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Loyal A. Goff - Publications

Affiliations: 
Massachusetts Institute of Technology, Cambridge, MA, United States 
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50 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2023 Zheng SC, Stein-O'Brien G, Boukas L, Goff LA, Hansen KD. Pumping the brakes on RNA velocity by understanding and interpreting RNA velocity estimates. Genome Biology. 24: 246. PMID 37885016 DOI: 10.1186/s13059-023-03065-x  0.349
2022 Zheng SC, Stein-O'Brien G, Augustin JJ, Slosberg J, Carosso GA, Winer B, Shin G, Bjornsson HT, Goff LA, Hansen KD. Universal prediction of cell-cycle position using transfer learning. Genome Biology. 23: 41. PMID 35101061 DOI: 10.1186/s13059-021-02581-y  0.746
2021 Stein-O'Brien GL, Clark BS, Sherman T, Zibetti C, Hu Q, Sealfon R, Liu S, Qian J, Colantuoni C, Blackshaw S, Goff LA, Fertig EJ. Decomposing Cell Identity for Transfer Learning across Cellular Measurements, Platforms, Tissues, and Species. Cell Systems. 12: 203. PMID 33600760 DOI: 10.1016/j.cels.2021.01.005  0.645
2021 Stein-O'Brien GL, Clark BS, Sherman T, Zibetti C, Hu Q, Sealfon R, Liu S, Qian J, Colantuoni C, Blackshaw S, Goff LA, Fertig EJ. Decomposing Cell Identity for Transfer Learning across Cellular Measurements, Platforms, Tissues, and Species. Cell Systems. 12: 203. PMID 33600760 DOI: 10.1016/j.cels.2021.01.005  0.645
2021 Harman CCD, Bailis W, Zhao J, Hill L, Qu R, Jackson RP, Shyer JA, Steach HR, Kluger Y, Goff LA, Rinn JL, Williams A, Henao-Mejia J, Flavell RA. An in vivo screen of noncoding loci reveals that is a gatekeeper of an Ikaros-dependent checkpoint during haematopoiesis. Proceedings of the National Academy of Sciences of the United States of America. 118. PMID 33446502 DOI: 10.1073/pnas.1918062118  0.592
2020 Lu Y, Shiau F, Yi W, Lu S, Wu Q, Pearson JD, Kallman A, Zhong S, Hoang T, Zuo Z, Zhao F, Zhang M, Tsai N, Zhuo Y, He S, ... ... Goff LA, et al. Single-Cell Analysis of Human Retina Identifies Evolutionarily Conserved and Species-Specific Mechanisms Controlling Development. Developmental Cell. PMID 32386599 DOI: 10.1016/J.Devcel.2020.04.009  0.412
2020 Friesen M, Warren CR, Yu H, Toyohara T, Ding Q, Florido MHC, Sayre C, Pope BD, Goff LA, Rinn JL, Cowan CA. Mitoregulin Controls β-Oxidation in Human and Mouse Adipocytes. Stem Cell Reports. PMID 32243843 DOI: 10.1016/J.Stemcr.2020.03.002  0.56
2019 Heng JS, Hackett SF, Stein-O'Brien GL, Winer BL, Williams J, Goff LA, Nathans J. Comprehensive analysis of a mouse model of spontaneous uveoretinitis using single-cell RNA sequencing. Proceedings of the National Academy of Sciences of the United States of America. PMID 31843893 DOI: 10.1073/Pnas.1915571116  0.446
2019 Myint L, Wang R, Boukas L, Hansen KD, Goff LA, Avramopoulos D. A screen of 1,049 schizophrenia and 30 Alzheimer's-associated variants for regulatory potential. American Journal of Medical Genetics. Part B, Neuropsychiatric Genetics : the Official Publication of the International Society of Psychiatric Genetics. PMID 31503409 DOI: 10.1002/Ajmg.B.32761  0.319
