Johns Hopkins School of Medicine

Sauvageau, M.*, Goff, L.A.*, Lodato, S.*, Bonev, B., Groff, A.F., Gerhardinger, C., Sanchez-Gomez, D., Hacisuleyman, E., Li, E., Spence, M., Liapis, S., Mallard, W., Morse, M., Swerdel, M., D’Ecclessis, M., Moore, J., Lai, V., Gong, G., Yancopolous, G., Frendewey, D., Kellis, M., Hart, R.P., Valenzuela, D., Arlotta, P., Rinn, J.L., (2013) Multiple knockout mouse models reveal lincRNAs are required for life and brain development. eLife 2013; 2:e01749 *Authors contributed equally PMCID: PMC3874104

Hacisuleyman, E.*, Goff, L.A.*, Trapnell, C., Sauvageau, M., Hendrickson, D., Kelley, D.R., McClanahan, P., Williams, A., Henao-Mejia, J., Sun, L., Engreitz, J., Guttman, M., Lander, E.S., Flavell, R., Lodish, H.F., Raj, A., Rinn, J.L. (2014) Topological organization of multi-chromosomal regions by the long intergenic noncoding RNA Firre. Nature Structural & Molecular Biology. 2014 Jan 26 *Authors contributed equally. PMCID: PMC3950333

Lodato, S., Molyneaux, B.J., Zuccaro, E., Goff, L.A., Chen, H., Yuan, W., Meleski, A., Takahashi, E., Mahoney, S., Rinn, J.L., Gifford, D.K., Arlotta, P. (2014) Gene co-regulation by Fezf2 selects neurotransmitter identity and connectivity of corticospinal neurons. Nature Neuroscience. 17:1046-1054.

Davila, J.L.*, Goff, L.A.*, Ricupero, C.L.*, Camarilla, C., Oni, E.N., Swerdel, M.R., Toro-Ramos, A.J., Li, J., Hart, R.P. (2014) A positive feedback mechanism that regulates expression of miR-9 during neurogenesis. PLoS One. April 2014 9(4):e94348. *Authors contributed equally. PMCID: PMC3979806

Di Ruscio, A., Ebralidze, A.K., Benoukraf, T., Amabile, G., Goff, L.A., Alberich-Jorda, M., Pradhan, S., Figueroa, M.E., D’Alo, F., Wu, M., Leone, G., Rinn, J.L., Tenen, D.G., (2013) DNMT1-non-coding RNA interaction modulates locus specific DNA methylation. Nature, 503:371-376. PMCID: PMC3870304

Henao-Mejia, J., Williams, A., Goff, L.A., Staron, M., Licona-Limon, P., Kaech, S.M., Nakayama, M., Rinn, J.L., Flavell, R.A., (2013) The microRNA miR-181 is a critical cellular metabolic rheostat essential for NKT cell. ontogenesis and lymphocyte development and homeostasis. Immunity, 38(5):984-97. PMCID: PMC3738211

Trapnell, C., Hendrickson, D.G., Sauvageau, M., Goff, L.A., Rinn, J.L., Pachter, L., (2013) Differential analysis of gene at transcript resolution with RNA-Seq.  Nature Biotechnology 31:46-53. PMCID: PMC3869392

Sun, L.*, Goff, L.A.*, Trapnell, C.*, Alexander, R., Lo, K.A., Kellis, M., Lodish, H., Rinn, J.L., (2013) Long noncoding RNAs regulate adipogenesis, PNAS 11(9):3387-3392 *Authors contributed equally PMCID: PMC3587215

Trapnell, C., Roberts, A., Goff, L.A., Pertea, G., Kim, D., Kelley, D. Pimentel, H., Salzberg, S., Rinn, J.L., Pachter, L., (2012) Differential Gene and Transcript Expression Analysis of RNA-Seq Experiments with TopHat and Cufflinks. Nature Protocols 7(3):562-578. PMCID: PMC3334321

Pichardo-Casas, I., Goff, L.A., Swerdel, M.R., Athie, A., Davila, J., Ramos-Brossier, M., Lapid-Volosin, M., Friedman, W., Hart, R.P., Vaca, L., (2012) Expression profiling of synaptic microRNAs from the adult rat brain identifies regional differences and seizure-induced regulation, Brain Research. 1436:20-33.

Cabili, N.M., Trapnell, C.B., Goff, L.A., Koziol, M.,Tazon-Vega, B., Regev, A., Rinn, J.L., (2011) Integrative analysis of human large intergenic non-coding RNAs reveals global properties and specific subclasses, Genes & Development, Advance online publication, 25:000-000 doi:10.1101/gad.17446611. PMCID: PMC3185964

Goff, L.A., Davila, J., Swerdel, M.R., Moore, J.C., Cohen, R.I., Wu, H., Sun, Y.E., Hart, R.P., (2009) Ago2 immunoprecipitation identifies predicted microRNAs in human embryonic stem cells and neural precursors, PLoS One (4)9: e7192, doi:10.1371/journal.pone.0007192. PMCID: PMC3587215

Chang, Y., Goff, L.A., Li, H., Kane-Goldsmith, N., Tzatzalos, E., Hart, R.P., Young, W., Grumet, M.,  (2009) Rapid induction of genes associated with tissue protection and neural development in contused adult spinal cord after radial glial cell transplantation, Journal of Neurotrauma. 26(7): 979-993 PMCID: PMC2848950

Li, H., Han, Y., Bi, C., Davila, J., Goff, L.A., Thompson, K.,  Swerdel, M.,  Camarillo, C.,  Ricupero, C.L., Hart, R.P., Plummer, M.R.,  Grumet, M., (2008) Functional differentiation of a clone resembling embryonic cortical interneuron progenitors, Developmental Neurobiology. 68(14): 1549-64. PMCID: PMC2743477

Goff, L.A., Boucher, S., Ricupero, C.L., Fenstermacher, S., Swerdel, M., Chase, L.G., Adams, C.C., Chesnut, J., Lakshmipathy, U., Hart, R.P., (2008) Differentiating human multipotent mesenchymal stromal cells regulate microRNAs: prediction of microRNAs regulation by PDGF during osteogenesis, J. Exp. Hematology. 36(10): 1354-1369 PMCID: PMC2782644