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A community-developed open-source computational ecosystem for big neuro data.
Vogelstein JT, Perlman E, Falk B, Baden A, Gray Roncal W, Chandrashekhar V, Collman F, Seshamani S, Patsolic JL, Lillaney K, Kazhdan M, Hider R Jr, Pryor D, Matelsky J, Gion T, Manavalan P, Wester B, Chevillet M, Trautman ET, Khairy K, Bridgeford E, Kleissas DM, Tward DJ, Crow AK, Hsueh B, Wright MA, Miller MI, Smith SJ, Vogelstein RJ, Deisseroth K, Burns R. Vogelstein JT, et al. Among authors: trautman et. Nat Methods. 2018 Nov;15(11):846-847. doi: 10.1038/s41592-018-0181-1. Nat Methods. 2018. PMID: 30377345 Free PMC article. No abstract available.
A Complete Electron Microscopy Volume of the Brain of Adult Drosophila melanogaster.
Zheng Z, Lauritzen JS, Perlman E, Robinson CG, Nichols M, Milkie D, Torrens O, Price J, Fisher CB, Sharifi N, Calle-Schuler SA, Kmecova L, Ali IJ, Karsh B, Trautman ET, Bogovic JA, Hanslovsky P, Jefferis GSXE, Kazhdan M, Khairy K, Saalfeld S, Fetter RD, Bock DD. Zheng Z, et al. Among authors: trautman et. Cell. 2018 Jul 26;174(3):730-743.e22. doi: 10.1016/j.cell.2018.06.019. Epub 2018 Jul 19. Cell. 2018. PMID: 30033368 Free PMC article.
A scalable and modular automated pipeline for stitching of large electron microscopy datasets.
Mahalingam G, Torres R, Kapner D, Trautman ET, Fliss T, Seshamani S, Perlman E, Young R, Kinn S, Buchanan J, Takeno MM, Yin W, Bumbarger DJ, Gwinn RP, Nyhus J, Lein E, Smith SJ, Reid RC, Khairy KA, Saalfeld S, Collman F, Macarico da Costa N. Mahalingam G, et al. Among authors: trautman et. Elife. 2022 Jul 26;11:e76534. doi: 10.7554/eLife.76534. Elife. 2022. PMID: 35880860 Free PMC article.
Author Correction: Architecture and dynamics of a desmosome-endoplasmic reticulum complex.
Bharathan NK, Giang W, Hoffman CL, Aaron JS, Khuon S, Chew TL, Preibisch S, Trautman ET, Heinrich L, Bogovic J, Bennett D, Ackerman D, Park W, Petruncio A, Weigel AV, Saalfeld S; COSEM Project Team; Wayne Vogl A, Stahley SN, Kowalczyk AP. Bharathan NK, et al. Among authors: trautman et. Nat Cell Biol. 2024 Apr;26(4):660. doi: 10.1038/s41556-024-01376-0. Nat Cell Biol. 2024. PMID: 38347183 No abstract available.
Architecture and dynamics of a desmosome-endoplasmic reticulum complex.
Bharathan NK, Giang W, Hoffman CL, Aaron JS, Khuon S, Chew TL, Preibisch S, Trautman ET, Heinrich L, Bogovic J, Bennett D, Ackerman D, Park W, Petruncio A, Weigel AV, Saalfeld S; COSEM Project Team; Wayne Vogl A, Stahley SN, Kowalczyk AP. Bharathan NK, et al. Among authors: trautman et. Nat Cell Biol. 2023 Jun;25(6):823-835. doi: 10.1038/s41556-023-01154-4. Epub 2023 Jun 8. Nat Cell Biol. 2023. PMID: 37291267 Free PMC article.
Dynamical feature extraction at the sensory periphery guides chemotaxis.
Schulze A, Gomez-Marin A, Rajendran VG, Lott G, Musy M, Ahammad P, Deogade A, Sharpe J, Riedl J, Jarriault D, Trautman ET, Werner C, Venkadesan M, Druckmann S, Jayaraman V, Louis M. Schulze A, et al. Among authors: trautman et. Elife. 2015 Jun 16;4:e06694. doi: 10.7554/eLife.06694. Elife. 2015. PMID: 26077825 Free PMC article.
A connectome and analysis of the adult Drosophila central brain.
Scheffer LK, Xu CS, Januszewski M, Lu Z, Takemura SY, Hayworth KJ, Huang GB, Shinomiya K, Maitlin-Shepard J, Berg S, Clements J, Hubbard PM, Katz WT, Umayam L, Zhao T, Ackerman D, Blakely T, Bogovic J, Dolafi T, Kainmueller D, Kawase T, Khairy KA, Leavitt L, Li PH, Lindsey L, Neubarth N, Olbris DJ, Otsuna H, Trautman ET, Ito M, Bates AS, Goldammer J, Wolff T, Svirskas R, Schlegel P, Neace E, Knecht CJ, Alvarado CX, Bailey DA, Ballinger S, Borycz JA, Canino BS, Cheatham N, Cook M, Dreher M, Duclos O, Eubanks B, Fairbanks K, Finley S, Forknall N, Francis A, Hopkins GP, Joyce EM, Kim S, Kirk NA, Kovalyak J, Lauchie SA, Lohff A, Maldonado C, Manley EA, McLin S, Mooney C, Ndama M, Ogundeyi O, Okeoma N, Ordish C, Padilla N, Patrick CM, Paterson T, Phillips EE, Phillips EM, Rampally N, Ribeiro C, Robertson MK, