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264 results on '"van Krieken, J. Han J. M."'

1. A significant proportion of classic Hodgkin lymphoma recurrences represents clonally unrelated second primary lymphoma

Author

van Bladel, Diede A. G., Stevens, Wendy B. C., Kroeze, Leonie I., de Groen, Ruben A. L., de Groot, Fleur A., van der Last-Kempkes, Jessica L. M., Berendsen, Madeleine R., Rijntjes, Jos, Luijks, Jeroen A. C. W., Bonzheim, Irina, van der Spek, Ellen, Plattel, Wouter J., Pruijt, Johannes F. M., de Jonge-Peeters, Susan D. P. W. M., Velders, Gerjo A., Lensen, Chantal, van Bladel, Esther R., Federmann, Birgit, Hoevenaars, Brigiet M., Pastorczak, Agata, van der Werff ten Bosch, Jutte, Vermaat, Joost S. P., Nooijen, Peet T. G. A., Hebeda, Konnie M., Fend, Falko, Diepstra, Arjan, van Krieken, J Han J. M., Groenen, Patricia J. T. A., van den Brand, Michiel, and Scheijen, Blanca

Published
2023
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5. Correlation of Immunological and Histopathological Features with Gene Expression-Based Classifiers in Colon Cancer Patients

Author

van de Weerd, Simone, primary, Smit, Marloes A., additional, Roelands, Jessica, additional, Mesker, Wilma E., additional, Bedognetti, Davide, additional, Kuppen, Peter J. K., additional, Putter, Hein, additional, Tollenaar, Rob A. E. M., additional, Roodhart, Jeanine M. L., additional, Hendrickx, Wouter, additional, Medema, Jan Paul, additional, and van Krieken, J. Han J. M., additional

Published
2022
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9. Correlation of Immunological and Histopathological Features with Gene Expression-Based Classifiers in Colon Cancer Patients

Author

MS Medische Oncologie, Cancer, van de Weerd, Simone, Smit, Marloes A, Roelands, Jessica, Mesker, Wilma E, Bedognetti, Davide, Kuppen, Peter J K, Putter, Hein, Tollenaar, Rob A E M, Roodhart, Jeanine M L, Hendrickx, Wouter, Medema, Jan Paul, van Krieken, J Han J M, MS Medische Oncologie, Cancer, van de Weerd, Simone, Smit, Marloes A, Roelands, Jessica, Mesker, Wilma E, Bedognetti, Davide, Kuppen, Peter J K, Putter, Hein, Tollenaar, Rob A E M, Roodhart, Jeanine M L, Hendrickx, Wouter, Medema, Jan Paul, and van Krieken, J Han J M

Published
2022

12. Deep learning based tumor-stroma ratio scoring in colon cancer correlates with microscopic assessment.

Author

Smit, Marloes A., Ciompi, Francesco, Bokhorst, John-Melle, van Pelt, Gabi W., Geessink, Oscar G. F., Putter, Hein, Tollenaar, Rob A. E. M., van Krieken, J. Han J. M., Mesker, Wilma E., and van der Laak, Jeroen A. W. M.

Subjects
COLON cancer, MACHINE learning, DEEP learning, INTRACLASS correlation, RANK correlation (Statistics), ARTIFICIAL intelligence
Abstract

Background: The amount of stroma within the primary tumor is a prognostic parameter for colon cancer patients. This phenomenon can be assessed using the tumor–stroma ratio (TSR), which classifies tumors in stroma-low (≤50% stroma) and stroma-high (>50% stroma). Although the reproducibility for TSR determination is good, improvement might be expected from automation. The aim of this study was to investigate whether the scoring of the TSR in a semi-and fully automated method using deep learning algorithms is feasible. Methods: A series of 75 colon cancer slides were selected from a trial series of the UNITED study. For the standard determination of the TSR, 3 observers scored the histological slides. Next, the slides were digitized, color normalized, and the stroma percentages were scored using semi- and fully automated deep learning algorithms. Correlations were determined using intraclass correlation coefficients (ICCs) and Spearman rank correlations. Results: 37 (49%) cases were classified as stroma-low and 38 (51%) as stroma-high by visual estimation. A high level of concordance between the 3 observers was reached, with ICCs of 0.91, 0.89, and 0.94 (all P < .001). Between visual and semi-automated assessment the ICC was 0.78 (95% CI 0.23-0.91, P-value 0.005), with a Spearman correlation of 0.88 (P < .001). Spearman correlation coefficients above 0.70 (N=3) were observed for visual estimation versus the fully automated scoring procedures. Conclusion: Good correlations were observed between standard visual TSR determination and semi- and fully automated TSR scores. At this point, visual examination has the highest observer agreement, but semi-automated scoring could be helpful to support pathologists. [ABSTRACT FROM AUTHOR]

