Publications

Full Shepherd bibliography with chapters, reviews and books available here.

Publications on PubMed

2021

An Evolutionary Microcircuit Approach to the Neural Basis of High Dimensional Sensory Processing in Olfaction.Shepherd GM, Rowe TB, Greer CA. Front Cell Neurosci. 2021; 2021 Apr 30. PMID: 33994949.

2020

Predicting brain organization with a computational model: 50-year perspective on lateral inhibition and oscillatory gating by dendrodendritic synapses.Shepherd GM, Hines ML, Migliore M, Chen WR, Greer CA. J Neurophysiol. 2020 Aug 1; 2020 Jul 8. PMID: 32639901.
Orthonasal versus retronasal glomerular activity in rat olfactory bulb by fMRI.Sanganahalli BG, Baker KL, Thompson GJ, Herman P, Shepherd GM, Verhagen JV, Hyder F. Neuroimage. 2020 May 15; 2020 Feb 20. PMID: 32087375.

2019

Automated Metadata Suggestion During Repository Submission.McDougal RA, Dalal I, Morse TM, Shepherd GM. Neuroinformatics. 2019 Jul. PMID: 30382537.
Neuron Names: A Gene- and Property-Based Name Format, With Special Reference to Cortical Neurons.Shepherd GM, Marenco L, Hines ML, Migliore M, McDougal RA, Carnevale NT, Newton AJH, Surles-Zeigler M, Ascoli GA. Front Neuroanat. 2019; 2019 Mar 21. PMID: 30949034.

2018

Neuroscience without borders: Preserving the history of neuroscience.Lorusso L, Piccolino M, Motta S, Gasparello A, Barbara JG, Bossi-Régnier L, Shepherd GM, Swanson L, Magistretti P, Everitt B, Molnár Z, Brown RE. Eur J Neurosci. 2018 Sep; 2018 Sep 9. PMID: 30099790.
Parallel odor processing by mitral and middle tufted cells in the olfactory bulb.Cavarretta F, Burton SD, Igarashi KM, Shepherd GM, Hines ML, Migliore M. Sci Rep. 2018 May 16; 2018 May 16. PMID: 29769664.
Spontaneous activity forms a foundation for odor-evoked activation maps in the rat olfactory bulb.Thompson GJ, Sanganahalli BG, Baker KL, Herman P, Shepherd GM, Verhagen JV, Hyder F. Neuroimage. 2018 May 15; 2018 Jan 31. PMID: 29374582.
Wilfrid Rall.Shepherd GM. Neuroinformatics. 2018 Apr. PMID: 29796969.

2017

Neocortical Lamination: Insights from Neuron Types and Evolutionary Precursors.Shepherd GM, Rowe TB. Front Neuroanat. 2017; 2017 Nov 7. PMID: 29163073.
Twenty years of ModelDB and beyond: building essential modeling tools for the future of neuroscience.McDougal RA, Morse TM, Carnevale T, Marenco L, Wang R, Migliore M, Miller PL, Shepherd GM, Hines ML. J Comput Neurosci. 2017 Feb; 2016 Sep 15. PMID: 27629590.

2016

Respiration Gates Sensory Input Responses in the Mitral Cell Layer of the Olfactory Bulb.Short SM, Morse TM, McTavish TS, Shepherd GM, Verhagen JV. PLoS One. 2016; 2016 Dec 22. PMID: 28005923.
Glomerular and Mitral-Granule Cell Microcircuits Coordinate Temporal and Spatial Information Processing in the Olfactory Bulb.Cavarretta F, Marasco A, Hines ML, Shepherd GM, Migliore M. Front Comput Neurosci. 2016; 2016 Jul 14. PMID: 27471461.
Comments and General Discussion on "The Anatomical Problem Posed by Brain Complexity and Size: A Potential Solution".DeFelipe J, Douglas RJ, Hill SL, Lein ES, Martin KA, Rockland KS, Segev I, Shepherd GM, Tamás G. Front Neuroanat. 2016; 2016 Jun 10. PMID: 27375436.
Role of ortho-retronasal olfaction in mammalian cortical evolution.Rowe TB, Shepherd GM. J Comp Neurol. 2016 Feb 15; 2015 Jun 11. PMID: 25975561.
Comparison of glomerular activity patterns by fMRI and wide-field calcium imaging: Implications for principles underlying odor mapping.Sanganahalli BG, Rebello MR, Herman P, Papademetris X, Shepherd GM, Verhagen JV, Hyder F. Neuroimage. 2016 Feb 1; 2015 Nov 26. PMID: 26631819.