2019 Carosso GA, Boukas L, Augustin JJ, Nguyen HN, Winer BL, Cannon GH, Robertson JD, Zhang L, Hansen KD, Goff LA, Bjornsson HT. Precocious neuronal differentiation and disrupted oxygen responses in Kabuki syndrome. Jci Insight. PMID 31465303 DOI: 10.1172/Jci.Insight.129375  0.751
2019 Davis-Marcisak EF, Sherman TD, Orugunta P, Stein-O'Brien GL, Puram SV, Roussos Torres ET, Hopkins AC, Jaffee EM, Favorov AV, Afsari B, Goff LA, Fertig EJ. Differential variation analysis enables detection of tumor heterogeneity using single-cell RNA-sequencing data. Cancer Research. PMID 31337651 DOI: 10.1158/0008-5472.Can-18-3882  0.33
2019 Clark BS, Stein-O'Brien GL, Shiau F, Cannon GH, Davis-Marcisak E, Sherman T, Santiago CP, Hoang TV, Rajaii F, James-Esposito RE, Gronostajski RM, Fertig EJ, Goff LA, Blackshaw S. Single-Cell RNA-Seq Analysis of Retinal Development Identifies NFI Factors as Regulating Mitotic Exit and Late-Born Cell Specification. Neuron. PMID 31128945 DOI: 10.1016/J.Neuron.2019.04.010  0.49
2019 Stein-O'Brien GL, Clark BS, Sherman T, Zibetti C, Hu Q, Sealfon R, Liu S, Qian J, Colantuoni C, Blackshaw S, Goff LA, Fertig EJ. Decomposing Cell Identity for Transfer Learning across Cellular Measurements, Platforms, Tissues, and Species. Cell Systems. 8: 395-411.e8. PMID 31121116 DOI: 10.1016/J.Cels.2019.04.004  0.722
2019 Heng JS, Rattner A, Stein-O'Brien GL, Winer BL, Jones BW, Vernon HJ, Goff LA, Nathans J. Hypoxia tolerance in the Norrin-deficient retina and the chronically hypoxic brain studied at single-cell resolution. Proceedings of the National Academy of Sciences of the United States of America. PMID 30988181 DOI: 10.1073/Pnas.1821122116  0.395
2019 Davis-Marcisak EF, Orugunta P, Stein-O'Brien G, Puram SV, Torres ER, Hopkins A, Jaffee EM, Favorov AV, Afsari B, Goff LA, Fertig EJ. Abstract 4697: Expression variation analysis for tumor heterogeneity in single-cell RNA-sequencing data Cancer Research. DOI: 10.1158/1538-7445.Sabcs18-4697  0.439
2018 Sabbagh MF, Heng JS, Luo C, Castanon RG, Nery JR, Rattner A, Goff LA, Ecker JR, Nathans J. Transcriptional and epigenomic landscapes of CNS and non-CNS vascular endothelial cells. Elife. 7. PMID 30188322 DOI: 10.7554/Elife.36187  0.413
2018 Hook PW, McClymont SA, Cannon GH, Law WD, Morton AJ, Goff LA, McCallion AS. Single-Cell RNA-Seq of Mouse Dopaminergic Neurons Informs Candidate Gene Selection for Sporadic Parkinson Disease. American Journal of Human Genetics. 102: 427-446. PMID 29499164 DOI: 10.1016/J.Ajhg.2018.02.001  0.348
2018 Chevée M, Robertson JJ, Cannon GH, Brown SP, Goff LA. Variation in Activity State, Axonal Projection, and Position Define the Transcriptional Identity of Individual Neocortical Projection Neurons. Cell Reports. 22: 441-455. PMID 29320739 DOI: 10.1016/J.Celrep.2017.12.046  0.375
