetic resonance imaging (MRI) 3D T2W contrast…”
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Cell-Free Circulating (Tumor) DNA before Surgery as a Prognostic Factor in Non-Metastatic Colorectal Cancer: A Systematic Review by Schraa, Suzanna J, van Rooijen, Karlijn L, Koopman, Miriam, Vink, Geraldine R, Fijneman, Remond J A

“…Identification of non-metastatic colorectal cancer (CRC) patients with a high risk of recurrence after tumor resection is important to select patients who…”
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Cell surface proteomics identifies glucose transporter type 1 and prion protein as candidate biomarkers for colorectal adenoma-to-carcinoma progression by de Wit, Meike, Jimenez, Connie R, Carvalho, Beatriz, Belien, Jeroen A M, Delis-van Diemen, Pien M, Mongera, Sandra, Piersma, Sander R, Vikas, Maindad, Navani, Sanjay, Pontén, Fredrik, Meijer, Gerrit A, Fijneman, Remond J A

“…Early detection of colon adenomas at high risk of progression and early-stage colorectal cancer (CRC) is an effective approach to reduce CRC death rates…”
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High Prevalence and Clinical Relevance of Genes Affected by Chromosomal Breaks in Colorectal Cancer by van den Broek, Evert, Dijkstra, Maurits J J, Krijgsman, Oscar, Sie, Daoud, Haan, Josien C, Traets, Joleen J H, van de Wiel, Mark A, Nagtegaal, Iris D, Punt, Cornelis J A, Carvalho, Beatriz, Ylstra, Bauke, Abeln, Sanne, Meijer, Gerrit A, Fijneman, Remond J A

“…Cancer is caused by somatic DNA alterations such as gene point mutations, DNA copy number aberrations (CNA) and structural variants (SVs). Genome-wide analyses…”
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Prognostic value of microvessel density in stage II and III colon cancer patients: a retrospective cohort study by den Uil, Sjoerd H, van den Broek, Evert, Coupé, Veerle M H, Vellinga, Thomas T, Delis-van Diemen, Pien M, Bril, Herman, Belt, Eric J Th, Kranenburg, Onno, Stockmann, Hein B A C, Belien, Jeroen A M, Meijer, Gerrit A, Fijneman, Remond J A

“…Microvessel density (MVD), as a derived marker for angiogenesis, has been associated with poor outcome in several types of cancer. This study aimed to evaluate…”
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Loss of enteric neuronal Ndrg4 promotes colorectal cancer via increased release of Nid1 and Fbln2 by Vaes, Nathalie, Schonkeren, Simone L, Rademakers, Glenn, Holland, Amy M, Koch, Alexander, Gijbels, Marion J, Keulers, Tom G, de Wit, Meike, Moonen, Laura, Van der Meer, Jaleesa R M, van den Boezem, Edith, Wolfs, Tim G A M, Threadgill, David W, Demmers, Jeroen, Fijneman, Remond J A, Jimenez, Connie R, Vanden Berghe, Pieter, Smits, Kim M, Rouschop, Kasper M A, Boesmans, Werend, Hofstra, Robert M W, Melotte, Veerle

“…The N-Myc Downstream-Regulated Gene 4 ( NDRG4 ), a prominent biomarker for colorectal cancer (CRC), is specifically expressed by enteric neurons. Considering…”
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Novel Stool-Based Protein Biomarkers for Improved Colorectal Cancer Screening: A Case-Control Study by Bosch, Linda J W, de Wit, Meike, Pham, Thang V, Coupé, Veerle M H, Hiemstra, Annemieke C, Piersma, Sander R, Oudgenoeg, Gideon, Scheffer, George L, Mongera, Sandra, Sive Droste, Jochim Terhaar, Oort, Frank A, van Turenhout, Sietze T, Larbi, Ilhame Ben, Louwagie, Joost, van Criekinge, Wim, van der Hulst, Rene W M, Mulder, Chris J J, Carvalho, Beatriz, Fijneman, Remond J A, Jimenez, Connie R, Meijer, Gerrit A

“…The fecal immunochemical test (FIT) for detecting hemoglobin is used widely for noninvasive colorectal cancer (CRC) screening, but its sensitivity leaves room…”
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