2015

Optimal directional volatile transport in retronasal olfaction.Ni R, Michalski MH, Brown E, Doan N, Zinter J, Ouellette NT, Shepherd GM. Proc Natl Acad Sci U S A. 2015 Nov 24; 2015 Nov 9. PMID: 26553982.
ModelView for ModelDB: Online Presentation of Model Structure.McDougal RA, Morse TM, Hines ML, Shepherd GM. Neuroinformatics. 2015 Oct. PMID: 25896640.
Synaptic clusters function as odor operators in the olfactory bulb.Migliore M, Cavarretta F, Marasco A, Tulumello E, Hines ML, Shepherd GM. Proc Natl Acad Sci U S A. 2015 Jul 7; 2015 Jun 22. PMID: 26100895.
3D-printer visualization of neuron models.McDougal RA, Shepherd GM. Front Neuroinform. 2015; 2015 Jun 30. PMID: 26175684.

2014

Perception of odors linked to precise timing in the olfactory system.Rebello MR, McTavish TS, Willhite DC, Short SM, Shepherd GM, Verhagen JV. PLoS Biol. 2014 Dec; 2014 Dec 16. PMID: 25514030.
Sparse coding and lateral inhibition arising from balanced and unbalanced dendrodendritic excitation and inhibition.Yu Y, Migliore M, Hines ML, Shepherd GM. J Neurosci. 2014 Oct 8. PMID: 25297097.
Extending the NIF DISCO framework to automate complex workflow: coordinating the harvest and integration of data from diverse neuroscience information resources.Marenco LN, Wang R, Bandrowski AE, Grethe JS, Shepherd GM, Miller PL. Front Neuroinform. 2014; 2014 May 28. PMID: 25018728.
Distributed organization of a brain microcircuit analyzed by three-dimensional modeling: the olfactory bulb.Migliore M, Cavarretta F, Hines ML, Shepherd GM. Front Comput Neurosci. 2014; 2014 Apr 29. PMID: 24808855.

2013

Databases in SenseLab for the genomics, proteomics, and function of olfactory receptors.Marenco LN, Bahl G, Hyland L, Shi J, Wang R, Lai PC, Miller PL, Shepherd GM, Crasto CJ. Methods Mol Biol. 2013. PMID: 23585030.

2012

Mitral cell spike synchrony modulated by dendrodendritic synapse location.McTavish TS, Migliore M, Shepherd GM, Hines ML. Front Comput Neurosci. 2012; 2012 Jan 30. PMID: 22319487.
Respiration drives network activity and modulates synaptic and circuit processing of lateral inhibition in the olfactory bulb.Phillips ME, Sachdev RN, Willhite DC, Shepherd GM. J Neurosci. 2012 Jan 4. PMID: 22219272.

2011

The microcircuit concept applied to cortical evolution: from three-layer to six-layer cortex.Shepherd GM. Front Neuroanat. 2011; 2011 May 23. PMID: 21647397.
The first images of nerve cells: Golgi on the olfactory bulb 1875.Shepherd GM, Greer CA, Mazzarello P, Sassoè-Pognetto M. Brain Res Rev. 2011 Jan 7; 2010 Nov 13. PMID: 20940020.