2018 Sabbagh MF, Heng JS, Luo C, Castanon RG, Nery JR, Rattner A, Goff LA, Ecker JR, Nathans J. Author response: Transcriptional and epigenomic landscapes of CNS and non-CNS vascular endothelial cells Elife. DOI: 10.7554/Elife.36187.042  0.304
2017 Mowel WK, McCright SJ, Kotzin JJ, Collet MA, Uyar A, Chen X, DeLaney A, Spencer SP, Virtue AT, Yang E, Villarino A, Kurachi M, Dunagin MC, Pritchard GH, Stein J, ... ... Goff LA, et al. Group 1 Innate Lymphoid Cell Lineage Identity Is Determined by a cis-Regulatory Element Marked by a Long Non-coding RNA. Immunity. 47: 435-449.e8. PMID 28930659 DOI: 10.1016/J.Immuni.2017.08.012  0.661
2016 Pham X, Song G, Lao S, Goff L, Zhu H, Valle D, Avramopoulos D. The DPYSL2 gene connects mTOR and schizophrenia. Translational Psychiatry. 6: e933. PMID 27801893 DOI: 10.1038/Tp.2016.204  0.365
2016 Kotzin JJ, Spencer SP, McCright SJ, Kumar DB, Collet MA, Mowel WK, Elliott EN, Uyar A, Makiya MA, Dunagin MC, Harman CC, Virtue AT, Zhu S, Bailis W, Stein J, ... ... Goff LA, et al. The long non-coding RNA Morrbid regulates Bim and short-lived myeloid cell lifespan. Nature. PMID 27525555 DOI: 10.1038/Nature19346  0.694
2016 Feyder M, Goff LA. Investigating long noncoding RNAs using animal models. The Journal of Clinical Investigation. 126: 2783-91. PMID 27479747 DOI: 10.1172/Jci84422  0.437
2016 Hart RP, Goff LA. Long Noncoding RNAs: Central to Nervous System Development. International Journal of Developmental Neuroscience : the Official Journal of the International Society For Developmental Neuroscience. PMID 27296516 DOI: 10.1016/J.Ijdevneu.2016.06.001  0.546
2015 Gottschalk LB, Vecchio-Pagan B, Sharma N, Han ST, Franca A, Wohler ES, Batista DA, Goff LA, Cutting GR. Creation and characterization of an airway epithelial cell line for stable expression of CFTR variants. Journal of Cystic Fibrosis : Official Journal of the European Cystic Fibrosis Society. PMID 26694805 DOI: 10.1016/J.Jcf.2015.11.010  0.309
2015 Goff LA, Rinn JL. Linking RNA biology to lncRNAs. Genome Research. 25: 1456-65. PMID 26430155 DOI: 10.1101/Gr.191122.115  0.682
2015 Goff LA, Groff AF, Sauvageau M, Trayes-Gibson Z, Sanchez-Gomez DB, Morse M, Martin RD, Elcavage LE, Liapis SC, Gonzalez-Celeiro M, Plana O, Li E, Gerhardinger C, Tomassy GS, Arlotta P, et al. Spatiotemporal expression and transcriptional perturbations by long noncoding RNAs in the mouse brain. Proceedings of the National Academy of Sciences of the United States of America. PMID 26034286 DOI: 10.1073/Pnas.1411263112  0.79
2015 Molyneaux BJ, Goff LA, Brettler AC, Chen HH, Brown JR, Hrvatin S, Rinn JL, Arlotta P. DeCoN: genome-wide analysis of in vivo transcriptional dynamics during pyramidal neuron fate selection in neocortex. Neuron. 85: 275-88. PMID 25556833 DOI: 10.1016/J.Neuron.2014.12.024  0.636
2014 Lodato S, Molyneaux BJ, Zuccaro E, Goff LA, Chen HH, Yuan W, Meleski A, Takahashi E, Mahony S, Rinn JL, Gifford DK, Arlotta P. Gene co-regulation by Fezf2 selects neurotransmitter identity and connectivity of corticospinal neurons. Nature Neuroscience. 17: 1046-54. PMID 24997765 DOI: 10.1038/Nn.3757  0.586
