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Publications 1985 2019

2019

DNA methylation changes and somatic mutations as tumorigenic events in Lynch syndrome-associated adenomas retaining mismatch repair protein expression

Mäki-Nevala, S., Valo, S., Ristimaki, A., Sarhadi, V., Knuutila, S., Nyström, M., Renkonen-Sinisalo, L., Lepistö, A., Mecklin, J-P. & Peltomäki, P., Jan 2019, In : EBioMedicine. 39, p. 280-291 12 p.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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Different responses of colorectal cancer cells to alternative sequences of cetuximab and oxaliplatin

Narvi, E., Vaparanta, K., Karrila, A., Chakroborty, D., Knuutila, S., Pulliainen, A., Sundvall, M. & Elenius, K., 8 Nov 2018, In : Scientific Reports. 8, 13 p., 16579.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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Hotspot Mutations Detectable by Next-generation Sequencing in Exhaled Breath Condensates from Patients with Lung Cancer

Youssef, O., Knuuttila, A., Piirilä, P., Böhling, T., Sarhadi, V. & Knuutila, S., Oct 2018, In : Anticancer Research. 38, 10, p. 5627-5634 8 p.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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Stool Microbiota Composition Differs in Patients with Stomach, Colon, and Rectal Neoplasms

Youssef, O., Lahti, L., Kokkola, A., Karla, T., Tikkanen, M., Ehsan, H., Carpelan-Holmström, M. A., Koskensalo, S., Böhling, T., Rautelin, H., Puolakkainen, P., Knuutila, S. & Sarhadi, V., Nov 2018, In : Digestive Diseases and Sciences. 63, 11, p. 2950-2958 9 p.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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2017

Aberrant expression of ALK and EZH2 in Merkel cell carcinoma

Veija, T., Koljonen, V., Bohling, T., Kero, M., Knuutila, S. & Sarhadi, V. K., 31 Mar 2017, In : BMC Cancer. 17, 9 p., 236.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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ALK gene copy number in lung cancer: Unspecific polyploidy versus specific amplification visible as double minutes

Calio, A., Bria, E., Pilotto, S., Gilioli, E., Nottegar, A., Eccher, A., Cima, L., Santo, A., Pedron, S., Turri, G., Knuutila, S., Chilosi, M., Vanzo, F., Bogina, G., Terzi, A., Tortora, G., Scarpa, A., Loda, M., Martignoni, G. & Brunelli, M., 2017, In : Disease markers. Section A, Cancer biomarkers. 18, 2, p. 215-220 6 p.

Research output: Contribution to journalArticleScientificpeer-review

Bioinformatic solutions for chromosomal copy number analysis in cancer

Scheinin, I., 2017, Helsinki : University of Helsinki. 57 p.

Research output: ThesisDoctoral ThesisCollection of Articles

Digital Multiplex Ligation-Dependent Probe Amplification for Detection of Key Copy Number Alterations in T- and B-Cell Lymphoblastic Leukemia

Benard-Slagter, A., Zondervan, I., de Groot, K., Ghazavi, F., Sarhadi, V., Van Vlierberghe, P., De Moerloose, B., Schwab, C., Vettenranta, K., Harrison, C. J., Knuutila, S., Schouten, J., Lammens, T. & Savola, S., Sep 2017, In : Journal of Molecular Diagnostics. 19, 5, p. 659-672 14 p.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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Expression Analysis of Previously Verified Fecal and Plasma Down-regulated MicroRNAs (miR-4478, 1295-3p, 142-3p and 26a-5p), in FFPE Tissue Samples of CRC Patients

Ghanbari, R., Rezasoltani, S., Hashemi, J., Mohamadkhani, A., Tahmasebifar, A., Arefian, E., Mobarra, N., Asadi, J., Mojarad, E. N., Yazdani, Y., Knuutila, S. & Malekzadeh, R., Feb 2017, In : Archives of Iranian Medicine. 20, 2, p. 92-95 4 p.

Research output: Contribution to journalArticleScientificpeer-review

Gene mutations in stool from gastric and colorectal neoplasia patients by next-generation sequencing

Youssef, O., Sarhadi, V., Ehsan, H., Böhling, T., Carpelan-Holmström, M., Koskensalo, S., Puolakkainen, P., Kokkola, A. & Knuutila, S., 21 Dec 2017, In : World Journal of Gastroenterology. 23, 47, p. 8291-8299 9 p.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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Low Expression of miR-18a as a Characteristic of Pediatric Acute Lymphoblastic Leukemia

Mosakhani, N., El Missiry, M., Vakkila, E., Knuutila, S. & Vakkila, J., Nov 2017, In : Journal of pediatric hematology/oncology. 39, 8, p. 585-588 4 p.

