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Items: 40

1.

Big data in nanoscale connectomics, and the greed for training labels.

Motta A, Schurr M, Staffler B, Helmstaedter M.

Curr Opin Neurobiol. 2019 Apr;55:180-187. doi: 10.1016/j.conb.2019.03.012. Epub 2019 May 2. Review.

PMID:
31055238
2.

ARP3 Controls the Podocyte Architecture at the Kidney Filtration Barrier.

Schell C, Sabass B, Helmstaedter M, Geist F, Abed A, Yasuda-Yamahara M, Sigle A, Maier JI, Grahammer F, Siegerist F, Artelt N, Endlich N, Kerjaschki D, Arnold HH, Dengjel J, Rogg M, Huber TB.

Dev Cell. 2018 Dec 17;47(6):741-757.e8. doi: 10.1016/j.devcel.2018.11.011. Epub 2018 Nov 29.

3.

Full reconstruction of large lobula plate tangential cells in Drosophila from a 3D EM dataset.

Boergens KM, Kapfer C, Helmstaedter M, Denk W, Borst A.

PLoS One. 2018 Nov 28;13(11):e0207828. doi: 10.1371/journal.pone.0207828. eCollection 2018.

4.

FluoEM, virtual labeling of axons in three-dimensional electron microscopy data for long-range connectomics.

Drawitsch F, Karimi A, Boergens KM, Helmstaedter M.

Elife. 2018 Aug 14;7. pii: e38976. doi: 10.7554/eLife.38976.

5.

FERMT2 links cortical actin structures, plasma membrane tension and focal adhesion function to stabilize podocyte morphology.

Yasuda-Yamahara M, Rogg M, Frimmel J, Trachte P, Helmstaedter M, Schroder P, Schiffer M, Schell C, Huber TB.

Matrix Biol. 2018 Aug;68-69:263-279. doi: 10.1016/j.matbio.2018.01.003. Epub 2018 Jan 11.

6.

Axonal synapse sorting in medial entorhinal cortex.

Schmidt H, Gour A, Straehle J, Boergens KM, Brecht M, Helmstaedter M.

Nature. 2017 Sep 28;549(7673):469-475. doi: 10.1038/nature24005. Epub 2017 Sep 20.

PMID:
28959971
7.

SynEM, automated synapse detection for connectomics.

Staffler B, Berning M, Boergens KM, Gour A, Smagt PV, Helmstaedter M.

Elife. 2017 Jul 14;6. pii: e26414. doi: 10.7554/eLife.26414.

8.

webKnossos: efficient online 3D data annotation for connectomics.

Boergens KM, Berning M, Bocklisch T, Bräunlein D, Drawitsch F, Frohnhofen J, Herold T, Otto P, Rzepka N, Werkmeister T, Werner D, Wiese G, Wissler H, Helmstaedter M.

Nat Methods. 2017 Jul;14(7):691-694. doi: 10.1038/nmeth.4331. Epub 2017 Jun 12.

PMID:
28604722
9.

mTOR Regulates Endocytosis and Nutrient Transport in Proximal Tubular Cells.

Grahammer F, Ramakrishnan SK, Rinschen MM, Larionov AA, Syed M, Khatib H, Roerden M, Sass JO, Helmstaedter M, Osenberg D, Kühne L, Kretz O, Wanner N, Jouret F, Benzing T, Artunc F, Huber TB, Theilig F.

J Am Soc Nephrol. 2017 Jan;28(1):230-241. doi: 10.1681/ASN.2015111224. Epub 2016 Jun 13.

10.

Voices of biotech.

Amit I, Baker D, Barker R, Berger B, Bertozzi C, Bhatia S, Biffi A, Demichelis F, Doudna J, Dowdy SF, Endy D, Helmstaedter M, Junca H, June C, Kamb S, Khvorova A, Kim DH, Kim JS, Krishnan Y, Lakadamyali M, Lappalainen T, Lewin S, Liao J, Loman N, Lundberg E, Lynd L, Martin C, Mellman I, Miyawaki A, Mummery C, Nelson K, Paz J, Peralta-Yahya P, Picotti P, Polyak K, Prather K, Qin J, Quake S, Regev A, Rogers JA, Shetty R, Sommer M, Stevens M, Stolovitzky G, Takahashi M, Tang F, Teichmann S, Torres-Padilla ME, Tripathi L, Vemula P, Verdine G, Vollmer F, Wang J, Ying JY, Zhang F, Zhang T.

Nat Biotechnol. 2016 Mar;34(3):270-5. doi: 10.1038/nbt.3502. No abstract available.

PMID:
26963549
11.

SegEM: Efficient Image Analysis for High-Resolution Connectomics.

Berning M, Boergens KM, Helmstaedter M.

Neuron. 2015 Sep 23;87(6):1193-1206. doi: 10.1016/j.neuron.2015.09.003.

12.

Large-volume en-bloc staining for electron microscopy-based connectomics.

Hua Y, Laserstein P, Helmstaedter M.