2010

The NIF DISCO Framework: facilitating automated integration of neuroscience content on the web.Marenco L, Wang R, Shepherd GM, Miller PL. Neuroinformatics. 2010 Jun. PMID: 20387131.
Abnormal Excitability of Oblique Dendrites Implicated in Early Alzheimer's: A Computational Study.Morse TM, Carnevale NT, Mutalik PG, Migliore M, Shepherd GM. Front Neural Circuits. 2010; 2010 May 31. PMID: 20725509.

2009

Symposium overview and historical perspective: dendrodendritic synapses: past, present, and future.Shepherd GM. Ann N Y Acad Sci. 2009 Jul. PMID: 19686140.
Approaches to neuroscience data integration.Cheung KH, Lim E, Samwald M, Chen H, Marenco L, Holford ME, Morse TM, Mutalik P, Shepherd GM, Miller PL. Brief Bioinform. 2009 Jul. PMID: 19505888.

2008

The NIF LinkOut broker: a web resource to facilitate federated data integration using NCBI identifiers.Marenco L, Ascoli GA, Martone ME, Shepherd GM, Miller PL. Neuroinformatics. 2008 Sep; 2008 Oct 31. PMID: 18975149.
Issues in the design of a pilot concept-based query interface for the neuroinformatics information framework.Marenco L, Li Y, Martone ME, Sternberg PW, Shepherd GM, Miller PL. Neuroinformatics. 2008 Sep; 2008 Oct 25. PMID: 18953674.
The olfactory glomerulus: a model for neuro-glio-vascular biology.Shepherd GM, Charpak S. Neuron. 2008 Jun 26. PMID: 18579073.
Dendritic action potentials connect distributed dendrodendritic microcircuits.Migliore M, Shepherd GM. J Comput Neurosci. 2008 Apr; 2007 Aug 3. PMID: 17674173.

2007

Learning mechanism for column formation in the olfactory bulb.Migliore M, Inzirillo C, Shepherd GM. Front Integr Neurosci. 2007; 2007 Dec 30. PMID: 18958240.
Perspectives on olfactory processing, conscious perception, and orbitofrontal cortex.Shepherd GM. Ann N Y Acad Sci. 2007 Dec; 2007 Sep 13. PMID: 17872397.
The olfactory granule cell: from classical enigma to central role in olfactory processing.Shepherd GM, Chen WR, Willhite D, Migliore M, Greer CA. Brain Res Rev. 2007 Oct; 2007 Mar 16. PMID: 17434592.
OdorMapComparer: an application for quantitative analyses and comparisons of fMRI brain odor maps.Liu N, Xu F, Miller PL, Shepherd GM. Neuroinformatics. 2007 Summer. PMID: 17873372.
Olfactory discrimination ability of CD-1 mice for a large array of enantiomers.Laska M, Shepherd GM. Neuroscience. 2007 Jan 5; 2006 Oct 11. PMID: 17045753.
Managing knowledge in neuroscience.Crasto CJ, Shepherd GM. Methods Mol Biol. 2007. PMID: 18368357.