Research output: Contribution to journalArticleScientificpeer-review

Narcolepsy patients' blood-based miRNA expression profiling: miRNA expression differences with Pandemrix vaccination

Mosakhani, N., Sarhadi, V., Panula, P., Partinen, M. & Knuutila, S., Nov 2017, In : Acta Neurologica Scandinavica. 136, 5, p. 462-469 8 p.

Research output: Contribution to journalArticleScientificpeer-review

Presence of cancer-associated mutations in exhaled breath condensates of healthy individuals by next generation sequencing

Youssef, O., Knuuttila, A., Piirilä, P., Böhling, T., Sarhadi, V. & Knuutila, S., 2017, In : Oncotarget. 8, 11, p. 18166-18176 11 p.

Research output: Contribution to journalArticleScientificpeer-review

Open Access

Reprofiling Metastatic Samples for Chromosome 9p and 14q Aberrations as a Strategy to Overcome Tumor Heterogeneity in Clear-cell Renal Cell Carcinoma

Massari, F., Ciccarese, C., Bria, E., Porta, C., La Russa, F., Knuutila, S., Artibani, W., Porcaro, A. B., Bimbatti, D., Modena, A., Sava, T., Tortora, G., Cheng, L., Eccher, A., Cima, L., Pedron, S., Ghimenton, C., Martignoni, G. & Brunelli, M., Jan 2017, In : Applied Immunohistochemistry & Molecular Morphology. 25, 1, p. 39-43 5 p.

Research output: Contribution to journalArticleScientificpeer-review

Validation of 34betaE12 immunoexpression in clear cell papillary renal cell carcinoma as a sensitive biomarker

Martignoni, G., Brunelli, M., Segala, D., Munari, E., Gobbo, S., Cima, L., Borze, I., Wirtanen, T., Sarhadi, V. K., Atanesyan, L., Savola, S., Barzon, L., Masi, G., Fassan, M., Eble, J. N., Bohling, T., Cheng, L., Delahunt, B. & Knuutila, S., Jan 2017, In : Pathology. 49, 1, p. 10-18 9 p.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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Wide spetcrum mutational analysis of metastatic renal cell cancer: a retrospective next generation sequencing approach

Fiorentino, M., Gruppioni, E., Massari, F., Giunchi, F., Altimari, A., Ciccarese, C., Bimbatti, D., Scarpa, A., Iacovelli, R., Porta, C., Virinder, S., Tortora, G., Artibani, W., Schiavina, R., Ardizzoni, A., Brunelli, M., Knuutila, S. & Martignoni, G., 2017, In : Oncotarget. 8, 5, p. 7328-7335 8 p.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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Driver Gene and Novel Mutations in Asbestos-Exposed Lung Adenocarcinoma and Malignant Mesothelioma Detected by Exome Sequencing

Maki-Nevala, S., Sarhadi, V. K., Knuuttila, A., Scheinin, I., Ellonen, P., Lagstrom, S., Ronty, M., Kettunen, E., Husgafvel-Pursiainen, K., Wolff, H. & Knuutila, S., Feb 2016, In : Lung. 194, 1, p. 125-135 11 p.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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Driver Gene Mutations in Stools of Colorectal Carcinoma Patients Detected by Targeted Next-Generation Sequencing

Armengol, G., Sarhadi, V. K., Ghanbari, R., Doghaei-Moghaddam, M., Ansari, R., Sotoudeh, M., Puolakkainen, P., Kokkola, A., Malekzadeh, R. & Knuutila, S., Jul 2016, In : Journal of Molecular Diagnostics. 18, 4, p. 471-479 9 p.

Research output: Contribution to journalArticleScientificpeer-review

Exhaled Breath Condensate as a Source of Biomarkers for Lung Carcinomas. A Focus on Genetic and Epigenetic Markers-A Mini-Review

Youssef, O., Sarhadi, V., Knuuttila, A. H., Piirilä, P., Armengol, G. & Knuutila, S., Dec 2016, In : Genes, Chromosomes & Cancer. 55, 12, p. 905-914 10 p.

