Buen Abad Najar CF, Burra P, Yosef N*, Lareau LF*. Identifying cell-state associated alternative splicing events and their co-regulation. bioRxiv, 2021.

Agrawal S, Fanton A, Chandrasekaran S, Charrez B, Escajeda AM, Son S, McIntosh R, Bhuiya A, Diaz de Leon Derby M, Switz NA, Armstrong M, Harris AR, Prywes N, Lukarska M, Biering SB, Smock DCJ, Mok A, Knott GJ, Dang Q, Van Dis E, Dugan E, Kim S, Liu TY, IGI Testing Consortium, Harris E, Stanley SA, Lareau LF, Tan MX, Fletcher DA, Doudna JA, Savage DF, Hsu PD. Rapid, point-of-care molecular diagnostics with Cas13. medRxiv, 2021.

Cope AL, Anderson F, Favate J, Jackson M, Mok A, Kurowska A, Liu J, MacKenzie E, Shivakumar V, Tilton P, Winterbourne SM, Xue S, Kavoussanakis K, Lareau LF*, Shah P*, Wallace EJW*. riboviz 2: A flexible and robust ribosome profiling data analysis and visualization workflow. Bioinformatics, 2022.

Liu TY, Knott GJ, Smock DCJ, Desmarais JJ, Son S, Bhuiya A, Jakhanwal S, Prywes N, Agrawal S, Diaz de Leon Derby M, Switz NA, Armstrong M, Harris AR, Charles EJ, Thornton BW, Fozouni P, Shu J, Stephens SI, Kumar GR, Zhao C, Mok A, Iavarone AT, Escajeda AM, McIntosh R, Kim S, Dugan EJ; IGI Testing Consortium, Pollard KS, Tan MX, Ott M, Fletcher DA, Lareau LF, Hsu PD, Savage DF, Doudna JA. Accelerated RNA detection using tandem CRISPR nucleases. Nature Chemical Biology, 2021.

Deng X, Garcia-Knight MA, Khalid MM, Servellita V, Wang C, Morris MK, Sotomayor-Gonzalez A, Glasner DR, Reyes KR, Gliwa AS, Reddy NP, Sanchez San Martin C, Federman S, Cheng J, Balcerek J, Taylor J, Streithorst JA, Miller S, Sreekumar B, Chen PY, Schulze-Gahmen U, Taha TY, Hayashi JM, Simoneau CR, Kumar GR, McMahon S, Lidsky PV, Xiao Y, Hemarajata P, Green NM, Espinosa A, Kath C, Haw M, Bell J, Hacker JK, Hanson C, Wadford DA, Anaya C, Ferguson D, Frankino PA, Shivram H, Lareau LF, Wyman SK, Ott M, Andino R, Chiu CY. Transmission, infectivity, and neutralization of a spike L452R SARS-CoV-2 variant. Cell, 2021.

Buen Abad Najar CF, Yosef N*, Lareau LF*. Coverage-dependent bias creates the appearance of binary splicing in single cells. eLife, 2020.

Tunney RJ*, McGlincy NJ*, Graham ME, Naddaf N, Pachter L, Lareau LF. Accurate design of translational output by a neural network model of ribosome distribution. Nature Structural & Molecular Biology, 2018. [pdf] [PubMed]

Lareau LF, Brenner SE. Regulation of splicing factors by alternative splicing and NMD is conserved between kingdoms yet evolutionarily flexible. Molecular Biology and Evolution, 2015. [pdf] [PubMed]

Lareau LF*, Hite DH*, Hogan GJ, Brown PO. Distinct stages of the translation elongation cycle revealed by sequencing ribosome-protected mRNA fragments. eLife, 2014. [pdf] [PubMed]

Ingolia NT, Lareau LF, Weissman JS. Ribosome profiling of mouse embryonic stem cells reveals the complexity and dynamics of mammalian proteomes. Cell, 2011. [pdf] [PubMed]

Hansen KD*, Lareau LF*, Blanchette M, Green RE, Meng Q, Rehwinkel J, Gallusser FL, Izaurralde E, Rio DC, Dudoit S, Brenner SE. Genome-wide identification of alternative splice forms down-regulated by nonsense-mediated mRNA decay in Drosophila. PLoS Genetics, 2009. [pdf] [PubMed]

Lareau LF*, Inada M*, Green RE, Wengrod JC, Brenner SE. Unproductive splicing of SR genes associated with highly conserved and ultraconserved DNA elements. Nature, 2007. [pdf] [suppl info pdf] [PubMed]

The FANTOM Consortium. The transcriptional landscape of the mammalian genome. Science, 2005. [pdf] [PubMed]

Green RE, Lewis BP, Hillman RT, Blanchette M, Lareau LF, Garnett A, Rio DC, Brenner SE. Widespread predicted nonsense-mediated mRNA decay of alternatively-spliced transcripts of human normal and disease genes. Bioinformatics, 2003. [PubMed]

Lareau LF, Brooks AN, Soergel DAW, Meng Q, Brenner SE. The coupling of alternative splicing and nonsense-mediated mRNA decay. In Blencowe B and Graveley B, ed., Alternative splicing in the post-genomic era, 2007. [pdf] [PubMed]

Soergel DAW, Lareau LF, Brenner SE. Regulation of gene expression by the coupling of alternative splicing and nonsense-mediated mRNA decay. In Maquat L, ed., Nonsense-mediated mRNA decay, 2006.

Lareau LF, Green RE, Bhatnagar RS, Brenner SE. The evolving roles of alternative splicing. Current Opinion in Structural Biology, 2004. [pdf] [PubMed]