Nat Commun. 2015 Aug 3;6:7923. doi: 10.1038/ncomms8923.

13.

Common circuit design in fly and mammalian motion vision.

Borst A, Helmstaedter M.

Nat Neurosci. 2015 Aug;18(8):1067-76. doi: 10.1038/nn.4050. Epub 2015 Jun 29. Review.

PMID:
26120965
14.

The mutual inspirations of machine learning and neuroscience.

Helmstaedter M.

Neuron. 2015 Apr 8;86(1):25-8. doi: 10.1016/j.neuron.2015.03.031. Review.

15.

Synaptic Conductance Estimates of the Connection Between Local Inhibitor Interneurons and Pyramidal Neurons in Layer 2/3 of a Cortical Column.

Hoffmann JH, Meyer HS, Schmitt AC, Straehle J, Weitbrecht T, Sakmann B, Helmstaedter M.

Cereb Cortex. 2015 Nov;25(11):4415-29. doi: 10.1093/cercor/bhv039. Epub 2015 Mar 10.

16.

A barrel-related interneuron in layer 4 of rat somatosensory cortex with a high intrabarrel connectivity.

Koelbl C, Helmstaedter M, Lübke J, Feldmeyer D.

Cereb Cortex. 2015 Mar;25(3):713-25. doi: 10.1093/cercor/bht263. Epub 2013 Sep 26.

17.

Connectomic reconstruction of the inner plexiform layer in the mouse retina.

Helmstaedter M, Briggman KL, Turaga SC, Jain V, Seung HS, Denk W.

Nature. 2013 Aug 8;500(7461):168-74. doi: 10.1038/nature12346. Erratum in: Nature. 2014 Oct 16;514(7522):394.

PMID:
23925239
18.

Cellular-resolution connectomics: challenges of dense neural circuit reconstruction.

Helmstaedter M.

Nat Methods. 2013 Jun;10(6):501-7. doi: 10.1038/nmeth.2476. Review.

PMID:
23722209
19.

3D reconstruction and standardization of the rat vibrissal cortex for precise registration of single neuron morphology.

Egger R, Narayanan RT, Helmstaedter M, de Kock CP, Oberlaender M.

PLoS Comput Biol. 2012;8(12):e1002837. doi: 10.1371/journal.pcbi.1002837. Epub 2012 Dec 20.

20.

3D segmentation of SBFSEM images of neuropil by a graphical model over supervoxel boundaries.

Andres B, Koethe U, Kroeger T, Helmstaedter M, Briggman KL, Denk W, Hamprecht FA.

Med Image Anal. 2012 May;16(4):796-805. doi: 10.1016/j.media.2011.11.004. Epub 2011 Dec 19.

PMID:
22374536
21.

Structural neurobiology: missing link to a mechanistic understanding of neural computation.

Denk W, Briggman KL, Helmstaedter M.

Nat Rev Neurosci. 2012 Feb 22;13(5):351-8. doi: 10.1038/nrn3169. Review.

PMID:
22353782
22.

Computational methods and challenges for large-scale circuit mapping.

Helmstaedter M, Mitra PP.

Curr Opin Neurobiol. 2012 Feb;22(1):162-9. doi: 10.1016/j.conb.2011.11.010. Epub 2012 Jan 3. Review.

23.

Cell type-specific three-dimensional structure of thalamocortical circuits in a column of rat vibrissal cortex.

Oberlaender M, de Kock CP, Bruno RM, Ramirez A, Meyer HS, Dercksen VJ, Helmstaedter M, Sakmann B.

Cereb Cortex. 2012 Oct;22(10):2375-91. doi: 10.1093/cercor/bhr317. Epub 2011 Nov 16.

24.

Large-scale automated histology in the pursuit of connectomes.

Kleinfeld D, Bharioke A, Blinder P, Bock DD, Briggman KL, Chklovskii DB, Denk W, Helmstaedter M, Kaufhold JP, Lee WC, Meyer HS, Micheva KD, Oberlaender M, Prohaska S, Reid RC, Smith SJ, Takemura S, Tsai PS, Sakmann B.

J Neurosci. 2011 Nov 9;31(45):16125-38. doi: 10.1523/JNEUROSCI.4077-11.2011. Review.

25.

Inhibitory interneurons in a cortical column form hot zones of inhibition in layers 2 and 5A.

Meyer HS, Schwarz D, Wimmer VC, Schmitt AC, Kerr JN, Sakmann B, Helmstaedter M.

Proc Natl Acad Sci U S A. 2011 Oct 4;108(40):16807-12. doi: 10.1073/pnas.1113648108. Epub 2011 Sep 26.

26.

High-accuracy neurite reconstruction for high-throughput neuroanatomy.

Helmstaedter M, Briggman KL, Denk W.

Nat Neurosci. 2011 Jul 10;14(8):1081-8. doi: 10.1038/nn.2868.

PMID:
21743472
27.

Wiring specificity in the direction-selectivity circuit of the retina.

Briggman KL, Helmstaedter M, Denk W.