Research output: Contribution to journalReview ArticleScientificpeer-review

Hot spot mutations in Finnish non-small cell lung cancers

Maki-Nevala, S., Sarhadi, V. K., Ronty, M., Kettunen, E., Husgafvel-Pursiainen, K., Wolff, H., Knuuttila, A. & Knuutila, S., Sep 2016, In : Lung Cancer. 99, p. 102-110 9 p.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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Hotspot mutations in polyomavirus positive and negative Merkel cell carcinomas

Veija, T., Sarhadi, V. K., Koljonen, V., Bohling, T. & Knuutila, S., 2016, In : Cancer Genetics. 209, 1-2, p. 30-35 6 p.

Research output: Contribution to journalArticleScientificpeer-review

Mutations by Next Generation Sequencing in Stool DNA from Colorectal Carcinoma Patients. A Literature Review and our Experience with this Methodology

Youssef, O., Sarhadi, V. K., Lehtimäki, L., Tikkanen, M., Kokkola, A., Puolakkainen, P., Armengol, G. & Knuutila, S., Jan 2016, In : Journal of Analytical Oncology. 5, 1, p. 24-32 9 p.

Research output: Contribution to journalReview ArticleScientificpeer-review

The Role of Chromosomal Instability and Epigenetics in Colorectal Cancers Lacking beta-Catenin/TCF Regulated Transcription

Abdel-Rahman, W. M., Lotsari-Salomaa, J. E., Kaur, S., Niskakoski (o.s. Tieva), A., Knuutila, S., Järvinen, H., Mecklin, J-P. & Peltomaki, P., 2016, In : Gastroenterology Research and Practice. 11 p., 6089658.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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2015

Cytogenetic and molecular genetic alterations in bone tumors

Niini, T. J. & Knuutila, S., 2015, Bone Cancer: Primary Bone Cancers and Bone Metastases. Heymann, D. (ed.). 2nd edition ed. Elsevier Academic Press, p. 319-339 21 p.

Research output: Chapter in Book/Report/Conference proceedingChapterScientificpeer-review

Decreased expression of fecal miR-4478 and miR-1295b-3p in early-stage colorectal cancer

Ghanbari, R., Mosakhani, N., Asadi, J., Nouraee, N., Mowla, S. J., Poustchi, H., Malekzadeh, R. & Knuutila, S., 2015, In : Disease markers. Section A, Cancer biomarkers. 15, 2, p. 195-201 7 p.

Research output: Contribution to journalArticleScientificpeer-review

Downregulation of plasma MiR-142-3p and MiR-26a-5p in patients with colorectal carcinoma

Ghanbari, R., Mosakhani, N., Asadi, J., Nouraee, N., Mowla, S. J., Yazdani, Y., Mohamadkhani, A., Poustchi, H., Knuutila, S. & Malekzadeh, R., 2015, In : Iranian Journal of Cancer Prevention. 8, 3, 6 p., e2329.

Research output: Contribution to journalArticleScientificpeer-review

Driver Gene Mutations of Non-Small-Cell Lung Cancer are Rare in Primary Carcinoids of the Lung: NGS Study by Ion Torrent

Armengol, G., Sarhadi, V. K., Ronty, M., Tikkanen, M., Knuuttila, A. & Knuutila, S., Apr 2015, In : Lung. 193, 2, p. 303-308 6 p.

Research output: Contribution to journalArticleScientificpeer-review

Genetic alterations in periprosthetic soft-tissue masses from patients with metal-on-metal hip replacement

Sarhadia, V. K., Parkkinen, J., Reito, A., Nieminen, J., Porkka, N., Wirtanen, T., Laitinen, M., Eskelinen, A. & Knuutila, S., Nov 2015, In : Mutation research : International journal of mutagenesis, chromosome breakage and related subjects.. 781, p. 1-6 6 p.

Research output: Contribution to journalArticleScientificpeer-review

miRNA-34a underexpressed in Merkel cell polyomavirus-negative Merkel cell carcinoma

Veija, T., Sahi, H., Koljonen, V., Bohling, T., Knuutila, S. & Mosakhani, N., Mar 2015, In : Virchows Archiv. 466, 3, p. 289-295 7 p.

Research output: Contribution to journalArticleScientificpeer-review

Monosomy of chromosome 17 in breast cancer during interpretation of HER2 gene amplification

Brunelli, M., Nottegar, A., Bogina, G., Calio, A., Cima, L., Eccher, A., Vicentini, C., Marcolini, L., Scarpa, A., Pedron, S., Brunello, E., Knuutila, S., Sapino, A., Marchio, C., Bria, E., Molino, A., Carbognin, L., Tortora, G., Jasani, B., Miller, K. & 10 othersMerdol, I., Zanatta, L., Laurino, L., Wirtanen, T., Zamboni, G., Marconi, M., Chilosi, M., Manfrin, E., Martignoni, G. & Bonetti, F., 2015, In : American journal of cancer research. 5, 7, p. 2212-2221 10 p.