2014 Davila JL, Goff LA, Ricupero CL, Camarillo C, Oni EN, Swerdel MR, Toro-Ramos AJ, Li J, Hart RP. A positive feedback mechanism that regulates expression of miR-9 during neurogenesis. Plos One. 9: e94348. PMID 24714615 DOI: 10.1371/Journal.Pone.0094348  0.314
2014 Hacisuleyman E, Goff LA, Trapnell C, Williams A, Henao-Mejia J, Sun L, McClanahan P, Hendrickson DG, Sauvageau M, Kelley DR, Morse M, Engreitz J, Lander ES, Guttman M, Lodish HF, et al. Topological organization of multichromosomal regions by the long intergenic noncoding RNA Firre. Nature Structural & Molecular Biology. 21: 198-206. PMID 24463464 DOI: 10.1038/Nsmb.2764  0.764
2014 Silverman IM, Li F, Alexander A, Goff L, Trapnell C, Rinn JL, Gregory BD. RNase-mediated protein footprint sequencing reveals protein-binding sites throughout the human transcriptome. Genome Biology. 15: R3. PMID 24393486 DOI: 10.1186/Gb-2014-15-1-R3  0.719
2014 Trapnell C, Roberts A, Goff L, Pertea G, Kim D, Kelley DR, Pimentel H, Salzberg SL, Rinn JL, Pachter L. Erratum: Corrigendum: Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks Nature Protocols. 9: 2513-2513. DOI: 10.1038/Nprot1014-2513A  0.622
2013 Sauvageau M, Goff LA, Lodato S, Bonev B, Groff AF, Gerhardinger C, Sanchez-Gomez DB, Hacisuleyman E, Li E, Spence M, Liapis SC, Mallard W, Morse M, Swerdel MR, D'Ecclessis MF, et al. Multiple knockout mouse models reveal lincRNAs are required for life and brain development. Elife. 2: e01749. PMID 24381249 DOI: 10.7554/Elife.01749  0.77
2013 Goff LA, Rinn JL. Poly-combing the genome for RNA. Nature Structural & Molecular Biology. 20: 1344-6. PMID 24304912 DOI: 10.1038/Nsmb.2728  0.655
2013 Di Ruscio A, Ebralidze AK, Benoukraf T, Amabile G, Goff LA, Terragni J, Figueroa ME, De Figueiredo Pontes LL, Alberich-Jorda M, Zhang P, Wu M, D'Alò F, Melnick A, Leone G, Ebralidze KK, et al. DNMT1-interacting RNAs block gene-specific DNA methylation. Nature. 503: 371-6. PMID 24107992 DOI: 10.1038/Nature12598  0.642
2013 Henao-Mejia J, Williams A, Goff LA, Staron M, Licona-Limón P, Kaech SM, Nakayama M, Rinn JL, Flavell RA. The microRNA miR-181 is a critical cellular metabolic rheostat essential for NKT cell ontogenesis and lymphocyte development and homeostasis. Immunity. 38: 984-97. PMID 23623381 DOI: 10.1016/J.Immuni.2013.02.021  0.542
2013 Sun L, Goff LA, Trapnell C, Alexander R, Lo KA, Hacisuleyman E, Sauvageau M, Tazon-Vega B, Kelley DR, Hendrickson DG, Yuan B, Kellis M, Lodish HF, Rinn JL. Long noncoding RNAs regulate adipogenesis. Proceedings of the National Academy of Sciences of the United States of America. 110: 3387-92. PMID 23401553 DOI: 10.1073/Pnas.1222643110  0.79
2013 Trapnell C, Hendrickson DG, Sauvageau M, Goff L, Rinn JL, Pachter L. Differential analysis of gene regulation at transcript resolution with RNA-seq. Nature Biotechnology. 31: 46-53. PMID 23222703 DOI: 10.1038/Nbt.2450  0.804
