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Publications

2020

Molecular background delineates outcome of double protein expressor diffuse large B-cell lymphoma

Meriranta, L., Pasanen, A., Alkodsi, A., Haukka, J., Karjalainen-Lindsberg, M-L. & Leppä, S., 11 Aug 2020, In : Blood advances. 4, 15, p. 3742-3753 12 p.

Research output: Contribution to journalArticleScientificpeer-review

2019

Anduril 2: Upgraded large-scale data integration framework

Cervera, A., Rantanen, V., Ovaska, K., Laakso, M., Nuñez-Fontarnau, J., Alkodsi, A., Casado, J., Facciotto, C., Häkkinen, A., Louhimo, R., Karinen, S., Zhang, K., Lavikka, K., Lyly, L., Pal Singh, M. & Hautaniemi, S., 1 Oct 2019, In : Bioinformatics. 35, 19, p. 3815-3817 3 p.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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Computational investigation of cancer genomes

Alkodsi, A., 2019, Helsinki: [A. Alkodsi]. 50 p.

Research output: ThesisDoctoral ThesisCollection of Articles

Open Access

Distinct subtypes of diffuse large B-cell lymphoma defined by hypermutated genes

Alkodsi, A., Cervera, A., Zhang, K., Louhimo, R., Meriranta, L., Pasanen, A., Leivonen, S-K., Holte, H., Leppä, S., Lehtonen, R. & Hautaniemi, S., Nov 2019, In : Leukemia. 33, 11, p. 2662-2672 11 p.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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Impact of constitutional TET2 haploinsufficiency on molecular and clinical phenotype in humans

Kaasinen, E., Kuismin, O., Rajamäki, K., Ristolainen, H., Aavikko, M., Kondelin, J., Saarinen, S., Berta, D. G., Katainen, R., Hirvonen, E. A. M., Karhu, A., Taira, A., Tanskanen, T., Alkodsi, A., Taipale, M., Morgunova, E., Franssila, K., Lehtonen, R., Mäkinen, M., Aittomäki, K. & 15 others, Palotie, A., Kurki, M., Pietiläinen, O., Hilpert, M., Saarentaus, E., Niinimäki, J., Junttila, J., Kaikkonen, K., Vahteristo, P., Skoda, R. C., Seppänen, M. R. J., Eklund, K. K., Taipale, J., Kilpivaara, O. & Aaltonen, L. A., 19 Mar 2019, In : Nature Communications. 10, 17 p., 1252.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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2018

A Functional Homologous Recombination Assay Predicts Primary Chemotherapy Response and Long-Term Survival in Ovarian Cancer Patients

Tumiati, M., Hietanen, S., Hynninen, J., Pietilä, E., Färkkilä, A., Kaipio, K., Roering, P., Huhtinen, K., Alkodsi, A., Li, Y., Lehtonen, R., Erkan, E. P., Tuominen, M. M., Lehti, K., Hautaniemi, S. K., Vähärautio, A., Grenman, S., Carpen, O. & Kauppi, L., 15 Sep 2018, In : Clinical Cancer Research. 24, 18, p. 4482-4493 12 p.

Research output: Contribution to journalArticleScientificpeer-review

Evolutionary history of metastatic breast cancer reveals minimal seeding from axillary lymph nodes

Ullah, I., Karthik, G-M., Alkodsi, A., Kjallquist, U., Stalhammar, G., Lovrot, J., Martinez, N-F., Lagergren, J., Hautaniemi, S., Hartman, J. & Bergh, J., 2 Apr 2018, In : Journal of Clinical Investigation. 128, 4, p. 1355-1370 16 p.

Research output: Contribution to journalArticleScientificpeer-review

Exome sequencing of primary breast cancers with paired metastatic lesions reveals metastasis-enriched mutations in the A-kinase anchoring protein family (AKAPs)

Kjällquist, U., Erlandsson, R., Tobin, N. P., Alkodsi, A., Ullah, I., Stalhammar, G., Karlsson, E., Hatschek, T., Hartman, J., Linnarsson, S. & Bergh, J., 12 Feb 2018, In : BMC Cancer. 18, 17 p., 174.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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Genetic predisposition to uterine leiomyoma is determined by loci for genitourinary development and genome stability

Valimaki, N., Kuisma, H., Pasanen, A., Heikinheimo, O., Sjoberg, J., Butzow, R., Sarvilinna, N., Heinonen, H-R., Tolvanen, J., Bramante, S., Tanskanen, T., Auvinen, J., Uimari, O., Alkodsi, A., Lehtonen, R., Kaasinen, E., Palin, K. & Aaltonen, L. A., 18 Sep 2018, In : eLife. 7, 50 p., 37110.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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Identifying differentially methylated sites in samples with varying tumor purity

Häkkinen, A., Alkodsi, A., Facciotto, C., Zhang, K., Kaipio, K., Leppa, S., Carpen, O., Grenman, S., Hynninen, J., Hietanen, S., Lehtonen, R. & Hautaniemi, S., 15 Sep 2018, In : Bioinformatics. 34, 18, p. 3078-3085 8 p.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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2017

Deltex-1 mutations predict poor survival in diffuse large B-cell lymphoma

Meriranta, L., Pasanen, A., Louhimo, R., Cervera, A., Alkodsi, A., Autio, M., Taskinen, M., Rantanen, V., Karjalainen-Lindsberg, M-L., Holte, H., Delabie, J., Lehtonen, R., Hautaniemi, S. & Leppä, S., May 2017, In : Haematologica. 102, 5, p. E195-E198 4 p.

Research output: Contribution to journalArticleScientific

Open Access
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Intra-tumor heterogeneity in breast cancer has limited impact on transcriptomic-based molecular profiling

Karthik, G-M., Rantalainen, M., Stalhammar, G., Lovrot, J., Ullah, I., Alkodsi, A., Ma, R., Wedlund, L., Lindberg, J., Frisell, J., Bergh, J. & Hartman, J., 29 Nov 2017, In : BMC Cancer. 17, 11 p., 802.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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MicroRNAs regulate key cell survival pathways and mediate chemosensitivity during progression of diffuse large B- cell lymphoma

Leivonen, S-K., Icay, K., Jäntti, K., Siren, I., Liu, C., Alkodsi, A., Cervera, A., Ludvigsen, M., Hamilton-Dutoit, S. J., d'Amore, F., Karjalainen-Lindsberg, M-L., Delabie, J., Holte, H., Lehtonen, R., Hautaniemi, S. & Leppä, S., 15 Dec 2017, In : Blood cancer journal. 7, 11 p., 654.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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2015

Comparative analysis of methods for identifying somatic copy number alterations from deep sequencing data

Alkodsi, A., Louhimo, R. & Hautaniemi, S., Mar 2015, In : Briefings in Bioinformatics. 16, 2, p. 242-254 13 p.

Research output: Contribution to journalArticleScientificpeer-review