Edward S. Lein - Publications

Affiliations: 
Allen Institute for Brain Science, Seattle, WA, United States 
Area:
Gene expression

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
2020 Huang AY, Li P, Rodin RE, Kim SN, Dou Y, Kenny CJ, Akula SK, Hodge RD, Bakken TE, Miller JA, Lein ES, Park PJ, Lee EA, Walsh CA. Parallel RNA and DNA analysis after deep sequencing (PRDD-seq) reveals cell type-specific lineage patterns in human brain. Proceedings of the National Academy of Sciences of the United States of America. PMID 32522880 DOI: 10.1073/Pnas.2006163117  0.707
2020 Hodge RD, Miller JA, Novotny M, Kalmbach BE, Ting JT, Bakken TE, Aevermann BD, Barkan ER, Berkowitz-Cerasano ML, Cobbs C, Diez-Fuertes F, Ding SL, McCorrison J, Schork NJ, Shehata SI, ... ... Lein ES, et al. Transcriptomic evidence that von Economo neurons are regionally specialized extratelencephalic-projecting excitatory neurons. Nature Communications. 11: 1172. PMID 32127543 DOI: 10.1038/s41467-020-14952-3  0.666
2019 Smith SJ, Sümbül U, Graybuck LT, Collman F, Seshamani S, Gala R, Gliko O, Elabbady L, Miller JA, Bakken TE, Rossier J, Yao Z, Lein E, Zeng H, Tasic B, et al. Single-cell transcriptomic evidence for dense intracortical neuropeptide networks. Elife. 8. PMID 31710287 DOI: 10.7554/Elife.47889  0.667
2019 Hodge RD, Bakken TE, Miller JA, Smith KA, Barkan ER, Graybuck LT, Close JL, Long B, Johansen N, Penn O, Yao Z, Eggermont J, Höllt T, Levi BP, Shehata SI, ... ... Lein ES, et al. Conserved cell types with divergent features in human versus mouse cortex. Nature. PMID 31435019 DOI: 10.1038/S41586-019-1506-7  0.684
2019 Gouwens NW, Sorensen SA, Berg J, Lee C, Jarsky T, Ting J, Sunkin SM, Feng D, Anastassiou CA, Barkan E, Bickley K, Blesie N, Braun T, Brouner K, Budzillo A, ... ... Lein E, et al. Classification of electrophysiological and morphological neuron types in the mouse visual cortex. Nature Neuroscience. PMID 31209381 DOI: 10.1038/S41593-019-0417-0  0.353
2019 Coe BP, Stessman HAF, Sulovari A, Geisheker MR, Bakken TE, Lake AM, Dougherty JD, Lein ES, Hormozdiari F, Bernier RA, Eichler EE. Neurodevelopmental disease genes implicated by de novo mutation and copy number variation morbidity. Nature Genetics. 51: 106-116. PMID 30559488 DOI: 10.1038/S41588-018-0288-4  0.611
2018 Bakken TE, Hodge RD, Miller JA, Yao Z, Nguyen TN, Aevermann B, Barkan E, Bertagnolli D, Casper T, Dee N, Garren E, Goldy J, Graybuck LT, Kroll M, Lasken RS, ... ... Lein ES, et al. Single-nucleus and single-cell transcriptomes compared in matched cortical cell types. Plos One. 13: e0209648. PMID 30586455 DOI: 10.1371/Journal.Pone.0209648  0.693
2018 Li M, Santpere G, Imamura Kawasawa Y, Evgrafov OV, Gulden FO, Pochareddy S, Sunkin SM, Li Z, Shin Y, Zhu Y, Sousa AMM, Werling DM, Kitchen RR, Kang HJ, Pletikos M, ... ... Lein ES, et al. Integrative functional genomic analysis of human brain development and neuropsychiatric risks. Science (New York, N.Y.). 362. PMID 30545854 DOI: 10.1126/Science.Aat7615  0.338
2018 Seeman SC, Campagnola L, Davoudian PA, Hoggarth A, Hage TA, Bosma-Moody A, Baker CA, Lee JH, Mihalas S, Teeter C, Ko AL, Ojemann JG, Gwinn RP, Silbergeld DL, Cobbs C, ... ... Lein E, et al. Sparse recurrent excitatory connectivity in the microcircuit of the adult mouse and human cortex. Elife. 7. PMID 30256194 DOI: 10.7554/Elife.37349  0.3