2006

Smell images and the flavour system in the human brain.Shepherd GM. Nature. 2006 Nov 16. PMID: 17108956.
Dendritic calcium plateau potentials modulate input-output properties of juxtaglomerular cells in the rat olfactory bulb.Zhou Z, Xiong W, Masurkar AV, Chen WR, Shepherd GM. J Neurophysiol. 2006 Nov; 2006 Jul 19. PMID: 16855116.
Dendritic excitability and calcium signalling in the mitral cell distal glomerular tuft.Zhou Z, Xiong W, Zeng S, Xia A, Shepherd GM, Greer CA, Chen WR. Eur J Neurosci. 2006 Sep. PMID: 17004926.
Olfactory sensitivity for enantiomers and their racemic mixtures--a comparative study in CD-1 mice and spider monkeys.Joshi D, Völkl M, Shepherd GM, Laska M. Chem Senses. 2006 Sep; 2006 Jun 22. PMID: 16793858.
Viral tracing identifies distributed columnar organization in the olfactory bulb.Willhite DC, Nguyen KT, Masurkar AV, Greer CA, Shepherd GM, Chen WR. Proc Natl Acad Sci U S A. 2006 Aug 15; 2006 Aug 8. PMID: 16895993.
Olfactory sensitivity for aliphatic aldehydes in CD-1 mice.Laska M, Joshi D, Shepherd GM. Behav Brain Res. 2006 Feb 28; 2005 Oct 25. PMID: 16253352.
Using web ontology language to integrate heterogeneous databases in the neurosciences.Lam HY, Marenco L, Shepherd GM, Miller PL, Cheung KH. AMIA Annu Symp Proc. 2006. PMID: 17238384.

2005

Opinion: an integrated approach to classifying neuronal phenotypes.Migliore M, Shepherd GM. Nat Rev Neurosci. 2005 Oct. PMID: 16276357.
Simultaneous activation of mouse main and accessory olfactory bulbs by odors or pheromones.Xu F, Schaefer M, Kida I, Schafer J, Liu N, Rothman DL, Hyder F, Restrepo D, Shepherd GM. J Comp Neurol. 2005 Sep 5. PMID: 16025460.
The olfactory glomerulus: a cortical module with specific functions.Chen WR, Shepherd GM. J Neurocytol. 2005 Sep; 2006 Jul 13. PMID: 16841172.
Perception without a thalamus how does olfaction do it?Shepherd GM. Neuron. 2005 Apr 21. PMID: 15848795.
The role of distal dendritic gap junctions in synchronization of mitral cell axonal output.Migliore M, Hines ML, Shepherd GM. J Comput Neurosci. 2005 Mar-Apr. PMID: 15714267.
Outline of a theory of olfactory processing and its relevance to humans.Shepherd GM. Chem Senses. 2005 Jan. PMID: 15738168.

2004

ModelDB: A Database to Support Computational Neuroscience.Hines ML, Morse T, Migliore M, Carnevale NT, Shepherd GM. J Comput Neurosci. 2004 Jul-Aug. PMID: 15218350.
The human sense of smell: are we better than we think?Shepherd GM. PLoS Biol. 2004 May; 2004 May 11. PMID: 15138509.
Informatics approaches to functional MRI odor mapping of the rodent olfactory bulb: OdorMapBuilder and OdorMapDB.Liu N, Xu F, Marenco L, Hyder F, Miller P, Shepherd GM. Neuroinformatics. 2004. PMID: 15067166.

2003

The single capillary and the active brain.Shepherd GM. Proc Natl Acad Sci U S A. 2003 Oct 28; 2003 Oct 20. PMID: 14569016.
Odor maps of aldehydes and esters revealed by functional MRI in the glomerular layer of the mouse olfactory bulb.Xu F, Liu N, Kida I, Rothman DL, Hyder F, Shepherd GM. Proc Natl Acad Sci U S A. 2003 Sep 16; 2003 Sep 8. PMID: 12963819.
Text mining neuroscience journal articles to populate neuroscience databases.Crasto CJ, Marenco LN, Migliore M, Mao B, Nadkarni PM, Miller P, Shepherd GM. Neuroinformatics. 2003. PMID: 15046245.
Sharing the mighty mouse.Shepherd GM. Neuroinformatics. 2003. PMID: 15043224.
Creating knowledgebases to text-mine PUBMED articles using clustering techniques.Crasto CJ, Morse TM, Migliore M, Nadkarni P, Hines M, Brash DE, Miller PL, Shepherd GM. AMIA Annu Symp Proc. 2003. PMID: 14728326.
Olfactory signal transduction in the mouse septal organ.Ma M, Grosmaitre X, Iwema CL, Baker H, Greer CA, Shepherd GM. J Neurosci. 2003 Jan 1. PMID: 12514230.