Published
2023
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29. Markers for Nodal Metastasis in Head and Neck Squamous Cell Cancer

Author

Takes, Robert P., Baatenburg de Jong, Robert J., Alles, Martijn J. R. C., Meeuwis, Cees A., Marres, Henri A. M., Knegt, Paul P. M., de la Riviere, Guy Brutel, de Wilde, Peter C. M., Mooi, Wolter J., Hermans, Jo, and van Krieken, J. Han J. M.

Published
2002

34. Unraveling genetic predisposition to familial or early onset gastric cancer using germline whole-exome sequencing

Author

Vogelaar, Ingrid P., van der Post, Rachel S., Van Krieken, J. Han J M, Spruijt, Liesbeth, van Zelst-Stams, Wendy A. G., Kets, C. Marleen, Lubinski, Jan, Jakubowska, Anna, Teodorczyk, Urszula, Aalfs, Cora M., Van Hest, Liselotte P., Pinheiro, Hugo, Oliveira, Carla, Jhangiani, Shalini N., Muzny, Donna M., Gibbs, Richard A., Lupski, James R, De Ligt, Joep, Vissers, Lisenka E L M, Hoischen, Alexander, Gilissen, Christian, Van De Vorst, Maartje, Goeman, Jelle J., Schackert, Hans K, Ranzani, Guglielmina N., Molinaro, Valeria, García, Encarna B.Gómez, Hes, Frederik J., Holinski-Feder, Elke, Genuardi, Maurizio, Ausems, Margreet G.E.M., Sijmons, Rolf H., Wagner, Anja, Van Der Kolk, Lizet E., Bjørnevoll, Inga, Høberg Vetti, Hildegunn, van Kessel, Ad Geurts, Kuiper, Roland P., Ligtenberg, Marjolijn J. L., Hoogerbrugge, Nicoline, Vogelaar, Ingrid P., van der Post, Rachel S., Van Krieken, J. Han J M, Spruijt, Liesbeth, van Zelst-Stams, Wendy A. G., Kets, C. Marleen, Lubinski, Jan, Jakubowska, Anna, Teodorczyk, Urszula, Aalfs, Cora M., Van Hest, Liselotte P., Pinheiro, Hugo, Oliveira, Carla, Jhangiani, Shalini N., Muzny, Donna M., Gibbs, Richard A., Lupski, James R, De Ligt, Joep, Vissers, Lisenka E L M, Hoischen, Alexander, Gilissen, Christian, Van De Vorst, Maartje, Goeman, Jelle J., Schackert, Hans K, Ranzani, Guglielmina N., Molinaro, Valeria, García, Encarna B.Gómez, Hes, Frederik J., Holinski-Feder, Elke, Genuardi, Maurizio, Ausems, Margreet G.E.M., Sijmons, Rolf H., Wagner, Anja, Van Der Kolk, Lizet E., Bjørnevoll, Inga, Høberg Vetti, Hildegunn, van Kessel, Ad Geurts, Kuiper, Roland P., Ligtenberg, Marjolijn J. L., and Hoogerbrugge, Nicoline

