Exploration and retrieval of whole-metagenome sequencing samples

por Seth, Sohan, Välimäki, Niko, Kaski, Samuel, Honkela, Antti
Publicado 2014

Fast scaffolding with small independent mixed integer programs

por Salmela, Leena, Mäkinen, Veli, Välimäki, Niko, Ylinen, Johannes, Ukkonen, Esko
Publicado 2011

Towards pan-genome read alignment to improve variation calling

por Valenzuela, Daniel, Norri, Tuukka, Välimäki, Niko, Pitkänen, Esa, Mäkinen, Veli
Publicado 2018

Frequent L1 retrotranspositions originating from TTC28 in colorectal cancer

por Pitkänen, Esa, Cajuso, Tatiana, Katainen, Riku, Kaasinen, Eevi, Välimäki, Niko, Palin, Kimmo, Taipale, Jussi, Aaltonen, Lauri A., Kilpivaara, Outi
Publicado 2014

Vitamin C boosts DNA demethylation in TET2 germline mutation carriers

por Taira, Aurora, Palin, Kimmo, Kuosmanen, Anna, Välimäki, Niko, Kuittinen, Outi, Kuismin, Outi, Kaasinen, Eevi, Rajamäki, Kristiina, Aaltonen, Lauri A.
Publicado 2023

Paneth cells as the origin of intestinal cancer in the context of inflammation

por Verhagen, Mathijs P., Joosten, Rosalie, Schmitt, Mark, Sacchetti, Andrea, Choi, Jiahn, Välimäki, Niko, Aaltonen, Lauri A., Augenlicht, Leonard H., Fodde, Riccardo
Publicado 2023

Inherited mutations affecting the SRCAP complex are central in moderate-penetrance predisposition to uterine leiomyomas

por Välimäki, Niko, Jokinen, Vilja, Cajuso, Tatiana, Kuisma, Heli, Taira, Aurora, Dagnaud, Olivia, Ilves, Sini, Kaukomaa, Jaana, Pasanen, Annukka, Palin, Kimmo, Heikinheimo, Oskari, Bützow, Ralf, Aaltonen, Lauri A., Karhu, Auli
Publicado 2023

Molecular subclass of uterine fibroids predicts tumor shrinkage in response to ulipristal acetate

por Kolterud, Åsa, Välimäki, Niko, Kuisma, Heli, Patomo, Joonatan, Ilves, Sini T, Mäkinen, Netta, Kaukomaa, Jaana, Palin, Kimmo, Kaasinen, Eevi, Karhu, Auli, Pasanen, Annukka, Bützow, Ralf, Heikinheimo, Oskari, Kopp Kallner, Helena, Aaltonen, Lauri A
Publicado 2022

Monomorphic genotypes within a generalist lineage of Campylobacter jejuni show signs of global dispersion

por Llarena, Ann-Katrin, Zhang, Ji, Vehkala, Minna, Välimäki, Niko, Hakkinen, Marjaana, Hänninen, Marja-Liisa, Roasto, Mati, Mäesaar, Mihkel, Taboada, Eduardo, Barker, Dillon, Garofolo, Giuliano, Cammà, Cesare, Di Giannatale, Elisabetta, Corander, Jukka, Rossi, Mirko
Publicado 2016

Sequence element enrichment analysis to determine the genetic basis of bacterial phenotypes

por Lees, John A., Vehkala, Minna, Välimäki, Niko, Harris, Simon R., Chewapreecha, Claire, Croucher, Nicholas J., Marttinen, Pekka, Davies, Mark R., Steer, Andrew C., Tong, Steven Y. C., Honkela, Antti, Parkhill, Julian, Bentley, Stephen D., Corander, Jukka
Publicado 2016