2002

Multiple modes of action potential initiation and propagation in mitral cell primary dendrite.Chen WR, Shen GY, Shepherd GM, Hines ML, Midtgaard J. J Neurophysiol. 2002 Nov. PMID: 12424310.
Emerging rules for the distributions of active dendritic conductances.Migliore M, Shepherd GM. Nat Rev Neurosci. 2002 May. PMID: 11988775.

2001

The olfactory receptor family album.Crasto C, Singer MS, Shepherd GM. Genome Biol. 2001; 2001 Sep 14. PMID: 11597337.

2000

Functional mosaic organization of mouse olfactory receptor neurons.Ma M, Shepherd GM. Proc Natl Acad Sci U S A. 2000 Nov 7. PMID: 11050155.
Odor maps in the olfactory bulb.Xu F, Greer CA, Shepherd GM. J Comp Neurol. 2000 Jul 10. PMID: 10861521.
Analysis of relations between NMDA receptors and GABA release at olfactory bulb reciprocal synapses.Chen WR, Xiong W, Shepherd GM. Neuron. 2000 Mar. PMID: 10774730.
Olfactory receptor database: a sensory chemoreceptor resource.Skoufos E, Marenco L, Nadkarni PM, Miller PL, Shepherd GM. Nucleic Acids Res. 2000 Jan 1. PMID: 10592268.

1999

Computational analysis of action potential initiation in mitral cell soma and dendrites based on dual patch recordings.Shen GY, Chen WR, Midtgaard J, Shepherd GM, Hines ML. J Neurophysiol. 1999 Dec. PMID: 10601436.
Electrophysiological characterization of rat and mouse olfactory receptor neurons from an intact epithelial preparation.Ma M, Chen WR, Shepherd GM. J Neurosci Methods. 1999 Oct 15. PMID: 10595701.
Synaptic organization and neurotransmitters in the rat accessory olfactory bulb.Jia C, Chen WR, Shepherd GM. J Neurophysiol. 1999 Jan. PMID: 9914294.
Olfactory Receptor Database: a database of the largest eukaryotic gene family.Skoufos E, Healy MD, Singer MS, Nadkarni PM, Miller PL, Shepherd GM. Nucleic Acids Res. 1999 Jan 1. PMID: 9847223.

1998

Visualizing odor detection in olfactory cilia by calcium imaging.Leinders-Zufall T, Greer CA, Shepherd GM, Zufall F. Ann N Y Acad Sci. 1998 Nov 30. PMID: 9929606.
Identification of olfactory receptor mRNA sequences from the rat olfactory bulb glomerular layer.Singer MS, Hughes TE, Shepherd GM, Greer CA. Neuroreport. 1998 Nov 16. PMID: 9858390.
The Human Brain Project: neuroinformatics tools for integrating, searching and modeling multidisciplinary neuroscience data.Shepherd GM, Mirsky JS, Healy MD, Singer MS, Skoufos E, Hines MS, Nadkarni PM, Miller PL. Trends Neurosci. 1998 Nov. PMID: 9829685.
Database tools for integrating and searching membrane property data correlated with neuronal morphology.Mirsky JS, Nadkarni PM, Healy MD, Miller PL, Shepherd GM. J Neurosci Methods. 1998 Jul 1. PMID: 10223520.
Dynamic mapping at the laminar level of odor-elicited responses in rat olfactory bulb by functional MRI.Yang X, Renken R, Hyder F, Siddeek M, Greer CA, Shepherd GM, Shulman RG. Proc Natl Acad Sci U S A. 1998 Jun 23. PMID: 9636216.