Published
2017

35. Unraveling genetic predisposition to familial or early onset gastric cancer using germline whole-exome sequencing

Author

CMM Groep De Ridder, Cancer, Genetica, UMC Utrecht, Genetica Sectie Oncogenetica, Child Health, Vogelaar, Ingrid P., van der Post, Rachel S., Van Krieken, J. Han J M, Spruijt, Liesbeth, van Zelst-Stams, Wendy A. G., Kets, C. Marleen, Lubinski, Jan, Jakubowska, Anna, Teodorczyk, Urszula, Aalfs, Cora M., Van Hest, Liselotte P., Pinheiro, Hugo, Oliveira, Carla, Jhangiani, Shalini N., Muzny, Donna M., Gibbs, Richard A., Lupski, James R, De Ligt, Joep, Vissers, Lisenka E L M, Hoischen, Alexander, Gilissen, Christian, Van De Vorst, Maartje, Goeman, Jelle J., Schackert, Hans K, Ranzani, Guglielmina N., Molinaro, Valeria, García, Encarna B.Gómez, Hes, Frederik J., Holinski-Feder, Elke, Genuardi, Maurizio, Ausems, Margreet G.E.M., Sijmons, Rolf H., Wagner, Anja, Van Der Kolk, Lizet E., Bjørnevoll, Inga, Høberg Vetti, Hildegunn, van Kessel, Ad Geurts, Kuiper, Roland P., Ligtenberg, Marjolijn J. L., Hoogerbrugge, Nicoline, CMM Groep De Ridder, Cancer, Genetica, UMC Utrecht, Genetica Sectie Oncogenetica, Child Health, Vogelaar, Ingrid P., van der Post, Rachel S., Van Krieken, J. Han J M, Spruijt, Liesbeth, van Zelst-Stams, Wendy A. G., Kets, C. Marleen, Lubinski, Jan, Jakubowska, Anna, Teodorczyk, Urszula, Aalfs, Cora M., Van Hest, Liselotte P., Pinheiro, Hugo, Oliveira, Carla, Jhangiani, Shalini N., Muzny, Donna M., Gibbs, Richard A., Lupski, James R, De Ligt, Joep, Vissers, Lisenka E L M, Hoischen, Alexander, Gilissen, Christian, Van De Vorst, Maartje, Goeman, Jelle J., Schackert, Hans K, Ranzani, Guglielmina N., Molinaro, Valeria, García, Encarna B.Gómez, Hes, Frederik J., Holinski-Feder, Elke, Genuardi, Maurizio, Ausems, Margreet G.E.M., Sijmons, Rolf H., Wagner, Anja, Van Der Kolk, Lizet E., Bjørnevoll, Inga, Høberg Vetti, Hildegunn, van Kessel, Ad Geurts, Kuiper, Roland P., Ligtenberg, Marjolijn J. L., and Hoogerbrugge, Nicoline

Published
2017

37. Immunoglobulin rearrangement analysis from multiple lesions in the same patient using next-generation sequencing

Author

Appenzeller, Silke, Gilissen, Christian, Rijntjes, Jos, Tops, Bastiaan B J, Kastner-van Raaij, Annemiek, Hebeda, Konnie M, Nissen, Loes, Dutilh, Bas E, van Krieken, J Han J M, Groenen, Patricia J T A, Sub Bioinformatics, and Theoretical Biology and Bioinformatics

Abstract

Aims For patients who have multiple lymphomas with discordant pathology, it is relevant to determine whether there is one disseminated lymphoma or two unrelated lymphomas. Patients with disseminated, clonally related lymphomas are usually treated with the most powerful drugs available, while patients with unrelated (primary) lymphomas receive mainly standard first‐line therapies. Methods and results We used next‐generation sequencing on the Ion Torrent Personal Genome Machine to characterize the immunoglobulin heavy gene V–D–J rearrangements in two diagnostic tissue samples, including formalin‐fixed and paraffin‐embedded tissue, of two patients with iatrogenic immunodeficiency‐associated Epstein–Barr virus lymphoproliferative disorder, with ulcerative colitis as underlying disease. The immunoglobulin rearrangement sequences obtained by next‐generation sequencing revealed undoubtedly clonally related lesions in two tissue biopsies that were taken over time in the first patient, which is concordant with disseminated lymphoma. The other patient showed two clonally unrelated lesions, which is incompatible with clonal dissemination. This information was not inferred from evaluation of the heavy and light chain rearrangements by fragment analysis, which is currently the gold standard. Conclusion Our study demonstrates the diagnostic application of next‐generation sequencing of immunoglobulin rearrangement assessment in pathology for clinical decision‐making in patients with several simultaneous or subsequent lymphoproliferations.

