Common genetic variants associated with urinary phthalate levels in children: A genome-wide study

Autor: Mariona Bustamante, Laura Balagué-Dobón, Zsanett Buko, Amrit Kaur Sakhi, Maribel Casas, Lea Maitre, Sandra Andrusaityte, Regina Grazuleviciene, Kristine B. Gützkow, Anne-Lise Brantsæter, Barbara Heude, Claire Philippat, Leda Chatzi, Marina Vafeiadi, Tiffany C. Yang, John Wright, Amy Hough, Carlos Ruiz-Arenas, Ramil N. Nurtdinov, Geòrgia Escaramís, Juan R. González, Cathrine Thomsen, Martine Vrijheid

Publikováno v: Environment International, Vol 190, Iss , Pp 108845- (2024)

Introduction: Phthalates, or dieters of phthalic acid, are a ubiquitous type of plasticizer used in a variety of common consumer and industrial products. They act as endocrine disruptors and are associated with increased risk for several diseases. On

Externí odkaz: https://doaj.org/article/2481c46b0f0a45f3bfb449d1864457fd

Search for specific biomarkers of IFNβ bioactivity in patients with multiple sclerosis.

Autor: Sunny Malhotra, Marta F Bustamante, Francisco Pérez-Miralles, Jordi Rio, Mari Carmen Ruiz de Villa, Esteban Vegas, Lara Nonell, Florian Deisenhammer, Nicolás Fissolo, Ramil N Nurtdinov, Xavier Montalban, Manuel Comabella

Publikováno v: PLoS ONE, Vol 6, Iss 8, p e23634 (2011)

Myxovirus A (MxA), a protein encoded by the MX1 gene with antiviral activity, has proven to be a sensitive measure of IFNβ bioactivity in multiple sclerosis (MS). However, the use of MxA as a biomarker of IFNβ bioactivity has been criticized for th

Externí odkaz: https://doaj.org/article/085a17e7d2fd4c4385a5efa829cbd86c

Dynamics of gene expression and chromatin marking during cell state transition

Autor: Emilio Palumbo, Roderic Guigó, Amaya Abad, Sanz M, Beatrice Borsari, Sílvia Pérez-Lluch, Bruna R. Correa, Cecilia C. Klein, Esteban A, Ramil N. Nurtdinov, Marina Ruiz-Romero, Rory Johnson

SummaryWe have monitored the transcriptomic and epigenomic status of cells at twelve time-points during the transdifferentiation of human pre-B cells into macrophages. Using this data, we have investigated some fundamental questions regarding the rol

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_________::e19431b41a0aabda06bf1a82d9f538cd
https://doi.org/10.1101/2020.11.20.391524

Functional annotation of human long noncoding RNAs via molecular phenotyping

Autor: Jayson Harshbarger, Hideya Kawaji, Diego Garrido, Michiel J. L. de Hoon, Tsugumi Kawashima, Lusy Handoko, Masayoshi Itoh, John F. Ouyang, Michihira Tagami, Kosuke Hashimoto, Andreas Petri, Patrizia Rizzu, Christopher J. F. Cameron, Tetsuro Hirose, Marina Lizio, Beatrice Borsari, Robert Young, Vidisha Tripathi, Chung-Chau Hon, Joachim Luginbühl, Ryan Cardenas, Jasmine Li Ching Ooi, Chikashi Terao, Vsevolod J. Makeev, Aki Minoda, Colin A. Semple, Alexander V. Favorov, Yasushi Okazaki, Kazuhiro R. Nitta, Mitsuyoshi Murata, Juha Kere, Harukazu Suzuki, Bogumil Kaczkowski, Fernando López-Redondo, Ivan Antonov, Mickaël Mendez, Diego Fernando Sánchez Martinez, Michael M. Hoffman, Chi Wai Yip, Imad Abugessaisa, Pillay Sanjana, Sakari Kauppinen, Erik Arner, Denis Paquette, Norihito Hayatsu, Ramil N. Nurtdinov, Mariola Kurowska-Stolarska, Luigi Marchionni, Takahiro Suzuki, Claudio Schneider, J Kenneth Baillie, Andrew T. Kwon, Saumya Agrawal, Carlo Vittorio Cannistraci, Roberto Verardo, Suzannah C. Szumowski, Frank Brombacher, Tsukasa Kouno, Boris Lenhard, Noa Gil, Manuel Muñoz-Aguirre, Shiori Maeda, Luca Ducoli, Emily Kawabata, Valerio Orlando, Leonie Roos, Divya M. Sivaraman, Youtaro Shibayama, Supat Thongjuea, Piero Carninci, Kayoko Yasuzawa, Jeffrey T. Leek, Alexandre Fort, Hidemasa Bono, Peter Heutink, Takeya Kasukawa, Alessandro Bonetti, Jen-Chien Chang, Josée Dostie, Naoto Kondo, Ferenc Müller, Nicholas J. Parkinson, Haruhiko Koseki, Malte Thodberg, Callum J.C. Parr, Anton Kratz, Miki Kojima, Reto Guler, Jordan A. Ramilowski, Alistair R. R. Forrest, Owen J. L. Rackham, Igor Ulitsky, Yari Ciani, Howard Y. Chang, Roderic Guigó, Jay W. Shin, Andreas Lennartsson, Ivan V. Kulakovskiy, Jessica Severin, Ilya E. Vorontsov, Melissa Cardon, Ken Yagi, Chinatsu Yamamoto, Yukihiko Noro, Juliette Gimenez, Shuhei Noguchi, Yuki Hasegawa, Eddie Luidy Imada, Martin S. Taylor, Yulia A. Medvedeva, Altuna Akalin, Albin Sandelin, Aditi Kanhere, S. Thomas Kelly, Hiromi Nishiyori, Akira Hasegawa

