Tool evaluation for the detection of variably sized indels from next generation whole genome and targeted sequencing data von Wang, Ning, Lysenkov, Vladislav, Orte, Katri, Kairisto, Veli, Aakko, Juhani, Khan, Sofia, Elo, Laura L

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Systematic evaluation of differential splicing tools for RNA-seq studies von Mehmood, Arfa, Laiho, Asta, Venäläinen, Mikko S, McGlinchey, Aidan J, Wang, Ning, Elo, Laura L

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ROTS: An R package for reproducibility-optimized statistical testing von Suomi, Tomi, Seyednasrollah, Fatemeh, Jaakkola, Maria K, Faux, Thomas, Elo, Laura L

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Enhanced differential expression statistics for data-independent acquisition proteomics von Suomi, Tomi, Elo, Laura L.

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Polymorphism in interferon alpha/beta receptor contributes to glucocorticoid response and outcome of ARDS and COVID-19 von Jalkanen, Juho, Khan, Sofia, Elima, Kati, Huttunen, Teppo, Wang, Ning, Hollmén, Maija, Elo, Laura L, Jalkanen, Sirpa

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VarSCAT: A computational tool for sequence context annotations of genomic variants von Wang, Ning, Khan, Sofia, Elo, Laura L

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Development of prediction model for alanine transaminase elevations during the first 6 months of conventional synthetic DMARD treatment von Kuusalo, Laura, Venäläinen, Mikko S., Kirjala, Heidi, Saranpää, Sofia, Elo, Laura L., Pirilä, Laura

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Computational solutions for spatial transcriptomics von Kleino, Iivari, Frolovaitė, Paulina, Suomi, Tomi, Elo, Laura L.

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A systematic comparison of FOSL1, FOSL2 and BATF-mediated transcriptional regulation during early human Th17 differentiation von Shetty, Ankitha, Tripathi, Subhash Kumar, Junttila, Sini, Buchacher, Tanja, Biradar, Rahul, Bhosale, Santosh D, Envall, Tapio, Laiho, Asta, Moulder, Robert, Rasool, Omid, Galande, Sanjeev, Elo, Laura L, Lahesmaa, Riitta

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Computational strategies for single-cell multi-omics integration von Adossa, Nigatu, Khan, Sofia, Rytkönen, Kalle T., Elo, Laura L.

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Evaluation of tools for identifying large copy number variations from ultra-low-coverage whole-genome sequencing data von Smolander, Johannes, Khan, Sofia, Singaravelu, Kalaimathy, Kauko, Leni, Lund, Riikka J, Laiho, Asta, Elo, Laura L

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SMG6 localizes to the chromatoid body and shapes the male germ cell transcriptome to drive spermatogenesis von Lehtiniemi, Tiina, Bourgery, Matthieu, Ma, Lin, Ahmedani, Ammar, Mäkelä, Margareeta, Asteljoki, Juho, Olotu, Opeyemi, Laasanen, Samuli, Zhang, Fu-Ping, Tan, Kun, Chousal, Jennifer N, Burow, Dana, Koskinen, Satu, Laiho, Asta, Elo, Laura L, Chalmel, Frédéric, Wilkinson, Miles F, Kotaja, Noora

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Development and validation of a weight-loss predictor to assist weight loss management von Biehl, Alexander, Venäläinen, Mikko S., Suojanen, Laura U., Kupila, Sakris, Ahola, Aila J., Pietiläinen, Kirsi H., Elo, Laura L.

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A note on an exon-based strategy to identify differentially expressed genes in RNA-seq experiments von Laiho, Asta, Elo, Laura L

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Distinct cellular immune responses in children en route to type 1 diabetes with different first-appearing autoantibodies von Starskaia, Inna, Valta, Milla, Pietilä, Sami, Suomi, Tomi, Pahkuri, Sirpa, Kalim, Ubaid Ullah, Rasool, Omid, Rydgren, Emilie, Hyöty, Heikki, Knip, Mikael, Veijola, Riitta, Ilonen, Jorma, Toppari, Jorma, Lempainen, Johanna, Elo, Laura L., Lahesmaa, Riitta

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Benchmarking tools for detecting longitudinal differential expression in proteomics data allows establishing a robust reproducibility optimization regression approach von Välikangas, Tommi, Suomi, Tomi, Chandler, Courtney E., Scott, Alison J., Tran, Bao Q., Ernst, Robert K., Goodlett, David R., Elo, Laura L.

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Compressive stress-mediated p38 activation required for ERα + phenotype in breast cancer von Munne, Pauliina M., Martikainen, Lahja, Räty, Iiris, Bertula, Kia, Nonappa, Ruuska, Janika, Ala-Hongisto, Hanna, Peura, Aino, Hollmann, Babette, Euro, Lilya, Yavuz, Kerim, Patrikainen, Linda, Salmela, Maria, Pokki, Juho, Kivento, Mikko, Väänänen, Juho, Suomi, Tomi, Nevalaita, Liina, Mutka, Minna, Kovanen, Panu, Leidenius, Marjut, Meretoja, Tuomo, Hukkinen, Katja, Monni, Outi, Pouwels, Jeroen, Sahu, Biswajyoti, Mattson, Johanna, Joensuu, Heikki, Heikkilä, Päivi, Elo, Laura L., Metcalfe, Ciara, Junttila, Melissa R., Ikkala, Olli, Klefström, Juha

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PIM kinases regulate early human Th17 cell differentiation von Buchacher, Tanja, Shetty, Ankitha, Koskela, Saara A., Smolander, Johannes, Kaukonen, Riina, Sousa, António G.G., Junttila, Sini, Laiho, Asta, Rundquist, Olof, Lönnberg, Tapio, Marson, Alexander, Rasool, Omid, Elo, Laura L., Lahesmaa, Riitta

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Lack of androgen receptor SUMOylation results in male infertility due to epididymal dysfunction von Zhang, Fu-Ping, Malinen, Marjo, Mehmood, Arfa, Lehtiniemi, Tiina, Jääskeläinen, Tiina, Niskanen, Einari A., Korhonen, Hanna, Laiho, Asta, Elo, Laura L., Ohlsson, Claes, Kotaja, Noora, Poutanen, Matti, Sipilä, Petra, Palvimo, Jorma J.

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A practical comparison of methods for detecting transcription factor binding sites in ChIP-seq experiments von Laajala, Teemu D, Raghav, Sunil, Tuomela, Soile, Lahesmaa, Riitta, Aittokallio, Tero, Elo, Laura L

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