Immunogenomic profiling determines responses to combined PARP and PD-1 inhibition in ovarian cancer von Färkkilä, Anniina, Gulhan, Doga C., Casado, Julia, Jacobson, Connor A., Nguyen, Huy, Kochupurakkal, Bose, Maliga, Zoltan, Yapp, Clarence, Chen, Yu-An, Schapiro, Denis, Zhou, Yinghui, Graham, Julie R., Dezube, Bruce J., Munster, Pamela, Santagata, Sandro, Garcia, Elizabeth, Rodig, Scott, Lako, Ana, Chowdhury, Dipanjan, Shapiro, Geoffrey I., Matulonis, Ursula A., Park, Peter J., Hautaniemi, Sampsa, Sorger, Peter K., Swisher, Elizabeth M., D’Andrea, Alan D., Konstantinopoulos, Panagiotis A.

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Co-evolution of matrisome and adaptive adhesion dynamics drives ovarian cancer chemoresistance von Pietilä, Elina A., Gonzalez-Molina, Jordi, Moyano-Galceran, Lidia, Jamalzadeh, Sanaz, Zhang, Kaiyang, Lehtinen, Laura, Turunen, S. Pauliina, Martins, Tomás A., Gultekin, Okan, Lamminen, Tarja, Kaipio, Katja, Joneborg, Ulrika, Hynninen, Johanna, Hietanen, Sakari, Grénman, Seija, Lehtonen, Rainer, Hautaniemi, Sampsa, Carpén, Olli, Carlson, Joseph W., Lehti, Kaisa

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Biclustering methods: biological relevance and application in gene expression analysis von Oghabian, Ali, Kilpinen, Sami, Hautaniemi, Sampsa, Czeizler, Elena

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A Functional Homologous Recombination Assay Predicts Primary Chemotherapy Response and Long-Term Survival in Ovarian Cancer Patients von Tumiati, Manuela, Hietanen, Sakari, Hynninen, Johanna, Pietilä, Elina, Färkkilä, Anniina, Kaipio, Katja, Roering, Pia, Huhtinen, Kaisa, Alkodsi, Amjad, Li, Yilin, Lehtonen, Rainer, Erkan, Erdogan Pekcan, Tuominen, Minna M, Lehti, Kaisa, Hautaniemi, Sampsa K, Vähärautio, Anna, Grénman, Seija, Carpén, Olli, Kauppi, Liisa

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Evolutionary history of metastatic breast cancer reveals minimal seeding from axillary lymph nodes von Ullah, Ikram, Karthik, Govindasamy-Muralidharan, Alkodsi, Amjad, Kjällquist, Una, Stålhammar, Gustav, Lövrot, John, Martinez, Nelson-Fuentes, Lagergren, Jens, Hautaniemi, Sampsa, Hartman, Johan, Bergh, Jonas

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FoxA1 Specifies Unique Androgen and Glucocorticoid Receptor Binding Events in Prostate Cancer Cells von SAHU, Biswajyoti, LAAKSO, Marko, PIHLAJAMAA, Päivi, OVASKA, Kristian, SINIELNIKOV, Levgenii, HAUTANIEMI, Sampsa, JÄNNE, Olli A

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Origins and Impacts of New Mammalian Exons von Merkin, Jason J., Chen, Ping, Alexis, Maria S., Hautaniemi, Sampsa K., Burge, Christopher B.

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Virtual clinical trials identify effective combination therapies in ovarian cancer von Kozłowska, Emilia, Vallius, Tuulia, Hynninen, Johanna, Hietanen, Sakari, Färkkilä, Anniina, Hautaniemi, Sampsa

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Multiple Reaction Monitoring for Robust Quantitative Proteomic Analysis of Cellular Signaling Networks von Wolf-Yadlin, Alejandro, Hautaniemi, Sampsa, Lauffenburger, Douglas A., White, Forest M.