Exome-wide somatic mutation characterization of small bowel adenocarcinoma

por Hänninen, Ulrika A., Katainen, Riku, Tanskanen, Tomas, Plaketti, Roosa-Maria, Laine, Riku, Hamberg, Jiri, Ristimäki, Ari, Pukkala, Eero, Taipale, Minna, Mecklin, Jukka-Pekka, Forsström, Linda M., Pitkänen, Esa, Palin, Kimmo, Välimäki, Niko, Mäkinen, Netta, Aaltonen, Lauri A.
Publicado 2018

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

por Välimäki, Niko, Kuisma, Heli, Pasanen, Annukka, Heikinheimo, Oskari, Sjöberg, Jari, Bützow, Ralf, Sarvilinna, Nanna, Heinonen, Hanna-Riikka, Tolvanen, Jaana, Bramante, Simona, Tanskanen, Tomas, Auvinen, Juha, Uimari, Outi, Alkodsi, Amjad, Lehtonen, Rainer, Kaasinen, Eevi, Palin, Kimmo, Aaltonen, Lauri A
Publicado 2018

Parity associates with chromosomal damage in uterine leiomyomas

por Kuisma, Heli, Bramante, Simona, Rajamäki, Kristiina, Sipilä, Lauri J., Kaasinen, Eevi, Kaukomaa, Jaana, Palin, Kimmo, Mäkinen, Netta, Sjöberg, Jari, Sarvilinna, Nanna, Taipale, Jussi, Kauppi, Liisa, Tumiati, Manuela, Hassinen, Antti, Pitkäniemi, Janne, Jalkanen, Jyrki, Heikkinen, Sanna, Pasanen, Annukka, Heikinheimo, Oskari, Bützow, Ralf, Välimäki, Niko, Aaltonen, Lauri A.
Publicado 2021

Combined Analysis of Variation in Core, Accessory and Regulatory Genome Regions Provides a Super-Resolution View into the Evolution of Bacterial Populations

por McNally, Alan, Oren, Yaara, Kelly, Darren, Pascoe, Ben, Dunn, Steven, Sreecharan, Tristan, Vehkala, Minna, Välimäki, Niko, Prentice, Michael B., Ashour, Amgad, Avram, Oren, Pupko, Tal, Dobrindt, Ulrich, Literak, Ivan, Guenther, Sebastian, Schaufler, Katharina, Wieler, Lothar H., Zhiyong, Zong, Sheppard, Samuel K., McInerney, James O., Corander, Jukka
Publicado 2016

Retrotransposon insertions can initiate colorectal cancer and are associated with poor survival

por Cajuso, Tatiana, Sulo, Päivi, Tanskanen, Tomas, Katainen, Riku, Taira, Aurora, Hänninen, Ulrika A., Kondelin, Johanna, Forsström, Linda, Välimäki, Niko, Aavikko, Mervi, Kaasinen, Eevi, Ristimäki, Ari, Koskensalo, Selja, Lepistö, Anna, Renkonen-Sinisalo, Laura, Seppälä, Toni, Kuopio, Teijo, Böhm, Jan, Mecklin, Jukka-Pekka, Kilpivaara, Outi, Pitkänen, Esa, Palin, Kimmo, Aaltonen, Lauri A.
Publicado 2019

Genomic signatures of human and animal disease in the zoonotic pathogen Streptococcus suis

por Weinert, Lucy A., Chaudhuri, Roy R., Wang, Jinhong, Peters, Sarah E., Corander, Jukka, Jombart, Thibaut, Baig, Abiyad, Howell, Kate J., Vehkala, Minna, Välimäki, Niko, Harris, David, Chieu, Tran Thi Bich, Van Vinh Chau, Nguyen, Campbell, James, Schultsz, Constance, Parkhill, Julian, Bentley, Stephen D., Langford, Paul R., Rycroft, Andrew N., Wren, Brendan W., Farrar, Jeremy, Baker, Stephen, Hoa, Ngo Thi, Holden, Matthew T.G., Tucker, Alexander W., Maskell, Duncan J.
Publicado 2015