2012 Washietl S, Will S, Hendrix DA, Goff LA, Rinn JL, Berger B, Kellis M. Computational analysis of noncoding RNAs. Wiley Interdisciplinary Reviews. Rna. 3: 759-78. PMID 22991327 DOI: 10.1002/Wrna.1134  0.773
2012 Trapnell C, Roberts A, Goff L, Pertea G, Kim D, Kelley DR, Pimentel H, Salzberg SL, Rinn JL, Pachter L. Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks. Nature Protocols. 7: 562-78. PMID 22383036 DOI: 10.1038/Nprot.2012.016  0.764
2012 Cabili M, Lander E, Sabeti P, Regev A, Rinn JL, Rinn JL, Rinn JL, Trapnell C, Trapnell C, Goff L, Goff L, Broadbent K, Broadbent K, Guttman M. Abstract IA4: Linking RNA to human health and disease Cancer Research. 72: IA4-IA4. DOI: 10.1158/1538-7445.Nonrna12-Ia4  0.738
2011 Cabili MN, Trapnell C, Goff L, Koziol M, Tazon-Vega B, Regev A, Rinn JL. Integrative annotation of human large intergenic noncoding RNAs reveals global properties and specific subclasses. Genes & Development. 25: 1915-27. PMID 21890647 DOI: 10.1101/Gad.17446611  0.784
2010 Bail S, Swerdel M, Liu H, Jiao X, Goff LA, Hart RP, Kiledjian M. Differential regulation of microRNA stability. Rna (New York, N.Y.). 16: 1032-9. PMID 20348442 DOI: 10.1261/Rna.1851510  0.304
2009 Goff LA, Davila J, Swerdel MR, Moore JC, Cohen RI, Wu H, Sun YE, Hart RP. Ago2 immunoprecipitation identifies predicted microRNAs in human embryonic stem cells and neural precursors. Plos One. 4: e7192. PMID 19784364 DOI: 10.1371/Journal.Pone.0007192  0.424
2008 Li H, Han YR, Bi C, Davila J, Goff LA, Thompson K, Swerdel M, Camarillo C, Ricupero CL, Hart RP, Plummer MR, Grumet M. Functional differentiation of a clone resembling embryonic cortical interneuron progenitors. Developmental Neurobiology. 68: 1549-64. PMID 18814314 DOI: 10.1002/Dneu.20679  0.313
2008 Goff LA, Boucher S, Ricupero CL, Fenstermacher S, Swerdel M, Chase LG, Adams CC, Chesnut J, Lakshmipathy U, Hart RP. Differentiating human multipotent mesenchymal stromal cells regulate microRNAs: prediction of microRNA regulation by PDGF during osteogenesis. Experimental Hematology. 36: 1354-1369. PMID 18657893 DOI: 10.1016/J.Exphem.2008.05.004  0.383
2007 Lakshmipathy U, Love B, Goff LA, Jörnsten R, Graichen R, Hart RP, Chesnut JD. MicroRNA expression pattern of undifferentiated and differentiated human embryonic stem cells. Stem Cells and Development. 16: 1003-16. PMID 18004940 DOI: 10.1089/Scd.2007.0026  0.348
2005 Goff LA, Yang M, Bowers J, Getts RC, Padgett RW, Hart RP. Rational probe optimization and enhanced detection strategy for microRNAs using microarrays. Rna Biology. 2: 93-100. PMID 17114923 DOI: 10.4161/Rna.2.3.2059  0.367
2004 Goff LA, Bowers J, Schwalm J, Howerton K, Getts RC, Hart RP. Evaluation of sense-strand mRNA amplification by comparative quantitative PCR. Bmc Genomics. 5: 76. PMID 15469607 DOI: 10.1186/1471-2164-5-76  0.423
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