2018 Boldog E, Bakken TE, Hodge RD, Novotny M, Aevermann BD, Baka J, Bordé S, Close JL, Diez-Fuertes F, Ding SL, Faragó N, Kocsis ÁK, Kovács B, Maltzer Z, McCorrison JM, ... ... Lein ES, et al. Transcriptomic and morphophysiological evidence for a specialized human cortical GABAergic cell type. Nature Neuroscience. PMID 30150662 DOI: 10.1038/S41593-018-0205-2  0.681
2018 Ting JT, Kalmbach B, Chong P, de Frates R, Keene CD, Gwinn RP, Cobbs C, Ko AL, Ojemann JG, Ellenbogen RG, Koch C, Lein E. A robust ex vivo experimental platform for molecular-genetic dissection of adult human neocortical cell types and circuits. Scientific Reports. 8: 8407. PMID 29849137 DOI: 10.1038/S41598-018-26803-9  0.319
2018 Skene NG, Bryois J, Bakken TE, Breen G, Crowley JJ, Gaspar HA, Giusti-Rodriguez P, Hodge RD, Miller JA, Muñoz-Manchado AB, O'Donovan MC, Owen MJ, Pardiñas AF, Ryge J, Walters JTR, ... ... Lein ES, et al. Genetic identification of brain cell types underlying schizophrenia. Nature Genetics. PMID 29785013 DOI: 10.1038/s41588-018-0129-5  0.655
2018 Aevermann BD, Novotny M, Bakken T, Miller JA, Diehl AD, Osumi-Sutherland D, Lasken RS, Lein ES, Scheuermann RH. Big data and single cell transcriptomics: implications for ontological representation. Human Molecular Genetics. PMID 29590361 DOI: 10.1093/Hmg/Ddy100  0.643
2017 Bakken T, Cowell L, Aevermann BD, Novotny M, Hodge R, Miller JA, Lee A, Chang I, McCorrison J, Pulendran B, Qian Y, Schork NJ, Lasken RS, Lein ES, Scheuermann RH. Cell type discovery and representation in the era of high-content single cell phenotyping. Bmc Bioinformatics. 18: 559. PMID 29322913 DOI: 10.1186/S12859-017-1977-1  0.621
2017 Sousa AMM, Zhu Y, Raghanti MA, Kitchen RR, Onorati M, Tebbenkamp ATN, Stutz B, Meyer KA, Li M, Kawasawa YI, Liu F, Perez RG, Mele M, Carvalho T, Skarica M, ... ... Lein ES, et al. Molecular and cellular reorganization of neural circuits in the human lineage. Science (New York, N.Y.). 358: 1027-1032. PMID 29170230 DOI: 10.1126/Science.Aan3456  0.35
2016 Bakken TE, Miller JA, Ding SL, Sunkin SM, Smith KA, Ng L, Szafer A, Dalley RA, Royall JJ, Lemon T, Shapouri S, Aiona K, Arnold J, Bennett JL, Bertagnolli D, ... ... Lein ES, et al. A comprehensive transcriptional map of primate brain development. Nature. PMID 27409810 DOI: 10.1038/Nature18637  0.698
2016 Krishnaswami SR, Grindberg RV, Novotny M, Venepally P, Lacar B, Bhutani K, Linker SB, Pham S, Erwin JA, Miller JA, Hodge R, McCarthy JK, Kelder M, McCorrison J, Aevermann BD, ... ... Lein ES, et al. Using single nuclei for RNA-seq to capture the transcriptome of postmortem neurons. Nature Protocols. 11: 499-524. PMID 26890679 DOI: 10.1038/Nprot.2016.015  0.724
2015 Hawrylycz M, Miller JA, Menon V, Feng D, Dolbeare T, Guillozet-Bongaarts AL, Jegga AG, Aronow BJ, Lee CK, Bernard A, Glasser MF, Dierker DL, Menche J, Szafer A, Collman F, ... ... Lein E, et al. Canonical genetic signatures of the adult human brain. Nature Neuroscience. PMID 26571460 DOI: 10.1038/Nn.4171  0.385
2015 Bakken TE, Miller JA, Luo R, Bernard A, Bennett JL, Lee CK, Bertagnolli D, Parikshak NN, Smith KA, Sunkin SM, Amaral DG, Geschwind DH, Lein ES. Spatiotemporal dynamics of the postnatal developing primate brain transcriptome. Human Molecular Genetics. 24: 4327-39. PMID 25954031 DOI: 10.1093/Hmg/Ddv166  0.692