Publikováno v: Ramilowski, J A, Yip, C W, Agrawal, S, Chang, J-C, Ciani, Y, Kulakovskiy, I V, Mendez, M, Ooi, J L C, Ouyang, J F, Parkinson, N, Petri, A, Roos, L, Severin, J, Yasuzawa, K, Abugessaisa, I, Akalin, A, Antonov, I V, Arner, E, Bonetti, A, Bono, H, Borsari, B, Brombacher, F, Cameron, C JF, Cannistraci, C V, Cardenas, R, Cardon, M, Chang, H, Dostie, J, Ducoli, L, Favorov, A, Fort, A, Garrido, D, Gil, N, Gimenez, J, Guler, R, Handoko, L, Harshbarger, J, Hasegawa, A, Hasegawa, Y, Hashimoto, K, Hayatsu, N, Heutink, P, Hirose, T, Imada, E L, Itoh, M, Kaczkowski, B, Kanhere, A, Kawabata, E, Kawaji, H, Kawashima, T, Kelly, S T, Kojima, M, Kondo, N, Koseki, H, Kouno, T, Kratz, A, Kurowska-Stolarska, M, Kwon, A T J, Leek, J, Lennartsson, A, Lizio, M, López-Redondo, F, Luginbühl, J, Maeda, S, Makeev, V J, Marchionni, L, Medvedeva, Y A, Minoda, A, Müller, F, Muñoz-Aguirre, M, Murata, M, Nishiyori, H, Nitta, K R, Noguchi, S, Noro, Y, Nurtdinov, R, Okazaki, Y, Orlando, V, Paquette, D, Parr, C J C, Rackham, O J L, Rizzu, P, Sánchez Martinez, D F, Sandelin, A, Sanjana, P, Semple, C A M, Shibayama, Y, Sivaraman, D M, Suzuki, T, Szumowski, S C, Tagami, M, Taylor, M S, Terao, C, Thodberg, M, Thongjuea, S, Tripathi, V, Ulitsky, I, Verardo, R, Vorontsov, I E, Yamamoto, C, Young, R S, Baillie, J K, Forrest, A R R, Guigó, R, Hoffman, M M, Hon, C C, Kasukawa, T, Kauppinen, S, Kere, J, Lenhard, B, Schneider, C, Suzuki, H, Yagi, K, de Hoon, M J L, Shin, J W & Carninci, P 2020, ' Functional annotation of human long noncoding RNAs via molecular phenotyping ', Genome Research, vol. 30, no. 7, pp. 1060-1072 . https://doi.org/10.1101/gr.254219.119
Genome Research
Ramilowski, J A, Yip, C W, Agrawal, S, Chang, J-C, Ciani, Y, Kulakovskiy, I V, Mendez, M, Ooi, J L C, Ouyang, J F, Parkinson, N, Petri, A, Roos, L, Severin, J, Yasuzawa, K, Abugessaisa, I, Akalin, A, Antonov, I V, Arner, E, Bonetti, A, Bono, H, Borsari, B, Brombacher, F, Cameron, C J F, Cannistraci, C V, Cardenas, R, Cardon, M, Chang, H, Dostie, J, Ducoli, L, Favorov, A, Fort, A, Garrido, D, Gil, N, Gimenez, J, Guler, R, Handoko, L, Harshbarger, J, Hasegawa, A, Hasegawa, Y, Hashimoto, K, Hayatsu, N, Heutink, P, Hirose, T, Imada, E L, Itoh, M, Kaczkowski, B, Kanhere, A, Kawabata, E, Kawaji, H, Kawashima, T, Kelly, S T, Kojima, M, Kondo, N, Koseki, H, Kouno, T, Kratz, A, Kurowska-Stolarska, M, Kwon, A T J, Leek, J, Lennartsson, A, Lizio, M, López-Redondo, F, Luginbühl, J, Maeda, S, Makeev, V J, Marchionni, L, Medvedeva, Y A, Minoda, A, Müller, F, Muñoz-Aguirre, M, Murata, M, Nishiyori, H, Nitta, K R, Noguchi, S, Noro, Y, Nurtdinov, R, Okazaki, Y, Orlando, V, Paquette, D, Parr, C J C, Rackham, O J L, Rizzu, P, Sánchez Martinez, D F, Sandelin, A, Sanjana, P, Semple, C A M, Shibayama, Y, Sivaraman, D M, Suzuki, T, Szumowski, S C, Tagami, M, Taylor, M S, Terao, C, Thodberg, M, Thongjuea, S, Tripathi, V, Ulitsky, I, Verardo, R, Vorontsov, I E, Yamamoto, C, Young, R S, Baillie, J K, Forrest, A R R, Guigó, R, Hoffman, M M, Hon, C C, Kasukawa, T, Kauppinen, S, Kere, J, Lenhard, B, Schneider, C, Suzuki, H, Yagi, K, de Hoon, M J L, Shin, J W & Carninci, P 2020, ' Functional annotation of human long noncoding RNAs via molecular phenotyping ', Genome Research, vol. 30, pp. 1060-1072 . https://doi.org/10.1101/gr.254219.119