Research output: Contribution to journalArticleScientificpeer-review

Pehmytkudoskasvainten diagnostiikka - moniammatillista yhteistyötä

Söderström, M., Dalin-Hirvonen, N., Mattila, K., Knuutila, S. & Kallajoki, M., 2015, In : Duodecim. 131, 8, p. 769-780 12 p.

Research output: Contribution to journalArticleProfessional

Simultaneous Underexpression of let-7a-5p and let-7f-5p microRNAs in Plasma and Stool Samples from Early Stage Colorectal Carcinoma: Supplementary Issue: Biomarkers for Colon Cancer

Ghanbari, R., Mosakhani, N., Sarhadi, V. K., Armengol, G., Nouraee, N., Mohammadkhani, A., Khorrami, S., Arefian, E., Paryan, M., Malekzadeh, R. & Knuutila, S., 1 Jan 2015, In : Biomarkers in Cancer. 7, Suppl 1, p. 39–48 10 p.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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2014

ALK/EML4 Fusion Gene May Be Found in Pure Squamous Carcinoma of the Lung

Calio, A., Nottegar, A., Gilioli, E., Bria, E., Pilotto, S., Peretti, U., Kinspergher, S., Simionato, F., Pedron, S., Knuutila, S., Tortora, G., Eccher, A., Santo, A., Tondulli, L., Inghirami, G., Tabbo, F., Martignoni, G., Chilosi, M., Scarpa, A. & Brunelli, M., May 2014, In : Journal of thoracic oncology.. 9, 5, p. 729-732 4 p.

Research output: Contribution to journalArticleScientificpeer-review

ALK Fusion and Its Association with Other Driver Gene Mutations in Finnish Non-Small Cell Lung Cancer Patients

Tuononen, K., Kero, M., Maki-Nevala, S., Sarhadi, V. K., Tikkanen, M., Wirtanen, T., Ronty, M. J., Knuuttila, A. & Knuutila, S., 1 Nov 2014, In : Genes, Chromosomes & Cancer. 53, 11, p. 895-901 7 p.

Research output: Contribution to journalArticleScientificpeer-review

Burkitt Lymphoma and Ewing Sarcoma in a Child With Williams Syndrome

Vanhapiha, N., Knuutila, S., Vettenranta, K. & Lohi, O., 1 Oct 2014, In : Pediatric Blood & Cancer. 61, 10, p. 1877-1879 3 p.

Research output: Contribution to journalArticleScientificpeer-review

Copy Number Alterations and Neoplasia-Specific Mutations in MELK, PDCD1LG2, TLN1, and PAX5 at 9p in Different Neoplasias

Sarhadi, V. K., Lahti, L., Scheinin, I., Ellonen, P., Kettunen, E., Serra, M., Scotlandi, K., Picci, P. & Knuutila, S., Jul 2014, In : Genes, Chromosomes & Cancer. 53, 7, p. 579-588 10 p.

Research output: Contribution to journalArticleScientificpeer-review

Differentiating soft tissue leiomyosarcoma and undifferentiated pleomorphic sarcoma: A miRNA analysis

Guled, M., Pazzaglia, L., Borze, I., Mosakhani, N., Novello, C., Benassi, M. S. & Knuutila, S., 1 Aug 2014, In : Genes, Chromosomes & Cancer. 53, 8, p. 693-702 10 p.

Research output: Contribution to journalArticleScientificpeer-review

Epidermal Growth Factor Receptor Mutations in 510 Finnish Non-Small-Cell Lung Cancer Patients

Maki-Nevala, S., Ronty, M., Morel, M., Gomez, M., Dawson, Z., Sarhadi, V. K., Telaranta-Keerie, A., Knuuttila, A. & Knuutila, S., Jun 2014, In : Journal of thoracic oncology.. 9, 6, p. 886-891 6 p.