Nature. 2011 Mar 10;471(7337):183-8. doi: 10.1038/nature09818.

PMID:
21390125
28.

Number and laminar distribution of neurons in a thalamocortical projection column of rat vibrissal cortex.

Meyer HS, Wimmer VC, Oberlaender M, de Kock CP, Sakmann B, Helmstaedter M.

Cereb Cortex. 2010 Oct;20(10):2277-86. doi: 10.1093/cercor/bhq067. Epub 2010 Jun 9.

29.

Cell type-specific thalamic innervation in a column of rat vibrissal cortex.

Meyer HS, Wimmer VC, Hemberger M, Bruno RM, de Kock CP, Frick A, Sakmann B, Helmstaedter M.

Cereb Cortex. 2010 Oct;20(10):2287-303. doi: 10.1093/cercor/bhq069. Epub 2010 Jun 9.

30.

Convolutional networks can learn to generate affinity graphs for image segmentation.

Turaga SC, Murray JF, Jain V, Roth F, Helmstaedter M, Briggman K, Denk W, Seung HS.

Neural Comput. 2010 Feb;22(2):511-38. doi: 10.1162/neco.2009.10-08-881.

PMID:
19922289
31.

3D structural imaging of the brain with photons and electrons.

Helmstaedter M, Briggman KL, Denk W.

Curr Opin Neurobiol. 2008 Dec;18(6):633-41. doi: 10.1016/j.conb.2009.03.005. Epub 2009 Apr 9. Review.

PMID:
19361979
32.

Neuronal correlates of local, lateral, and translaminar inhibition with reference to cortical columns.

Helmstaedter M, Sakmann B, Feldmeyer D.

Cereb Cortex. 2009 Apr;19(4):926-37. doi: 10.1093/cercor/bhn141. Epub 2008 Oct 1.

PMID:
18832335
33.

L2/3 interneuron groups defined by multiparameter analysis of axonal projection, dendritic geometry, and electrical excitability.

Helmstaedter M, Sakmann B, Feldmeyer D.

Cereb Cortex. 2009 Apr;19(4):951-62. doi: 10.1093/cercor/bhn130. Epub 2008 Sep 18.

PMID:
18802122
34.

The relation between dendritic geometry, electrical excitability, and axonal projections of L2/3 interneurons in rat barrel cortex.

Helmstaedter M, Sakmann B, Feldmeyer D.

Cereb Cortex. 2009 Apr;19(4):938-50. doi: 10.1093/cercor/bhn138. Epub 2008 Sep 11.

PMID:
18787231
35.

Efficient recruitment of layer 2/3 interneurons by layer 4 input in single columns of rat somatosensory cortex.

Helmstaedter M, Staiger JF, Sakmann B, Feldmeyer D.

J Neurosci. 2008 Aug 13;28(33):8273-84. doi: 10.1523/JNEUROSCI.5701-07.2008.

36.

Petilla terminology: nomenclature of features of GABAergic interneurons of the cerebral cortex.

Petilla Interneuron Nomenclature Group, Ascoli GA, Alonso-Nanclares L, Anderson SA, Barrionuevo G, Benavides-Piccione R, Burkhalter A, Buzsáki G, Cauli B, Defelipe J, Fairén A, Feldmeyer D, Fishell G, Fregnac Y, Freund TF, Gardner D, Gardner EP, Goldberg JH, Helmstaedter M, Hestrin S, Karube F, Kisvárday ZF, Lambolez B, Lewis DA, Marin O, Markram H, Muñoz A, Packer A, Petersen CC, Rockland KS, Rossier J, Rudy B, Somogyi P, Staiger JF, Tamas G, Thomson AM, Toledo-Rodriguez M, Wang Y, West DC, Yuste R.

Nat Rev Neurosci. 2008 Jul;9(7):557-68. doi: 10.1038/nrn2402. Review.

37.

Reconstruction of an average cortical column in silico.

Helmstaedter M, de Kock CP, Feldmeyer D, Bruno RM, Sakmann B.

Brain Res Rev. 2007 Oct;55(2):193-203. Epub 2007 Aug 8. Review.

PMID:
17822776
38.

Monosynaptic connections between pairs of L5A pyramidal neurons in columns of juvenile rat somatosensory cortex.

Frick A, Feldmeyer D, Helmstaedter M, Sakmann B.

Cereb Cortex. 2008 Feb;18(2):397-406. Epub 2007 Jun 4.

PMID:
17548800
39.

Dendritic voltage-gated K+ conductance gradient in pyramidal neurones of neocortical layer 5B from rats.

Schaefer AT, Helmstaedter M, Schmitt AC, Bar-Yehuda D, Almog M, Ben-Porat H, Sakmann B, Korngreen A.

J Physiol. 2007 Mar 15;579(Pt 3):737-52. Epub 2006 Dec 7.

40.

Correction of conductance measurements in non-space-clamped structures: 1. Voltage-gated K+ channels.

Schaefer AT, Helmstaedter M, Sakmann B, Korngreen A.

Biophys J. 2003 Jun;84(6):3508-28.

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