Ramilowski, J A, Yip, C W, Agrawal, S, Chang, J-C, Ciani, Y, Kulakovskiy, I V, Mendez, M, Ooi, J L C, Ouyang, J F, Parkinson, N, Petri, A, Roos, L, Severin, J, Yasuzawa, K, Abugessaisa, I, Akalin, A, Antonov, I V, Arner, E, Bonetti, A, Bono, H, Borsari, B, Brombacher, F, Cameron, C J F, Cannistraci, C V, Cardenas, R, Cardon, M, Chang, H, Dostie, J, Ducoli, L, Favorov, A, Fort, A, Garrido, D, Gil, N, Gimenez, J, Guler, R, Handoko, L, Harshbarger, J, Hasegawa, A, Hasegawa, Y, Hashimoto, K, Hayatsu, N, Heutink, P, Hirose, T, Imada, E L, Itoh, M, Kaczkowski, B, Kanhere, A, Kawabata, E, Kawaji, H, Kawashima, T, Kelly, S T, Kojima, M, Kondo, N, Koseki, H, Kouno, T, Kratz, A, Kurowska-Stolarska, M, Kwon, A T J, Leek, J, Lennartsson, A, Lizio, M, López-Redondo, F, Luginbühl, J, Maeda, S, Makeev, V J, Marchionni, L, Medvedeva, Y A, Minoda, A, Müller, F, Muñoz-Aguirre, M, Murata, M, Nishiyori, H, Nitta, K R, Noguchi, S, Noro, Y, Nurtdinov, R, Okazaki, Y, Orlando, V, Paquette, D, Parr, C J C, Rackham, O J L, Rizzu, P, Sánchez Martinez, D F, Sandelin, A, Sanjana, P, Semple, C A M, Shibayama, Y, Sivaraman, D M, Suzuki, T, Szumowski, S C, Tagami, M, Taylor, M S, Terao, C, Thodberg, M, Thongjuea, S, Tripathi, V, Ulitsky, I, Verardo, R, Vorontsov, I E, Yamamoto, C, Young, R S, Baillie, J K, Forrest, A R R, Guigó, R, Hoffman, M M, Hon, C C, Kasukawa, T, Kauppinen, S, Kere, J, Lenhard, B, Schneider, C, Suzuki, H, Yagi, K, de Hoon, M J L, Shin, J W & Carninci, P 2020, ' Functional annotation of human long noncoding RNAs via molecular phenotyping ', Genome Research . https://doi.org/10.1101/gr.254219.119
Ramilowski, J A, Yip, C W, Agrawal, S, Chang, J-C, Ciani, Y, Kulakovskiy, I V, Mendez, M, Ooi, J L C, Ouyang, J F, Parkinson, N, Petri, A, Roos, L, Severin, J, Yasuzawa, K, Abugessaisa, I, Akalin, A, Antonov, I V, Arner, E, Bonetti, A, Bono, H, Borsari, B, Brombacher, F, Cameron, C J F, Cannistraci, C V, Cardenas, R, Cardon, M, Chang, H, Dostie, J, Ducoli, L, Favorov, A, Fort, A, Garrido, D, Gil, N, Gimenez, J, Guler, R, Handoko, L, Harshbarger, J, Hasegawa, A, Hasegawa, Y, Hashimoto, K, Hayatsu, N, Heutink, P, Hirose, T, Imada, E L, Itoh, M, Kaczkowski, B, Kanhere, A, Kawabata, E, Kawaji, H, Kawashima, T, Kelly, S T, Kojima, M, Kondo, N, Koseki, H, Kouno, T, Kratz, A, Kurowska-Stolarska, M, Kwon, A T J, Leek, J, Lennartsson, A, Lizio, M, Lopez-Redondo, F, Luginbühl, J, Maeda, S, Makeev, V J, Marchionni, L, Medvedeva, Y A, Minoda, A, Müller, F, Muñoz-Aguirre, M, Murata, M, Nishiyori, H, Nitta, K R, Noguchi, S, Noro, Y, Nurtdinov, R, Okazaki, Y, Orlando, V, Paquette, D, Parr, C J C, Rackham, O J L, Rizzu, P, Martinez, D F S, Sandelin, A, Sanjana, P, Semple, C A M, Shibayama, Y, Sivaraman, D M, Suzuki, T, Szumowski, S C, Tagami, M, Taylor, M S, Terao, C, Thodberg, M, Thongjuea, S, Tripathi, V, Ulitsky, I, Verardo, R, Vorontsov, I E, Yamamoto, C, Young, R S, Baillie, J K, Forrest, A R R, Guigó, R, Hoffman, M M, Hon, C C, Kasukawa, T, Kauppinen, S, Kere, J, Lenhard, B, Schneider, C, Suzuki, H, Yagi, K, de Hoon, M J L, Shin, J W & Carninci, P 2020, ' Functional annotation of human long noncoding RNAs via molecular phenotyping ', Genome Research, vol. 30, no. 7, pp. 1060-1072 . https://doi.org/10.1101/gr.254219.119
Genome Res
Genome research 30(7), 1060-1072 (2020). doi:10.1101/gr.254219.119

