By Professor John Stanley Mattick

Preprints

Cummins M; Mattick J, 2025, Frequent functional orthology of long noncoding RNAs and genomic loci associated with complex traits and disorders, http://dx.doi.org/10.1101/2025.10.31.25339260

Mattick JSA; Bromley RE; Watson KJ; Adkins RS; Holt CI; Lebov JF; Sparklin BC; Tyson TS; Rasko DA; Hotopp JCD, 2024, Deciphering Bacterial and Archaeal Transcriptional Dark Matter and Its Architectural Complexity., http://dx.doi.org/10.1101/2024.04.02.587803

Gaonac’h-Lovejoy V; Mattick J; Sauvageau M; Smith M, 2024, ECSfinder : Optimized prediction of evolutionarily conserved RNA secondary structures from genome sequences, http://dx.doi.org/10.1101/2024.09.14.612549

Li X; Zhao Q; Wang Z; Liau W-S; Basic D; Ren H; Marshall PR; Zajaczkowski EL; Leighton LJ; Madugalle SU; Musgrove M; Periyakaruppiah A; Shi J; Zhang J; Mattick JS; Mercer TR; Wei W; Bredy TW, 2021, On the discovery of ADRAM, an experience-dependent long noncoding RNA that drives fear extinction through a direct interaction with the chaperone protein 14-3-3, http://dx.doi.org/10.1101/2021.08.01.454607

Pineda SS; Chin YK-Y; Undheim EAB; Senff S; Mobli M; Dauly C; Escoubas P; Nicholson GM; Kaas Q; Mattick JS; King GF, 2018, Structural venomics: evolution of a complex chemical arsenal by massive duplication and neofunctionalization of a single ancestral fold, http://dx.doi.org/10.1101/485722

Hobbs M; Ender C; Baillie GJ; Crawford J; Ru K; Taft RJ; Mattick J, 2018, Transcription initiation RNAs are associated with chromatin activation mark H3K4me3, http://dx.doi.org/10.1101/265827

Gagen MJ; Mattick JS, 2005, Accelerating, hyper-accelerating, and decelerating probabilistic networks, http://dx.doi.org/10.48550/arxiv.q-bio/0502013

Gagen MJ; Mattick JS, 2004, Failed "nonaccelerating" models of prokaryote gene regulatory networks, http://dx.doi.org/10.48550/arxiv.q-bio/0312022

Gagen MJ; Mattick JS, 2004, Inherent size constraints on prokaryote gene networks due to "accelerating" growth, http://dx.doi.org/10.48550/arxiv.q-bio/0312021

Croft LJ; Lercher MJ; Gagen MJ; Mattick JS, 2003, Is prokaryotic complexity limited by accelerated growth in regulatory overhead?, http://dx.doi.org/10.48550/arxiv.q-bio/0311021

Liu H; Begik O; Lucas MC; Mason CE; Schwartz S; Mattick JS; Smith MA; Novoa EM, Accurate detection of m6A RNA modifications in native RNA sequences, http://dx.doi.org/10.1101/525741

Novoa EM; Beaudoin J-D; Giraldez AJ; Mattick JS; Kellis M, Best practices for genome-wide RNA structure analysis: combination of mutational profiles and drop-off information, http://dx.doi.org/10.1101/176883

Begik O; Diensthuber G; Borovska I; Mattick JS; Incarnato D; Novoa EM, FIRST-seq: a nanopore-based cDNA sequencing platform for RNA modification and structure profiling, http://dx.doi.org/10.1101/2025.04.22.649934

Begik O; Diensthuber G; Liu H; Delgado-Tejedor A; Kontur C; Niazi AM; Valen E; Giraldez AJ; Beaudoin J-D; Mattick JS; Novoa EM, Nano3P-seq: transcriptome-wide analysis of gene expression and tail dynamics using end-capture nanopore cDNA sequencing, http://dx.doi.org/10.1101/2021.09.22.461331

Ersavas T; Smith MA; Mattick JS, Novel applications of Convolutional Neural Networks in the age of Transformers, http://dx.doi.org/10.21203/rs.3.rs-3868861/v1

Cox LB; Mattick JS; Middleton IA; Rizzuto FJ; Thordarson P, Specificity of the stabilising interaction between intrinsically disordered protein sequences and G-quadruplexes in RNA, http://dx.doi.org/10.1101/2025.10.19.683336

Jonkhout N; Cruciani S; Vieira HGS; Tran J; Liu H; Liu G; Pickford R; Kaczorowski D; Franco GR; Vauti F; Camacho N; Abedini SS; Najmabadi H; de Pouplana LR; Christ D; Schonrock N; Mattick JS; Novoa EM, Subcellular relocalization and nuclear redistribution of the RNA methyltransferases TRMT1 and TRMT1L upon neuronal activation, http://dx.doi.org/10.1101/2020.10.17.343772

Hardwick SA; Bassett SD; Kaczorowski D; Blackburn J; Barton K; Bartonicek N; Carswell SL; Tilgner HU; Loy C; Halliday G; Mercer TR; Smith MA; Mattick JS, Targeted, High-resolution RNA Sequencing of Non-coding Genomic Regions Associated with Neuropsychiatric Functions, http://dx.doi.org/10.1101/539882

Jung S; Cummins MJ; Altaf S; Heggen RJ; Poljak A; Ferguson L; Clemens K; Delerue F; Ittner LM; Mattick JS, The long noncoding RNA Dory is required for female but not male spatial learning and memory, http://dx.doi.org/10.64898/2026.04.01.715990

Deveson IW; Brunck ME; Blackburn J; Tseng E; Hon T; Clark TA; Clark MB; Crawford J; Dinger ME; Nielsen LK; Mattick JS; Mercer TR, Universal alternative splicing of noncoding exons, http://dx.doi.org/10.1101/136275

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