Brown DV, Swierczak A, You Y, You Y, Amann-Zalcenstein D, Hickey P, Hsu A, Ritchie ME, Alhamdoosh M, Field J, Bowden R. A dataset examining technical factors on fixed white blood cell single-cell RNA-seq. Data in Brief. 2024;57:10.1016/j.dib.2024.111096
Gocuk SA, Lancaster J, Su S, Jolly JK, Edwards TL, Hickey DG, Ritchie ME, Blewitt ME, Ayton LN, Gouil Q. Measuring X-Chromosome inactivation skew for X-linked diseases with adaptive nanopore sequencing.Genome Research. 2024;:10.1101/gr.279396.124
Luo M-X, Tan T, Trussart M, Poch A, Nguyen M-HT, Speed TP, Hicks DG, Bandala-Sanchez E, Peng H, Chappaz S, Slade C, Utzschneider DT, Koldej RM, Ritchie D, Strasser A, Thijssen R, Ritchie ME, Tam CSL, Lindeman GJ, Huang DCS, Lew TE, Anderson MA, Roberts AW, Teh CE, Gray DHD. Venetoclax Dose Escalation Rapidly Activates a BAFF/BCL-2 Survival Axis in Chronic Lymphocytic Leukemia. Blood. 2024;:10.1182/blood.2024024341
Zeglinski K, Montellese C, Ritchie ME, Alhamdoosh M, Vonarburg C, Bowden R, Jordi M, Gouil Q, Aeschimann F, Hsu A. An optimized protocol for quality control of gene therapy vectors using nanopore direct RNA sequencing.Genome Research. 2024;:10.1101/gr.279405.124
Blücher RO, Lim RS, Ritchie ME, Western PS. VEGF-dependent testicular vascularisation involves MEK1/2 signalling and the essential angiogenesis factors, SOX7 and SOX17. BMC Biology. 2024;22(1):10.1186/s12915-024-02003-y
You Y, Fu Y, Li L, Zhang Z, Jia S, Lu S, Ren W, Liu Y, Xu Y, Liu X, Jiang F, Peng G, Sampath Kumar A, Ritchie ME, Liu X, Tian L. Systematic comparison of sequencing-based spatial transcriptomic methods. Nature Methods. 2024;21(9):10.1038/s41592-024-02325-3
Liew LC, You Y, Auroux L, Oliva M, Peirats-Llobet M, Ng S, Tamiru-Oli M, Berkowitz O, Hong UVT, Haslem A, Stuart T, Ritchie ME, Bassel GW, Lister R, Whelan J, Gouil Q, Lewsey MG. Establishment of single-cell transcriptional states during seed germination. Nature Plants. 2024;10(9):10.1038/s41477-024-01771-3
Chiou S, Al-Ani AH, Pan Y, Patel KM, Kong IY, Whitehead LW, Light A, Young SN, Barrios M, Sargeant C, Rajasekhar P, Zhu L, Hempel A, Lin A, Rickard JA, Hall C, Gangatirkar P, Yip RK, Cawthorne W, Jacobsen AV, Horne CR, Martin KR, Ioannidis LJ, Hansen DS, Day J, Wicks IP, Law C, Ritchie ME, Bowden R, Hildebrand JM, O’Reilly LA, Silke J, Giulino-Roth L, Tsui E, Rogers KL, Hawkins ED, Christensen B, Murphy JM, Samson AL. An immunohistochemical atlas of necroptotic pathway expression. EMBO Molecular Medicine. 2024;16(7):10.1038/s44321-024-00074-6
Pardo-Palacios FJ, Wang D, Reese F, Diekhans M, Carbonell-Sala S, Williams B, Loveland JE, De María M, Adams MS, Balderrama-Gutierrez G, Behera AK, Gonzalez Martinez JM, Hunt T, Lagarde J, Liang CE, Li H, Meade MJ, Moraga Amador DA, Prjibelski AD, Birol I, Bostan H, Brooks AM, Çelik MH, Chen Y, Du MRM, Felton C, Göke J, Hafezqorani S, Herwig R, Kawaji H, Lee J, Li J-L, Lienhard M, Mikheenko A, Mulligan D, Nip KM, Pertea M, Ritchie ME, Sim AD, Tang AD, Wan YK, Wang C, Wong BY, Yang C, Barnes I, Berry AE, Capella-Gutierrez S, Cousineau A, Dhillon N, Fernandez-Gonzalez JM, Ferrández-Peral L, Garcia-Reyero N, Götz S, Hernández-Ferrer C, Kondratova L, Liu T, Martinez-Martin A, Menor C, Mestre-Tomás J, Mudge JM, Panayotova NG, Paniagua A, Repchevsky D, Ren X, Rouchka E, Saint-John B, Sapena E, Sheynkman L, Smith ML, Suner M-M, Takahashi H, Youngworth IA, Carninci P, Denslow ND, Guigó R, Hunter ME, Maehr R, Shen Y, Tilgner HU, Wold BJ, Vollmers C, Frankish A, Au KF, Sheynkman GM, Mortazavi A, Conesa A, Brooks AN. Systematic assessment of long-read RNA-seq methods for transcript identification and quantification. Nature Methods. 2024;21(7):10.1038/s41592-024-02298-3
Cheng O, Ling MH, Wang C, Wu S, Ritchie ME, Göke J, Amin N, Davidson NM. Flexiplex: a versatile demultiplexer and search tool for omics data. Bioinformatics. 2024;40(3):10.1093/bioinformatics/btae102