Erratum: Genomic signatures of human and animal disease in the zoonotic pathogen Streptococcus suis

por Weinert, Lucy A., Chaudhuri, Roy R., Wang, Jinhong, Peters, Sarah E., Corander, Jukka, Jombart, Thibaut, Baig, Abiyad, Howell, Kate J., Vehkala, Minna, Välimäki, Niko, Harris, David, Chieu, Tran Thi Bich, Van Vinh Chau, Nguyen, Campbell, James, Schultsz, Constance, Parkhill, Julian, Bentley, Stephen D., Langford, Paul R., Rycroft, Andrew N., Wren, Brendan W., Farrar, Jeremy, Baker, Stephen, Thi Hoa, Ngo, Holden, Matthew T.G., Tucker, Alexander W., Maskell, Duncan J.
Publicado 2015

Publisher Correction: Genomic signatures of human and animal disease in the zoonotic pathogen Streptococcus suis

por Weinert, Lucy A., Chaudhuri, Roy R., Wang, Jinhong, Peters, Sarah E., Corander, Jukka, Jombart, Thibaut, Baig, Abiyad, Howell, Kate J., Vehkala, Minna, Välimäki, Niko, Harris, David, Chieu, Tran Thi Bich, Van Vinh Chau, Nguyen, Campbell, James, Schultsz, Constance, Parkhill, Julian, Bentley, Stephen D., Langford, Paul R., Rycroft, Andrew N., Wren, Brendan W., Farrar, Jeremy, Baker, Stephen, Hoa, Ngo Thi, Holden, Matthew T. G., Tucker, Alexander W., Maskell, Duncan J.
Publicado 2019

Comprehensive evaluation of coding region point mutations in microsatellite‐unstable colorectal cancer

por Kondelin, Johanna, Salokas, Kari, Saarinen, Lilli, Ovaska, Kristian, Rauanheimo, Heli, Plaketti, Roosa‐Maria, Hamberg, Jiri, Liu, Xiaonan, Yadav, Leena, Gylfe, Alexandra E, Cajuso, Tatiana, Hänninen, Ulrika A, Palin, Kimmo, Ristolainen, Heikki, Katainen, Riku, Kaasinen, Eevi, Tanskanen, Tomas, Aavikko, Mervi, Taipale, Minna, Taipale, Jussi, Renkonen‐Sinisalo, Laura, Lepistö, Anna, Koskensalo, Selja, Böhm, Jan, Mecklin, Jukka‐Pekka, Ongen, Halit, Dermitzakis, Emmanouil T, Kilpivaara, Outi, Vahteristo, Pia, Turunen, Mikko, Hautaniemi, Sampsa, Tuupanen, Sari, Karhu, Auli, Välimäki, Niko, Varjosalo, Markku, Pitkänen, Esa, Aaltonen, Lauri A
Publicado 2018

Contribution of allelic imbalance to colorectal cancer

por Palin, Kimmo, Pitkänen, Esa, Turunen, Mikko, Sahu, Biswajyoti, Pihlajamaa, Päivi, Kivioja, Teemu, Kaasinen, Eevi, Välimäki, Niko, Hänninen, Ulrika A., Cajuso, Tatiana, Aavikko, Mervi, Tuupanen, Sari, Kilpivaara, Outi, van den Berg, Linda, Kondelin, Johanna, Tanskanen, Tomas, Katainen, Riku, Grau, Marta, Rauanheimo, Heli, Plaketti, Roosa-Maria, Taira, Aurora, Sulo, Päivi, Hartonen, Tuomo, Dave, Kashyap, Schmierer, Bernhard, Botla, Sandeep, Sokolova, Maria, Vähärautio, Anna, Gladysz, Kornelia, Ongen, Halit, Dermitzakis, Emmanouil, Bramsen, Jesper Bertram, Ørntoft, Torben Falck, Andersen, Claus Lindbjerg, Ristimäki, Ari, Lepistö, Anna, Renkonen-Sinisalo, Laura, Mecklin, Jukka-Pekka, Taipale, Jussi, Aaltonen, Lauri A.
Publicado 2018