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Gateways to the FANTOM5 promoter level mammalian expression atlas.
Lizio M, Harshbarger J, Shimoji H, Severin J, Kasukawa T, Sahin S, Abugessaisa I, Fukuda S, Hori F, Ishikawa-Kato S, Mungall CJ, Arner E, Baillie JK, Bertin N, Bono H, de Hoon M, Diehl AD, Dimont E, Freeman TC, Fujieda K, Hide W, Kaliyaperumal R, Katayama T, Lassmann T, Meehan TF, Nishikata K, Ono H, Rehli M, Sandelin A, Schultes EA, 't Hoen PA, Tatum Z, Thompson M, Toyoda T, Wright DW, Daub CO, Itoh M, Carninci P, Hayashizaki Y, Forrest AR, Kawaji H; FANTOM consortium. Lizio M, et al. Among authors: kaliyaperumal r. Genome Biol. 2015 Jan 5;16(1):22. doi: 10.1186/s13059-014-0560-6. Genome Biol. 2015. PMID: 25723102 Free PMC article.
Discovery of widespread transcription initiation at microsatellites predictable by sequence-based deep neural network.
Grapotte M, Saraswat M, Bessière C, Menichelli C, Ramilowski JA, Severin J, Hayashizaki Y, Itoh M, Tagami M, Murata M, Kojima-Ishiyama M, Noma S, Noguchi S, Kasukawa T, Hasegawa A, Suzuki H, Nishiyori-Sueki H, Frith MC; FANTOM consortium; Chatelain C, Carninci P, de Hoon MJL, Wasserman WW, Bréhélin L, Lecellier CH. Grapotte M, et al. Nat Commun. 2021 Jun 2;12(1):3297. doi: 10.1038/s41467-021-23143-7. Nat Commun. 2021. PMID: 34078885 Free PMC article.
The Implicitome: A Resource for Rationalizing Gene-Disease Associations.
Hettne KM, Thompson M, van Haagen HH, van der Horst E, Kaliyaperumal R, Mina E, Tatum Z, Laros JF, van Mulligen EM, Schuemie M, Aten E, Li TS, Bruskiewich R, Good BM, Su AI, Kors JA, den Dunnen J, van Ommen GJ, Roos M, 't Hoen PA, Mons B, Schultes EA. Hettne KM, et al. Among authors: kaliyaperumal r. PLoS One. 2016 Feb 26;11(2):e0149621. doi: 10.1371/journal.pone.0149621. eCollection 2016. PLoS One. 2016. PMID: 26919047 Free PMC article.
Author Correction: Discovery of widespread transcription initiation at microsatellites predictable by sequence-based deep neural network.
Grapotte M, Saraswat M, Bessière C, Menichelli C, Ramilowski JA, Severin J, Hayashizaki Y, Itoh M, Tagami M, Murata M, Kojima-Ishiyama M, Noma S, Noguchi S, Kasukawa T, Hasegawa A, Suzuki H, Nishiyori-Sueki H, Frith MC; FANTOM consortium; Chatelain C, Carninci P, de Hoon MJL, Wasserman WW, Bréhélin L, Lecellier CH. Grapotte M, et al. Nat Commun. 2022 Mar 1;13(1):1200. doi: 10.1038/s41467-022-28758-y. Nat Commun. 2022. PMID: 35232988 Free PMC article. No abstract available.
Timing and localization of human dystrophin isoform expression provide insights into the cognitive phenotype of Duchenne muscular dystrophy.
Doorenweerd N, Mahfouz A, van Putten M, Kaliyaperumal R, T' Hoen PAC, Hendriksen JGM, Aartsma-Rus AM, Verschuuren JJGM, Niks EH, Reinders MJT, Kan HE, Lelieveldt BPF. Doorenweerd N, et al. Among authors: kaliyaperumal r. Sci Rep. 2017 Oct 3;7(1):12575. doi: 10.1038/s41598-017-12981-5. Sci Rep. 2017. PMID: 28974727 Free PMC article.
From Peer-Reviewed to Peer-Reproduced in Scholarly Publishing: The Complementary Roles of Data Models and Workflows in Bioinformatics.
González-Beltrán A, Li P, Zhao J, Avila-Garcia MS, Roos M, Thompson M, van der Horst E, Kaliyaperumal R, Luo R, Lee TL, Lam TW, Edmunds SC, Sansone SA, Rocca-Serra P. González-Beltrán A, et al. Among authors: kaliyaperumal r. PLoS One. 2015 Jul 8;10(7):e0127612. doi: 10.1371/journal.pone.0127612. eCollection 2015. PLoS One. 2015. PMID: 26154165 Free PMC article.
Applying the FAIR Data Principles to the Registry of Vascular Anomalies (VASCA).
Dos Santos Vieira B, Groenen K, 't Hoen PAC, Jacobsen A, Roos M, Kaliyaperumal R, Kersloot M, Cornet R, Schultze Kool L. Dos Santos Vieira B, et al. Among authors: kaliyaperumal r. Stud Health Technol Inform. 2020 Jun 23;271:115-116. doi: 10.3233/SHTI200085. Stud Health Technol Inform. 2020. PMID: 32578552
Author Correction: Timing and localization of human dystrophin isoform expression provide insights into the cognitive phenotype of Duchenne muscular dystrophy.
Doorenweerd N, Mahfouz A, van Putten M, Kaliyaperumal R, T' Hoen PAC, Hendriksen JGM, Aartsma-Rus AM, Verschuuren JJGM, Niks EH, Reinders MJT, Kan HE, Lelieveldt BPF. Doorenweerd N, et al. Among authors: kaliyaperumal r. Sci Rep. 2018 Mar 1;8(1):4058. doi: 10.1038/s41598-018-22154-7. Sci Rep. 2018. PMID: 29497163 Free PMC article.
De-novo FAIRification via an Electronic Data Capture system by automated transformation of filled electronic Case Report Forms into machine-readable data.
Kersloot MG, Jacobsen A, Groenen KHJ, Dos Santos Vieira B, Kaliyaperumal R, Abu-Hanna A, Cornet R, 't Hoen PAC, Roos M, Schultze Kool L, Arts DL. Kersloot MG, et al. Among authors: kaliyaperumal r. J Biomed Inform. 2021 Oct;122:103897. doi: 10.1016/j.jbi.2021.103897. Epub 2021 Aug 26. J Biomed Inform. 2021. PMID: 34454078 Free article.
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