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Integrated network analysis platform for protein-protein interactions von Wu, Jianmin, Vallenius, Tea, Ovaska, Kristian, Westermarck, Jukka, Mäkelä, Tomi P, Hautaniemi, Sampsa

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Human cell transformation by combined lineage conversion and oncogene expression von Sahu, Biswajyoti, Pihlajamaa, Päivi, Zhang, Kaiyang, Palin, Kimmo, Ahonen, Saija, Cervera, Alejandra, Ristimäki, Ari, Aaltonen, Lauri A., Hautaniemi, Sampsa, Taipale, Jussi

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Dectin-1 pathway activates robust autophagy-dependent unconventional protein secretion in human macrophages von Öhman, Tiina, Teirilä, Laura, Lahesmaa-Korpinen, Anna-Maria, Cypryk, Wojciech, Veckman, Ville, Saijo, Shinobu, Wolff, Henrik, Hautaniemi, Sampsa, Nyman, Tuula A, Matikainen, Sampsa

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Protocol to identify defined reprogramming factor expression using a factor-indexing single-nuclei multiome sequencing approach von Fei, Liangru, Zhang, Kaiyang, Hautaniemi, Sampsa, Sahu, Biswajyoti

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Early maternal alcohol consumption alters hippocampal DNA methylation, gene expression and volume in a mouse model von Marjonen, Heidi, Sierra, Alejandra, Nyman, Anna, Rogojin, Vladimir, Gröhn, Olli, Linden, Anni-Maija, Hautaniemi, Sampsa, Kaminen-Ahola, Nina

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MYC Promotes Bone Marrow Stem Cell Dysfunction in Fanconi Anemia von Rodríguez, Alfredo, Zhang, Kaiyang, Färkkilä, Anniina, Filiatrault, Jessica, Yang, Chunyu, Velázquez, Martha, Furutani, Elissa, Goldman, Devorah C., García de Teresa, Benilde, Garza-Mayén, Gilda, McQueen, Kelsey, Sambel, Larissa A., Molina, Bertha, Torres, Leda, González, Marisol, Vadillo, Eduardo, Pelayo, Rosana, Fleming, William H., Grompe, Markus, Shimamura, Akiko, Hautaniemi, Sampsa, Greenberger, Joel, Frías, Sara, Parmar, Kalindi, D’Andrea, Alan D.

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PIK3R1 fusion drives chemoresistance in ovarian cancer by activating ERK1/2 and inducing rod and ring-like structures von Rausio, Heidi, Cervera, Alejandra, Heuser, Vanina D., West, Gun, Oikkonen, Jaana, Pianfetti, Elena, Lovino, Marta, Ficarra, Elisa, Taimen, Pekka, Hynninen, Johanna, Lehtonen, Rainer, Hautaniemi, Sampsa, Carpén, Olli, Huhtinen, Kaisa

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Genomic profile of pseudomyxoma peritonei analyzed using next‐generation sequencing and immunohistochemistry von Nummela, Pirjo, Saarinen, Lilli, Thiel, Alexandra, Järvinen, Petrus, Lehtonen, Rainer, Lepistö, Anna, Järvinen, Heikki, Aaltonen, Lauri A, Hautaniemi, Sampsa, Ristimäki, Ari

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Distinct subtypes of diffuse large B-cell lymphoma defined by hypermutated genes von Alkodsi, Amjad, Cervera, Alejandra, Zhang, Kaiyang, Louhimo, Riku, Meriranta, Leo, Pasanen, Annika, Leivonen, Suvi-Katri, Holte, Harald, Leppä, Sirpa, Lehtonen, Rainer, Hautaniemi, Sampsa

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Genome-wide quantification of copy-number aberration impact on gene expression in ovarian high-grade serous carcinoma von Jamalzadeh, Sanaz, Dai, Jun, Lavikka, Kari, Li, Yilin, Jiang, Jing, Huhtinen, Kaisa, Virtanen, Anni, Oikkonen, Jaana, Hietanen, Sakari, Hynninen, Johanna, Vähärautio, Anna, Häkkinen, Antti, Hautaniemi, Sampsa

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Lymphatic endothelium stimulates melanoma metastasis and invasion via MMP14-dependent Notch3 and β1-integrin activation von Pekkonen, Pirita, Alve, Sanni, Balistreri, Giuseppe, Gramolelli, Silvia, Tatti-Bugaeva, Olga, Paatero, Ilkka, Niiranen, Otso, Tuohinto, Krista, Perälä, Nina, Taiwo, Adewale, Zinovkina, Nadezhda, Repo, Pauliina, Icay, Katherine, Ivaska, Johanna, Saharinen, Pipsa, Hautaniemi, Sampsa, Lehti, Kaisa, Ojala, Päivi M

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