Long noncoding RNAs (lncRNAs) constitute the majority of transcripts in the mammalian genomes, and yet, their functions remain largely unknown. As part of the FANTOM6 project, we systematically knocked down the expression of 285 lncRNAs in human derm

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::9cf2df2c4fb7df1b0612e3c14c9242a6
https://vbn.aau.dk/da/publications/9945d8a2-24bb-4411-ada7-c0664ae247f1

The effects of death and post-mortem cold ischemia on human tissue transcriptomes

Autor: Joaquín Dopazo, Patrícia Oliveira, Pedro G. Ferreira, Alessandra Breschi, Joao Curado, Dmitri D. Pervouchine, Marta R. Hidalgo, José Carbonell-Caballero, Caio P Sá Godinho, François Aguet, Ramil N. Nurtdinov, Michael Sammeth, Alicia Amadoz, Kristin G. Ardlie, Carla Oliveira, Manuel Muñoz-Aguirre, Cankut Çubuk, Abel Sousa, Reza Sodaei, Raziel Amador, Ferran Reverter, Roderic Guigó

Publikováno v: Nature Communications, Vol 9, Iss 1, Pp 1-15 (2018)
NATURE COMMUNICATIONS
r-FISABIO. Repositorio Institucional de Producción Científica
instname
Nature Communications
Recercat. Dipósit de la Recerca de Catalunya
UPCommons. Portal del coneixement obert de la UPC
Universitat Politècnica de Catalunya (UPC)
Repositório Científico de Acesso Aberto de Portugal
Repositório Científico de Acesso Aberto de Portugal (RCAAP)
instacron:RCAAP

Post-mortem tissues samples are a key resource for investigating patterns of gene expression. However, the processes triggered by death and the post-mortem interval (PMI) can significantly alter physiologically normal RNA levels. We investigate the i

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::84e3042e6ef3028b88dd68cc3afe1608
http://link.springer.com/article/10.1038/s41467-017-02772-x