2015 Sorensen SA, Bernard A, Menon V, Royall JJ, Glattfelder KJ, Desta T, Hirokawa K, Mortrud M, Miller JA, Zeng H, Hohmann JG, Jones AR, Lein ES. Correlated gene expression and target specificity demonstrate excitatory projection neuron diversity. Cerebral Cortex (New York, N.Y. : 1991). 25: 433-49. PMID 24014670 DOI: 10.1093/Cercor/Bht243  0.329
2014 Pfenning AR, Hara E, Whitney O, Rivas MV, Wang R, Roulhac PL, Howard JT, Wirthlin M, Lovell PV, Ganapathy G, Mouncastle J, Moseley MA, Thompson JW, Soderblom EJ, Iriki A, ... ... Lein E, et al. Convergent transcriptional specializations in the brains of humans and song-learning birds. Science (New York, N.Y.). 346: 1256846. PMID 25504733 DOI: 10.1126/Science.1256846  0.619
2014 Bernier R, Golzio C, Xiong B, Stessman HA, Coe BP, Penn O, Witherspoon K, Gerdts J, Baker C, Vulto-van Silfhout AT, Schuurs-Hoeijmakers JH, Fichera M, Bosco P, Buono S, Alberti A, ... ... Lein E, et al. Disruptive CHD8 mutations define a subtype of autism early in development. Cell. 158: 263-76. PMID 24998929 DOI: 10.1016/J.Cell.2014.06.017  0.607
2014 Molnár Z, Kaas JH, de Carlos JA, Hevner RF, Lein E, NÄ›mec P. Evolution and development of the mammalian cerebral cortex. Brain, Behavior and Evolution. 83: 126-39. PMID 24776993 DOI: 10.1159/000357753  0.306
2014 Miller JA, Ding SL, Sunkin SM, Smith KA, Ng L, Szafer A, Ebbert A, Riley ZL, Royall JJ, Aiona K, Arnold JM, Bennet C, Bertagnolli D, Brouner K, Butler S, ... ... Lein ES, et al. Transcriptional landscape of the prenatal human brain. Nature. 508: 199-206. PMID 24695229 DOI: 10.1038/Nature13185  0.323
2014 Prüfer K, Racimo F, Patterson N, Jay F, Sankararaman S, Sawyer S, Heinze A, Renaud G, Sudmant PH, de Filippo C, Li H, Mallick S, Dannemann M, Fu Q, Kircher M, ... ... Lein ES, et al. The complete genome sequence of a Neanderthal from the Altai Mountains. Nature. 505: 43-9. PMID 24352235 DOI: 10.1038/Nature12886  0.594
2013 Willsey AJ, Sanders SJ, Li M, Dong S, Tebbenkamp AT, Muhle RA, Reilly SK, Lin L, Fertuzinhos S, Miller JA, Murtha MT, Bichsel C, Niu W, Cotney J, Ercan-Sencicek AG, ... ... Lein ES, et al. Coexpression networks implicate human midfetal deep cortical projection neurons in the pathogenesis of autism. Cell. 155: 997-1007. PMID 24267886 DOI: 10.1016/J.Cell.2013.10.020  0.377
2013 Miller JA, Nathanson J, Franjic D, Shim S, Dalley RA, Shapouri S, Smith KA, Sunkin SM, Bernard A, Bennett JL, Lee CK, Hawrylycz MJ, Jones AR, Amaral DG, Å estan N, ... ... Lein ES, et al. Conserved molecular signatures of neurogenesis in the hippocampal subgranular zone of rodents and primates. Development (Cambridge, England). 140: 4633-44. PMID 24154525 DOI: 10.1242/Dev.097212  0.543
2012 Hawrylycz MJ, Lein ES, Guillozet-Bongaarts AL, Shen EH, Ng L, Miller JA, van de Lagemaat LN, Smith KA, Ebbert A, Riley ZL, Abajian C, Beckmann CF, Bernard A, Bertagnolli D, Boe AF, et al. An anatomically comprehensive atlas of the adult human brain transcriptome. Nature. 489: 391-9. PMID 22996553 DOI: 10.1038/Nature11405  0.438
