Publications by authors named "Ed S Lein"

50Publications

FR-Match: robust matching of cell type clusters from single cell RNA sequencing data using the Friedman-Rafsky non-parametric test.

Brief Bioinform 2020 Nov 30. Epub 2020 Nov 30.

J. Craig Venter Institute La Jolla Campus, an Adjunct Professor of Pathology at the University of California San Diego, and an Adjunct Professor at the La Jolla Institute for Immunology.

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November 2020

Integrated Morphoelectric and Transcriptomic Classification of Cortical GABAergic Cells.

Cell 2020 Nov;183(4):935-953.e19

Allen Institute for Brain Science, Seattle, WA 98109, USA.

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November 2020

Hybridization-based in situ sequencing (HybISS) for spatially resolved transcriptomics in human and mouse brain tissue.

Nucleic Acids Res 2020 11;48(19):e112

Science for Life Laboratory, Department of Biochemistry and Biophysics, Stockholm University, 171 65 Solna, Sweden.

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November 2020

Transcriptomic Perspectives on Neocortical Structure, Development, Evolution, and Disease.

Annu Rev Neurosci 2017 07 29;40:629-652. Epub 2017 Jun 29.

Department of Physiology, Anatomy and Genetics, University of Oxford, Oxford OX1 3QX, United Kingdom; email:

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July 2017

Fast assembling of neuron fragments in serial 3D sections.

Brain Inform 2017 Sep 1;4(3):183-186. Epub 2017 Apr 1.

Allen Institute for Brain Science, Seattle, WA, USA.

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September 2017

A comprehensive transcriptional map of primate brain development.

Nature 2016 07 13;535(7612):367-75. Epub 2016 Jul 13.

Allen Institute for Brain Science, Seattle, Washington 98109, USA.

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July 2016

Comments and General Discussion on "The Anatomical Problem Posed by Brain Complexity and Size: A Potential Solution".

Front Neuroanat 2016 10;10:60. Epub 2016 Jun 10.

MTA-SZTE Research Group for Cortical Microcircuits of the Hungarian Academy of Sciences, Department of Physiology, Anatomy and Neuroscience, University of Szeged Szeged, Hungary.

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July 2016

Spatial mapping of structural and connectional imaging data for the developing human brain with diffusion tensor imaging.

Methods 2015 Feb 6;73:27-37. Epub 2014 Nov 6.

Advanced Imaging Research Center, University of Texas Southwestern Medical Center, Dallas, TX 75390, United States; Department of Radiology, University of Texas Southwestern Medical Center, Dallas, TX 75390, United States. Electronic address:

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February 2015

Functional organization of the hippocampal longitudinal axis.

Nat Rev Neurosci 2014 Oct;15(10):655-69

Kavli Institute for Systems Neuroscience and Centre for the Biology of Memory, MTFS, Olav Kyrres gate 9, Norwegian University of Science and Technology, NO-7489 Trondheim, Norway.

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October 2014

Patches of disorganization in the neocortex of children with autism.

N Engl J Med 2014 Mar;370(13):1209-1219

University of California, San Diego, Autism Center of Excellence (R.S., M.L.C., M.P.B., E.C.), and the Departments of Neuroscience (R.S., M.L.C., M.P.B., S.R., E.C.) and Pathology (S.R.), University of California, San Diego, School of Medicine, La Jolla; Allen Institute for Brain Science, Seattle (M.P.B., S.M.S., E.S.L.); the Department of Pathology and Cell Biology, University of South Florida School of Medicine and Alzheimer's Institute and Research Center, Tampa (P.R.M.); the Department of Genetics and Genome Sciences, Case Western Reserve University School of Medicine, Cleveland (A.W.-B.); and the Department of Psychiatry and Behavioral Sciences, Stanford University School of Medicine, Palo Alto, CA (S.A.C.).

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March 2014

Shifting the paradigm: new approaches for characterizing and classifying neurons.

Curr Opin Neurobiol 2009 Oct 5;19(5):530-6. Epub 2009 Nov 5.

Allen Institute for Brain Science, 551N. 34th St, Suite 200, Seattle, WA 98103, United States.

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October 2009

Areal and laminar differentiation in the mouse neocortex using large scale gene expression data.

Methods 2010 Feb 30;50(2):113-21. Epub 2009 Sep 30.

Allen Institute for Brain Science, 551 N. 34th Street, Seattle, WA 98103, USA.

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February 2010

Genome-wide atlas of gene expression in the adult mouse brain.

Authors:
Ed S Lein Michael J Hawrylycz Nancy Ao Mikael Ayres Amy Bensinger Amy Bernard Andrew F Boe Mark S Boguski Kevin S Brockway Emi J Byrnes Lin Chen Li Chen Tsuey-Ming Chen Mei Chi Chin Jimmy Chong Brian E Crook Aneta Czaplinska Chinh N Dang Suvro Datta Nick R Dee Aimee L Desaki Tsega Desta Ellen Diep Tim A Dolbeare Matthew J Donelan Hong-Wei Dong Jennifer G Dougherty Ben J Duncan Amanda J Ebbert Gregor Eichele Lili K Estin Casey Faber Benjamin A Facer Rick Fields Shanna R Fischer Tim P Fliss Cliff Frensley Sabrina N Gates Katie J Glattfelder Kevin R Halverson Matthew R Hart John G Hohmann Maureen P Howell Darren P Jeung Rebecca A Johnson Patrick T Karr Reena Kawal Jolene M Kidney Rachel H Knapik Chihchau L Kuan James H Lake Annabel R Laramee Kirk D Larsen Christopher Lau Tracy A Lemon Agnes J Liang Ying Liu Lon T Luong Jesse Michaels Judith J Morgan Rebecca J Morgan Marty T Mortrud Nerick F Mosqueda Lydia L Ng Randy Ng Geralyn J Orta Caroline C Overly Tu H Pak Sheana E Parry Sayan D Pathak Owen C Pearson Ralph B Puchalski Zackery L Riley Hannah R Rockett Stephen A Rowland Joshua J Royall Marcos J Ruiz Nadia R Sarno Katherine Schaffnit Nadiya V Shapovalova Taz Sivisay Clifford R Slaughterbeck Simon C Smith Kimberly A Smith Bryan I Smith Andy J Sodt Nick N Stewart Kenda-Ruth Stumpf Susan M Sunkin Madhavi Sutram Angelene Tam Carey D Teemer Christina Thaller Carol L Thompson Lee R Varnam Axel Visel Ray M Whitlock Paul E Wohnoutka Crissa K Wolkey Victoria Y Wong Matthew Wood Murat B Yaylaoglu Rob C Young Brian L Youngstrom Xu Feng Yuan Bin Zhang Theresa A Zwingman Allan R Jones

Nature 2007 Jan 6;445(7124):168-76. Epub 2006 Dec 6.

Allen Institute for Brain Science, Seattle, Washington 98103, USA.

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January 2007

Defining a molecular atlas of the hippocampus using DNA microarrays and high-throughput in situ hybridization.

J Neurosci 2004 Apr;24(15):3879-89

Laboratory of Genetics, The Salk Institute for Biological Studies, La Jolla, California 92037, USA.

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April 2004