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Matrix and analysis metadata standards (MAMS) to facilitate harmonization and reproducibility of single-cell data.
Wang Y, Sarfraz I, Teh WK, Sokolov A, Herb BR, Creasy HH, Virshup I, Dries R, Degatano K, Mahurkar A, Schnell DJ, Madrigal P, Hilton J, Gehlenborg N, Tickle T, Campbell JD. Wang Y, et al. Among authors: madrigal p. bioRxiv [Preprint]. 2023 Mar 7:2023.03.06.531314. doi: 10.1101/2023.03.06.531314. bioRxiv. 2023. Update in: Genome Biol. 2024 Aug 1;25(1):205. doi: 10.1186/s13059-024-03349-w PMID: 36945543 Free PMC article. Updated. Preprint.
MAMS: matrix and analysis metadata standards to facilitate harmonization and reproducibility of single-cell data.
Sarfraz I, Wang Y, Shastry A, Teh WK, Sokolov A, Herb BR, Creasy HH, Virshup I, Dries R, Degatano K, Mahurkar A, Schnell DJ, Madrigal P, Hilton J, Gehlenborg N, Tickle T, Campbell JD. Sarfraz I, et al. Among authors: madrigal p. Genome Biol. 2024 Aug 1;25(1):205. doi: 10.1186/s13059-024-03349-w. Genome Biol. 2024. PMID: 39090672 Free PMC article.
Expression Atlas update: insights from sequencing data at both bulk and single cell level.
George N, Fexova S, Fuentes AM, Madrigal P, Bi Y, Iqbal H, Kumbham U, Nolte NF, Zhao L, Thanki AS, Yu ID, Marugan Calles JC, Erdos K, Vilmovsky L, Kurri SR, Vathrakokoili-Pournara A, Osumi-Sutherland D, Prakash A, Wang S, Tello-Ruiz MK, Kumari S, Ware D, Goutte-Gattat D, Hu Y, Brown N, Perrimon N, Vizcaíno JA, Burdett T, Teichmann S, Brazma A, Papatheodorou I. George N, et al. Among authors: madrigal p. Nucleic Acids Res. 2024 Jan 5;52(D1):D107-D114. doi: 10.1093/nar/gkad1021. Nucleic Acids Res. 2024. PMID: 37992296 Free PMC article.
Challenges and considerations for single-cell and spatially resolved transcriptomics sample collection during spaceflight.
Overbey EG, Das S, Cope H, Madrigal P, Andrusivova Z, Frapard S, Klotz R, Bezdan D, Gupta A, Scott RT, Park J, Chirko D, Galazka JM, Costes SV, Mason CE, Herranz R, Szewczyk NJ, Borg J, Giacomello S. Overbey EG, et al. Among authors: madrigal p. Cell Rep Methods. 2022 Oct 31;2(11):100325. doi: 10.1016/j.crmeth.2022.100325. eCollection 2022 Nov 21. Cell Rep Methods. 2022. PMID: 36452864 Free PMC article. Review.
Enhancing European capabilities for application of multi-omics studies in biology and biomedicine space research.
Manzano A, Weging S, Bezdan D, Borg J, Cahill T, Carnero-Diaz E, Cope H, Deane CS, Etheridge T, Giacomello S, Hardiman G, Leys N, Madrigal P, Mastroleo F, Medina FJ, Mieczkowski J, Fernandez-Rojo MA, Siew K, Szewczyk NJ, Walsh SB, da Silveira WA, Herranz R. Manzano A, et al. Among authors: madrigal p. iScience. 2023 Jul 12;26(9):107289. doi: 10.1016/j.isci.2023.107289. eCollection 2023 Sep 15. iScience. 2023. PMID: 37636054 Free PMC article. Review.
Heterozygous BTNL8 variants in individuals with multisystem inflammatory syndrome in children (MIS-C).
Bellos E, Santillo D, Vantourout P, Jackson HR, Duret A, Hearn H, Seeleuthner Y, Talouarn E, Hodeib S, Patel H, Powell O, Yeoh S, Mustafa S, Habgood-Coote D, Nichols S, Estramiana Elorrieta L, D'Souza G, Wright VJ, Estrada-Rivadeneyra D, Tremoulet AH, Dummer KB, Netea SA, Condino-Neto A, Lau YL, Núñez Cuadros E, Toubiana J, Holanda Pena M, Rieux-Laucat F, Luyt CE, Haerynck F, Mège JL, Chakravorty S, Haddad E, Morin MP, Metin Akcan Ö, Keles S, Emiroglu M, Alkan G, Tüter Öz SK, Elmas Bozdemir S, Morelle G, Volokha A, Kendir-Demirkol Y, Sözeri B, Coskuner T, Yahsi A, Gulhan B, Kanik-Yuksek S, Bayhan GI, Ozkaya-Parlakay A, Yesilbas O, Hatipoglu N, Ozcelik T, Belot A, Chopin E, Barlogis V, Sevketoglu E, Menentoglu E, Gayretli Aydin ZG, Bloomfield M, AlKhater SA, Cyrus C, Stepanovskiy Y, Bondarenko A, Öz FN, Polat M, Fremuth J, Lebl J, Geraldo A, Jouanguy E; COVID-19 Human Genetic Effort; DIAMONDS; EUCLIDS; Carter MJ, Wellman P, Peters M, Pérez de Diego R, Edwards LA, Chiu C, Noursadeghi M, Bolze A, Shimizu C, Kaforou M, Hamilton MS, Herberg JA, Schmitt EG, Rodriguez-Palmero A, Pujol A, Kim J, Cobat A, Abel L, Zhang SY, Casanova JL, Kuijpers TW, Burns JC, Levin M, Hayday AC, Sancho-Shim… See abstract for full author list ➔ Bellos E, et al. J Exp Med. 2024 Dec 2;221(12):e20240699. doi: 10.1084/jem.20240699. Epub 2024 Nov 22. J Exp Med. 2024. PMID: 39576310 Free PMC article.
52 results