2012 Zeng H, Shen EH, Hohmann JG, Oh SW, Bernard A, Royall JJ, Glattfelder KJ, Sunkin SM, Morris JA, Guillozet-Bongaarts AL, Smith KA, Ebbert AJ, Swanson B, Kuan L, Page DT, ... ... Lein ES, et al. Large-scale cellular-resolution gene profiling in human neocortex reveals species-specific molecular signatures. Cell. 149: 483-96. PMID 22500809 DOI: 10.1016/J.Cell.2012.02.052  0.356
2012 Bernard A, Lubbers LS, Tanis KQ, Luo R, Podtelezhnikov AA, Finney EM, McWhorter MM, Serikawa K, Lemon T, Morgan R, Copeland C, Smith K, Cullen V, Davis-Turak J, Lee CK, ... ... Lein ES, et al. Transcriptional architecture of the primate neocortex. Neuron. 73: 1083-99. PMID 22445337 DOI: 10.1016/J.Neuron.2012.03.002  0.76
2011 Boyle MP, Bernard A, Thompson CL, Ng L, Boe A, Mortrud M, Hawrylycz MJ, Jones AR, Hevner RF, Lein ES. Cell-type-specific consequences of Reelin deficiency in the mouse neocortex, hippocampus, and amygdala. The Journal of Comparative Neurology. 519: 2061-89. PMID 21491433 DOI: 10.1002/Cne.22655  0.315
2011 Zariwala HA, Madisen L, Ahrens KF, Bernard A, Lein ES, Jones AR, Zeng H. Visual tuning properties of genetically identified layer 2/3 neuronal types in the primary visual cortex of cre-transgenic mice. Frontiers in Systems Neuroscience. 4: 162. PMID 21283555 DOI: 10.3389/Fnsys.2010.00162  0.429
2010 Thompson CL, Wisor JP, Lee CK, Pathak SD, Gerashchenko D, Smith KA, Fischer SR, Kuan CL, Sunkin SM, Ng LL, Lau C, Hawrylycz M, Jones AR, Kilduff TS, Lein ES. Molecular and anatomical signatures of sleep deprivation in the mouse brain. Frontiers in Neuroscience. 4: 165. PMID 21088695 DOI: 10.3389/Fnins.2010.00165  0.467
2010 Madisen L, Zwingman TA, Sunkin SM, Oh SW, Zariwala HA, Gu H, Ng LL, Palmiter RD, Hawrylycz MJ, Jones AR, Lein ES, Zeng H. A robust and high-throughput Cre reporting and characterization system for the whole mouse brain. Nature Neuroscience. 13: 133-40. PMID 20023653 DOI: 10.1038/Nn.2467  0.769
2010 Ng L, Lau C, Sunkin SM, Bernard A, Chakravarty MM, Lein ES, Jones AR, Hawrylycz M. Surface-based mapping of gene expression and probabilistic expression maps in the mouse cortex. Methods (San Diego, Calif.). 50: 55-62. PMID 19818854 DOI: 10.1016/j.ymeth.2009.10.001  0.312
2010 Hawrylycz M, Bernard A, Lau C, Sunkin SM, Chakravarty MM, Lein ES, Jones AR, Ng L. Areal and laminar differentiation in the mouse neocortex using large scale gene expression data. Methods (San Diego, Calif.). 50: 113-21. PMID 19800006 DOI: 10.1016/j.ymeth.2009.09.005  0.334
2009 Ng L, Bernard A, Lau C, Overly CC, Dong HW, Kuan C, Pathak S, Sunkin SM, Dang C, Bohland JW, Bokil H, Mitra PP, Puelles L, Hohmann J, Anderson DJ, ... Lein ES, et al. An anatomic gene expression atlas of the adult mouse brain. Nature Neuroscience. 12: 356-62. PMID 19219037 DOI: 10.1038/Nn.2281  0.329
2008 Thompson CL, Pathak SD, Jeromin A, Ng LL, MacPherson CR, Mortrud MT, Cusick A, Riley ZL, Sunkin SM, Bernard A, Puchalski RB, Gage FH, Jones AR, Bajic VB, Hawrylycz MJ, ... Lein ES, et al. Genomic anatomy of the hippocampus. Neuron. 60: 1010-21. PMID 19109908 DOI: 10.1016/J.Neuron.2008.12.008  0.473
2007 Ng L, Pathak SD, Kuan C, Lau C, Dong H, Sodt A, Dang C, Avants B, Yushkevich P, Gee JC, Haynor D, Lein E, Jones A, Hawrylycz M. Neuroinformatics for genome-wide 3D gene expression mapping in the mouse brain Ieee/Acm Transactions On Computational Biology and Bioinformatics. 4: 382-392. PMID 17666758 DOI: 10.1109/Tcbb.2007.1035  0.312