Published
2015

38. Recurrent candidiasis and early-onset gastric cancer in a patient with a genetically defined partial MYD88 defect

Author

Vogelaar, Ingrid P., Ligtenberg, Marjolijn J L, van der Post, Rachel S., de Voer, Richarda M., Kets, C. Marleen, Jansen, Trees J G, Jacobs, Liesbeth, Schreibelt, Gerty, de Vries, I. Jolanda M, Netea, Mihai G., Hoogerbrugge, Nicoline, Lubinski, Jan, Jakubowska, Anna, Teodorczyk, Urszula, Schackert, Hans K., Aalfs, Cora M., Gómez García, Encarna B., Ranzani, Guglielmina N., Molinaro, Valeria, van Hest, Liselotte P., Hes, Frederik J., Holinski-Feder, Elke, Genuardi, Maurizio, Ausems, Margreet G E M, Sijmons, Rolf H., Wagner, Anja, van der Kolk, Lizet E., Pinheiro, Hugo, Oliveira, Carla, Bjørnevoll, Inga, Høberg Vetti, Hildegunn, Van Krieken, J. Han J M, Vogelaar, Ingrid P., Ligtenberg, Marjolijn J L, van der Post, Rachel S., de Voer, Richarda M., Kets, C. Marleen, Jansen, Trees J G, Jacobs, Liesbeth, Schreibelt, Gerty, de Vries, I. Jolanda M, Netea, Mihai G., Hoogerbrugge, Nicoline, Lubinski, Jan, Jakubowska, Anna, Teodorczyk, Urszula, Schackert, Hans K., Aalfs, Cora M., Gómez García, Encarna B., Ranzani, Guglielmina N., Molinaro, Valeria, van Hest, Liselotte P., Hes, Frederik J., Holinski-Feder, Elke, Genuardi, Maurizio, Ausems, Margreet G E M, Sijmons, Rolf H., Wagner, Anja, van der Kolk, Lizet E., Pinheiro, Hugo, Oliveira, Carla, Bjørnevoll, Inga, Høberg Vetti, Hildegunn, and Van Krieken, J. Han J M

Published
2016

39. Recurrent candidiasis and early-onset gastric cancer in a patient with a genetically defined partial MYD88 defect

Author

Genetica Sectie Oncogenetica, Child Health, Cancer, Vogelaar, Ingrid P., Ligtenberg, Marjolijn J L, van der Post, Rachel S., de Voer, Richarda M., Kets, C. Marleen, Jansen, Trees J G, Jacobs, Liesbeth, Schreibelt, Gerty, de Vries, I. Jolanda M, Netea, Mihai G., Hoogerbrugge, Nicoline, Lubinski, Jan, Jakubowska, Anna, Teodorczyk, Urszula, Schackert, Hans K., Aalfs, Cora M., Gómez García, Encarna B., Ranzani, Guglielmina N., Molinaro, Valeria, van Hest, Liselotte P., Hes, Frederik J., Holinski-Feder, Elke, Genuardi, Maurizio, Ausems, Margreet G E M, Sijmons, Rolf H., Wagner, Anja, van der Kolk, Lizet E., Pinheiro, Hugo, Oliveira, Carla, Bjørnevoll, Inga, Høberg Vetti, Hildegunn, Van Krieken, J. Han J M, Genetica Sectie Oncogenetica, Child Health, Cancer, Vogelaar, Ingrid P., Ligtenberg, Marjolijn J L, van der Post, Rachel S., de Voer, Richarda M., Kets, C. Marleen, Jansen, Trees J G, Jacobs, Liesbeth, Schreibelt, Gerty, de Vries, I. Jolanda M, Netea, Mihai G., Hoogerbrugge, Nicoline, Lubinski, Jan, Jakubowska, Anna, Teodorczyk, Urszula, Schackert, Hans K., Aalfs, Cora M., Gómez García, Encarna B., Ranzani, Guglielmina N., Molinaro, Valeria, van Hest, Liselotte P., Hes, Frederik J., Holinski-Feder, Elke, Genuardi, Maurizio, Ausems, Margreet G E M, Sijmons, Rolf H., Wagner, Anja, van der Kolk, Lizet E., Pinheiro, Hugo, Oliveira, Carla, Bjørnevoll, Inga, Høberg Vetti, Hildegunn, and Van Krieken, J. Han J M