Research output: Contribution to journalArticleScientificpeer-review

High-resolution SNP array analysis of patients with developmental disorder and normal array CGH result (vol 13, 84, 2012)

Siggberg, L., Ala-Mello, S., Linnankivi, T., Avela, K., Scheinin, I., Kristiansson, K., Lahermo, P., Hietala, M., Metsähonkala, L., Kuusinen, E., Laaksonen, M., Saarela, J. & Knuutila, S., 18 Nov 2014, In : BMC Medical Genetics. 15, 1 p., 124.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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Hoidollisesti merkittävien mutaatioiden testaaminen suolistosyövässä kohdistetulla uuden polven sekvensoinnilla

Knuutila, S., Mosakhani, N., Sarhadi, V., Mäki-Nevala, S., Wirtanen, T., Karjalainen-Lindsberg, M-L., Ellonen, P. & Österlund, P., 2014, In : Solubiologi. 32, 1, p. 21-29 9 p.

Research output: Contribution to journalArticleProfessional

Hsa-miR-31-3p Expression Is Linked to Progression-free Survival in Patients with KRAS Wild-type Metastatic Colorectal Cancer Treated with Anti-EGFR Therapy

Manceau, G., Imbeaud, S., Thiebaut, R., Liebaert, F., Fontaine, K., Rousseau, F., Genin, B., Le Corre, D., Didelot, A., Vincent, M., Bachet, J-B., Chibaudel, B., Bouche, O., Landi, B., Bibeau, F., Leroy, K., Penault-Llorca, F., Van Laethem, J-L., Demetter, P., Tejpar, S. & 9 othersRossi, S., Mosakhani, N., Osterlund, P., Ristamaki, R., Sarhadi, V., Knuutila, S., Boige, V., Andre, T. & Laurent-Puig, P., 15 Jun 2014, In : Clinical Cancer Research. 20, 12, p. 3338-3347 10 p.

Research output: Contribution to journalArticleScientificpeer-review

Malignant Mesothelioma: Mechanism of Carcinogenesis

Kane, A. B., Jean, D., Knuutila, S. & Jaurand, M-C., 2014, Occupational Cancers. Anttila, S. & Boffetta, P. (eds.). London: Springer, p. 299-319 21 p.

Research output: Chapter in Book/Report/Conference proceedingChapterScientificpeer-review

Malignant mesothelioma (molecular markers)

Kettunen, E. & Knuutila, S., 2014, Occupational Cancers: Clinical and Pathological Features, Assessment and Diagnosis. Anttila, S., Boffetta, P. & Straif, K. (eds.). London: Springer

Research output: Chapter in Book/Report/Conference proceedingChapterScientificpeer-review

MicroRNA Expression Profiles in Kaposi's Sarcoma

Catrina (Ene), A. M., Borze, I., Guled, M., Costache, M., Leen, G., Sajin, M., Ionica, E., Chitu, A. & Knuutila, S., Jan 2014, In : Pathology & oncology research. 20, 1, p. 153-159 7 p.

Research output: Contribution to journalArticleScientificpeer-review

RB1 gene in Merkel cell carcinoma: hypermethylation in all tumors and concurrent heterozygous deletions in the polyomavirus-negative subgroup

Sahi, H., Savola, S., Sihto, H., Koljonen, V., Bohling, T. & Knuutila, S., Dec 2014, In : APMIS. 122, 12, p. 1157-1166 10 p.

Research output: Contribution to journalArticleScientificpeer-review

Renal cell carcinoma with smooth muscle stroma lacks chromosome 3p and VHL alterations

Martignoni, G., Brunelli, M., Segala, D., Gobbo, S., Borze, I., Atanesyan, L., Savola, S., Barzon, L., Masi, G., Tardanico, R., Zhang, S., Eble, J. N., Chilosi, M., Bohling, T., Cheng, L., Delahunt, B. & Knuutila, S., May 2014, In : Modern Pathology. 27, 5, p. 765-774 10 p.

Research output: Contribution to journalArticleScientificpeer-review

2013

Comparison of Targeted Next-Generation Sequencing (NGS) and Real-Time PCR in the Detection of EGFR, KRAS, and BRAF Mutations on Formalin-Fixed, Paraffin-Embedded Tumor Material of Non-Small Cell Lung Carcinoma-Superiority of NGS

Tuononen, K., Mäki-Nevala, S., Sarhadi, V. K., Wirtanen, A., Rönty, M. J., Salmenkivi, K., Andrews, J. M., Telaranta-Keerie, A. I., Hannula, S., Lagström, S., Ellonen, P., Knuuttila, A. & Knuutila, S., 1 May 2013, In : Genes, Chromosomes & Cancer. 52, 5, p. 503-511 9 p.

Research output: Contribution to journalArticleScientificpeer-review