2007 Lein ES, Hawrylycz MJ, Ao N, Ayres M, Bensinger A, Bernard A, Boe AF, Boguski MS, Brockway KS, Byrnes EJ, Chen L, Chen L, Chen TM, Chin MC, Chong J, et al. Genome-wide atlas of gene expression in the adult mouse brain. Nature. 445: 168-76. PMID 17151600 DOI: 10.1038/Nature05453  0.759
2006 Tan EM, Yamaguchi Y, Horwitz GD, Gosgnach S, Lein ES, Goulding M, Albright TD, Callaway EM. Selective and quickly reversible inactivation of mammalian neurons in vivo using the Drosophila allatostatin receptor. Neuron. 51: 157-70. PMID 16846851 DOI: 10.1016/J.Neuron.2006.06.018  0.405
2005 Lie DC, Colamarino SA, Song HJ, Désiré L, Mira H, Consiglio A, Lein ES, Jessberger S, Lansford H, Dearie AR, Gage FH. Wnt signalling regulates adult hippocampal neurogenesis. Nature. 437: 1370-5. PMID 16251967 DOI: 10.1038/Nature04108  0.671
2005 Lein ES, Callaway EM, Albright TD, Gage FH. Redefining the boundaries of the hippocampal CA2 subfield in the mouse using gene expression and 3-dimensional reconstruction. The Journal of Comparative Neurology. 485: 1-10. PMID 15776443 DOI: 10.1002/cne.20426  0.467
2004 Lein ES, Zhao X, Gage FH. Defining a molecular atlas of the hippocampus using DNA microarrays and high-throughput in situ hybridization. The Journal of Neuroscience : the Official Journal of the Society For Neuroscience. 24: 3879-89. PMID 15084669 DOI: 10.1523/Jneurosci.4710-03.2004  0.665
2003 Zhao X, Ueba T, Christie BR, Barkho B, McConnell MJ, Nakashima K, Lein ES, Eadie BD, Willhoite AR, Muotri AR, Summers RG, Chun J, Lee KF, Gage FH. Mice lacking methyl-CpG binding protein 1 have deficits in adult neurogenesis and hippocampal function. Proceedings of the National Academy of Sciences of the United States of America. 100: 6777-82. PMID 12748381 DOI: 10.1073/Pnas.1131928100  0.693
2002 Lechner HA, Lein ES, Callaway EM. A genetic method for selective and quickly reversible silencing of Mammalian neurons. The Journal of Neuroscience : the Official Journal of the Society For Neuroscience. 22: 5287-90. PMID 12097479 DOI: 10.1523/Jneurosci.22-13-05287.2002  0.387
2001 Zhao X, Lein ES, He A, Smith SC, Aston C, Gage FH. Transcriptional profiling reveals strict boundaries between hippocampal subregions. The Journal of Comparative Neurology. 441: 187-96. PMID 11745644 DOI: 10.1002/Cne.1406  0.647
2000 Lein ES, Hohn A, Shatz CJ. Dynamic regulation of BDNF and NT-3 expression during visual system development. The Journal of Comparative Neurology. 420: 1-18. PMID 10745216 DOI: 10.1002/(SICI)1096-9861(20000424)420:1<1::AID-CNE1>3.0.CO;2-H  0.577
2000 Lein ES, Shatz CJ. Rapid regulation of brain-derived neurotrophic factor mRNA within eye-specific circuits during ocular dominance column formation. The Journal of Neuroscience : the Official Journal of the Society For Neuroscience. 20: 1470-83. PMID 10662837 DOI: 10.1523/Jneurosci.20-04-01470.2000  0.577
1999 Lein ES, Finney EM, McQuillen PS, Shatz CJ. Subplate neuron ablation alters neurotrophin expression and ocular dominance column formation. Proceedings of the National Academy of Sciences of the United States of America. 96: 13491-5. PMID 10557348 DOI: 10.1073/pnas.96.23.13491  0.748
Show low-probability matches.