Published
2016

40. Recurrent mutations in genes involved in nuclear factor‐κB signalling in nodal marginal zone lymphoma—diagnostic and therapeutic implications

Author

van den Brand, Michiel, primary, Rijntjes, Jos, additional, Hebeda, Konnie M, additional, Menting, Laura, additional, Bregitha, Carolyn V, additional, Stevens, Wendy B C, additional, van der Velden, Walter J F M, additional, Tops, Bastiaan B J, additional, van Krieken, J Han J M, additional, and Groenen, Patricia J T A, additional

Published
2016
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41. A germline homozygous mutation in the base-excision repair gene NTHL1 causes adenomatous polyposis and colorectal cancer

Author

Weren, Robbert D A, Ligtenberg, Marjolijn J L, Kets, C. Marleen, De Voer, Richarda M., Verwiel, Eugène T P, Spruijt, Liesbeth, Van Zelst-Stams, Wendy A G, Jongmans, Marjolijn C., Gilissen, Christian, Hehir-Kwa, Jayne Y., Hoischen, Alexander, Shendure, Jay, Boyle, Evan A., Kamping, Eveline J., Nagtegaal, Iris D., Tops, Bastiaan B J, Nagengast, Fokko M., Geurts Van Kessel, Ad, Van Krieken, J. Han J M, Kuiper, Roland P., Hoogerbrugge, Nicoline, Weren, Robbert D A, Ligtenberg, Marjolijn J L, Kets, C. Marleen, De Voer, Richarda M., Verwiel, Eugène T P, Spruijt, Liesbeth, Van Zelst-Stams, Wendy A G, Jongmans, Marjolijn C., Gilissen, Christian, Hehir-Kwa, Jayne Y., Hoischen, Alexander, Shendure, Jay, Boyle, Evan A., Kamping, Eveline J., Nagtegaal, Iris D., Tops, Bastiaan B J, Nagengast, Fokko M., Geurts Van Kessel, Ad, Van Krieken, J. Han J M, Kuiper, Roland P., and Hoogerbrugge, Nicoline

Published
2015

42. Immunoglobulin rearrangement analysis from multiple lesions in the same patient using next-generation sequencing

Author

Sub Bioinformatics, Theoretical Biology and Bioinformatics, Appenzeller, Silke, Gilissen, Christian, Rijntjes, Jos, Tops, Bastiaan B J, Kastner-van Raaij, Annemiek, Hebeda, Konnie M, Nissen, Loes, Dutilh, Bas E, van Krieken, J Han J M, Groenen, Patricia J T A, Sub Bioinformatics, Theoretical Biology and Bioinformatics, Appenzeller, Silke, Gilissen, Christian, Rijntjes, Jos, Tops, Bastiaan B J, Kastner-van Raaij, Annemiek, Hebeda, Konnie M, Nissen, Loes, Dutilh, Bas E, van Krieken, J Han J M, and Groenen, Patricia J T A

Published
2015

43. A germline homozygous mutation in the base-excision repair gene NTHL1 causes adenomatous polyposis and colorectal cancer

Author

Genetica Sectie Oncogenetica, Weren, Robbert D A, Ligtenberg, Marjolijn J L, Kets, C. Marleen, De Voer, Richarda M., Verwiel, Eugène T P, Spruijt, Liesbeth, Van Zelst-Stams, Wendy A G, Jongmans, Marjolijn C., Gilissen, Christian, Hehir-Kwa, Jayne Y., Hoischen, Alexander, Shendure, Jay, Boyle, Evan A., Kamping, Eveline J., Nagtegaal, Iris D., Tops, Bastiaan B J, Nagengast, Fokko M., Geurts Van Kessel, Ad, Van Krieken, J. Han J M, Kuiper, Roland P., Hoogerbrugge, Nicoline, Genetica Sectie Oncogenetica, Weren, Robbert D A, Ligtenberg, Marjolijn J L, Kets, C. Marleen, De Voer, Richarda M., Verwiel, Eugène T P, Spruijt, Liesbeth, Van Zelst-Stams, Wendy A G, Jongmans, Marjolijn C., Gilissen, Christian, Hehir-Kwa, Jayne Y., Hoischen, Alexander, Shendure, Jay, Boyle, Evan A., Kamping, Eveline J., Nagtegaal, Iris D., Tops, Bastiaan B J, Nagengast, Fokko M., Geurts Van Kessel, Ad, Van Krieken, J. Han J M, Kuiper, Roland P., and Hoogerbrugge, Nicoline