1997

Forward and backward propagation of dendritic impulses and their synaptic control in mitral cells.Chen WR, Midtgaard J, Shepherd GM. Science. 1997 Oct 17. PMID: 9334305.
Centenary of the synapse: from Sherrington to the molecular biology of the synapse and beyond.Shepherd GM, Erulkar SD. Trends Neurosci. 1997 Sep. PMID: 9292963.
Cyclic nucleotide gated channels as regulators of CNS development and plasticity.Zufall F, Shepherd GM, Barnstable CJ. Curr Opin Neurobiol. 1997 Jun. PMID: 9232810.
Olfactory receptor database (ORDB): a resource for sharing and analyzing published and unpublished data.Healy MD, Smith JE, Singer MS, Nadkarni PM, Skoufos E, Miller PL, Shepherd GM. Chem Senses. 1997 Jun. PMID: 9218144.
Calcium entry through cyclic nucleotide-gated channels in individual cilia of olfactory receptor cells: spatiotemporal dynamics.Leinders-Zufall T, Rand MN, Shepherd GM, Greer CA, Zufall F. J Neurosci. 1997 Jun 1. PMID: 9151731.
Membrane and synaptic properties of mitral cells in slices of rat olfactory bulb.Chen WR, Shepherd GM. Brain Res. 1997 Jan 16. PMID: 9037409.

1996

ModelDB: an environment for running and storing computational models and their results applied to neuroscience.Peterson BE, Healy MD, Nadkarni PM, Miller PL, Shepherd GM. J Am Med Inform Assoc. 1996 Nov-Dec. PMID: 8930855.
Long-term modifications of synaptic efficacy in the human inferior and middle temporal cortex.Chen WR, Lee S, Kato K, Spencer DD, Shepherd GM, Williamson A. Proc Natl Acad Sci U S A. 1996 Jul 23. PMID: 8755594.
Modulation by cyclic GMP of the odour sensitivity of vertebrate olfactory receptor cells.Leinders-Zufall T, Shepherd GM, Zufall F. Proc Biol Sci. 1996 Jun 22. PMID: 8763798.
The dendritic spine: a multifunctional integrative unit.Shepherd GM. J Neurophysiol. 1996 Jun. PMID: 8793734.
Positive selection moments identify potential functional residues in human olfactory receptors.Singer MS, Weisinger-Lewin Y, Lancet D, Shepherd GM. Recept Channels. 1996. PMID: 9014237.

1995

Regulation of cyclic nucleotide-gated channels and membrane excitability in olfactory receptor cells by carbon monoxide.Leinders-Zufall T, Shepherd GM, Zufall F. J Neurophysiol. 1995 Oct. PMID: 8989388.
A calcium-permeable cGMP-activated cation conductance in hippocampal neurons.Leinders-Zufall T, Rosenboom H, Barnstable CJ, Shepherd GM, Zufall F. Neuroreport. 1995 Sep 11. PMID: 8541476.
Olfactory receptors guide axons.Singer MS, Shepherd GM, Greer CA. Nature. 1995 Sep 7. PMID: 7659152.
Network-based informatics support of research collaborations in the Human Genome Project and the Human Brain Project.Miller PL, Nadkarni PM, Kucherlapati R, Krauter KS, Kidd KK, Ward DC, Shepherd GM, Berkowicz D. Medinfo. 1995. PMID: 8591495.
Potential ligand-binding residues in rat olfactory receptors identified by correlated mutation analysis.Singer MS, Oliveira L, Vriend G, Shepherd GM. Recept Channels. 1995. PMID: 8581404.

1994

Discrimination of molecular signals by the olfactory receptor neuron.Shepherd GM. Neuron. 1994 Oct. PMID: 7946328.
Molecular modeling of ligand-receptor interactions in the OR5 olfactory receptor.Singer MS, Shepherd GM. Neuroreport. 1994 Jun 2. PMID: 7919185.
Evidence for glutamate as the olfactory receptor cell neurotransmitter.Berkowicz DA, Trombley PQ, Shepherd GM. J Neurophysiol. 1994 Jun. PMID: 7931535.