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Functional annotation of human long noncoding RNAs via molecular phenotyping.
Ramilowski JA, Yip CW, Agrawal S, Chang JC, Ciani Y, Kulakovskiy IV, Mendez M, Ooi JLC, Ouyang JF, Parkinson N, Petri A, Roos L, Severin J, Yasuzawa K, Abugessaisa I, Akalin A, Antonov IV, Arner E, Bonetti A, Bono H, Borsari B, Brombacher F, Cameron CJ, Cannistraci CV, 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 EL, Itoh M, Kaczkowski B, Kanhere A, Kawabata E, Kawaji H, Kawashima T, Kelly ST, Kojima M, Kondo N, Koseki H, Kouno T, Kratz A, Kurowska-Stolarska M, Kwon ATJ, Leek J, Lennartsson A, Lizio M, López-Redondo F, Luginbühl J, Maeda S, Makeev VJ, Marchionni L, Medvedeva YA, Minoda A, Müller F, Muñoz-Aguirre M, Murata M, Nishiyori H, Nitta KR, Noguchi S, Noro Y, Nurtdinov R, Okazaki Y, Orlando V, Paquette D, Parr CJC, Rackham OJL, Rizzu P, Sánchez Martinez DF, Sandelin A, Sanjana P, Semple CAM, Shibayama Y, Sivaraman DM, Suzuki T, Szumowski SC, Tagami M, Taylor MS, Terao C, Thodberg M, Thongjuea S, Tripathi V, Ulitsky I, Verardo R, Vorontsov IE, Yamamoto C, Young RS, Baillie JK, Forrest ARR, Guigó R, Hoffman … See abstract for full author list ➔ Ramilowski JA, et al. Among authors: mendez m. Genome Res. 2020 Jul;30(7):1060-1072. doi: 10.1101/gr.254219.119. Epub 2020 Jul 27. Genome Res. 2020. PMID: 32718982 Free PMC article.
An atlas of human long non-coding RNAs with accurate 5' ends.
Hon CC, Ramilowski JA, Harshbarger J, Bertin N, Rackham OJ, Gough J, Denisenko E, Schmeier S, Poulsen TM, Severin J, Lizio M, Kawaji H, Kasukawa T, Itoh M, Burroughs AM, Noma S, Djebali S, Alam T, Medvedeva YA, Testa AC, Lipovich L, Yip CW, Abugessaisa I, Mendez M, Hasegawa A, Tang D, Lassmann T, Heutink P, Babina M, Wells CA, Kojima S, Nakamura Y, Suzuki H, Daub CO, de Hoon MJ, Arner E, Hayashizaki Y, Carninci P, Forrest AR. Hon CC, et al. Among authors: mendez m. Nature. 2017 Mar 9;543(7644):199-204. doi: 10.1038/nature21374. Epub 2017 Mar 1. Nature. 2017. PMID: 28241135 Free PMC article.
Linking FANTOM5 CAGE peaks to annotations with CAGEscan.
Bertin N, Mendez M, Hasegawa A, Lizio M, Abugessaisa I, Severin J, Sakai-Ohno M, Lassmann T, Kasukawa T, Kawaji H, Hayashizaki Y, Forrest ARR, Carninci P, Plessy C. Bertin N, et al. Among authors: mendez m. Sci Data. 2017 Oct 3;4:170147. doi: 10.1038/sdata.2017.147. Sci Data. 2017. PMID: 28972578 Free PMC article.
C1 CAGE detects transcription start sites and enhancer activity at single-cell resolution.
Kouno T, Moody J, Kwon AT, Shibayama Y, Kato S, Huang Y, Böttcher M, Motakis E, Mendez M, Severin J, Luginbühl J, Abugessaisa I, Hasegawa A, Takizawa S, Arakawa T, Furuno M, Ramalingam N, West J, Suzuki H, Kasukawa T, Lassmann T, Hon CC, Arner E, Carninci P, Plessy C, Shin JW. Kouno T, et al. Among authors: mendez m. Nat Commun. 2019 Jan 21;10(1):360. doi: 10.1038/s41467-018-08126-5. Nat Commun. 2019. PMID: 30664627 Free PMC article.
Annotation of nuclear lncRNAs based on chromatin interactions.
Agrawal S, Buyan A, Severin J, Koido M, Alam T, Abugessaisa I, Chang HY, Dostie J, Itoh M, Kere J, Kondo N, Li Y, Makeev VJ, Mendez M, Okazaki Y, Ramilowski JA, Sigorskikh AI, Strug LJ, Yagi K, Yasuzawa K, Yip CW, Hon CC, Hoffman MM, Terao C, Kulakovskiy IV, Kasukawa T, Shin JW, Carninci P, de Hoon MJL. Agrawal S, et al. Among authors: mendez m. PLoS One. 2024 May 6;19(5):e0295971. doi: 10.1371/journal.pone.0295971. eCollection 2024. PLoS One. 2024. PMID: 38709794 Free PMC article.
We are MedChem: The Frontiers in Medicinal Chemistry 2024.
Schiedel M, Barbie P, Pape F, Pinto M, Unzue Lopez A, Méndez M, Hessler G, Merk D, Gehringer M, Lamers C. Schiedel M, et al. Among authors: mendez m. ChemMedChem. 2024 Sep 23:e202400543. doi: 10.1002/cmdc.202400543. Online ahead of print. ChemMedChem. 2024. PMID: 39308157
Better cardiovascular health is associated with slowed clinical progression in autosomal dominant frontotemporal lobar degeneration variant carriers.
VandeBunte AM, Lee H, Paolillo EW, Hsiung GR, Staffaroni AM, Saloner R, Tartaglia C, Yaffe K, Knopman DS, Ramos EM, Rascovsky K, Bozoki AC, Wong B, Domoto-Reilly K, Snyder A, Pressman P, Mendez MF, Litvan I, Fields JA, Galasko DR, Darby R, Masdeu JC, Pasqual MB, Honig LS, Ghoshal N, Appleby BS, Mackenzie IR, Heuer HW, Kramer JH, Boxer AL, Forsberg LK, Boeve B, Rosen HJ, Casaletto KB; ALLFTD Consortium. VandeBunte AM, et al. Among authors: mendez mf. Alzheimers Dement. 2024 Sep 6. doi: 10.1002/alz.14172. Online ahead of print. Alzheimers Dement. 2024. PMID: 39240048
1,840 results