Published
2015

45. A germline homozygous mutation in the base-excision repair gene NTHL1 causes adenomatous polyposis and colorectal cancer

Author

Weren, Robbert D A, primary, Ligtenberg, Marjolijn J L, additional, Kets, C Marleen, additional, de Voer, Richarda M, additional, Verwiel, Eugène T P, additional, Spruijt, Liesbeth, additional, van Zelst-Stams, Wendy A G, additional, Jongmans, Marjolijn C, additional, Gilissen, Christian, additional, Hehir-Kwa, Jayne Y, additional, Hoischen, Alexander, additional, Shendure, Jay, additional, Boyle, Evan A, additional, Kamping, Eveline J, additional, Nagtegaal, Iris D, additional, Tops, Bastiaan B J, additional, Nagengast, Fokko M, additional, Geurts van Kessel, Ad, additional, van Krieken, J Han J M, additional, Kuiper, Roland P, additional, and Hoogerbrugge, Nicoline, additional

Published
2015
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48. Gastric Cancer

Author

van Krieken, J. Han J. M., primary, Sasako, Mitsuru, additional, and van de Velde, Cornelis J.H., additional

Published
2014
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49. High mRNA expression of splice variant SYK short correlates with hepatic disease progression in chemonaive lymph node negative colon cancer patients.

Author

Coebergh van den Braak, Robert R. J., Sieuwerts, Anieta M., Kandimalla, Raju, Lalmahomed, Zarina S., Bril, Sandra I., van Galen, Anne, Smid, Marcel, Biermann, Katharina, van Krieken, J. Han J. M., Kloosterman, Wigard P., Foekens, John A., Goel, Ajay, Martens, John W. M., IJzermans, Jan N. M., and null, null

Subjects
COLON cancer patients, LIVER failure, TYROSINE, LYMPH nodes, MESSENGER RNA, PROGNOSIS
Abstract

Objective: Overall and splice specific expression of Spleen Tyrosine Kinase (SYK) has been posed as a marker predicting both poor and favorable outcome in various epithelial malignancies. However, its role in colorectal cancer is largely unknown. The aim of this study was to explore the prognostic role of SYK in three cohorts of colon cancer patients. Methods: Total messenger RNA (mRNA) expression of SYK, SYK(T), and mRNA expression of its two splice variants SYK short (S) and SYK long (L) were measured using quantitative reverse transcriptase (RT-qPCR) in 240 primary colon cancer patients (n = 160 patients with chemonaive lymph node negative [LNN] and n = 80 patients with adjuvant treated lymph node positive [LNP] colon cancer) and related to microsatellite instability (MSI), known colorectal cancer mutations, and disease-free (DFS), hepatic metastasis-free (HFS) and overall survival (OS). Two independent cohorts of patients with respectively 48 and 118 chemonaive LNN colon cancer were used for validation. Results: Expression of SYK and its splice variants was significantly lower in tumors with MSI, and in KRAS wild type, BRAF mutant and PTEN mutant tumors. In a multivariate Cox regression analysis, as a continuous variable, increasing SYK(S) mRNA expression was associated with worse HFS (Hazard Ratio[HR] = 1.83; 95% Confidence Interval[CI] = 1.08–3.12; p = 0.026) in the LNN group, indicating a prognostic role for SYK(S) mRNA in patients with chemonaive LNN colon cancer. However, only a non-significant trend between SYK(S) and HFS in one of the two validation cohorts was observed (HR = 4.68; 95%CI = 0.75–29.15; p = 0.098). Conclusion: In our cohort, we discovered SYK(S) as a significant prognostic marker for HFS for patients with untreated LNN colon cancer. This association could however not be confirmed in two independent smaller cohorts, suggesting that further extensive validation is needed to confirm the prognostic value of SYK(S) expression in chemonaive LNN colon cancer. [ABSTRACT FROM AUTHOR]

Published
2017
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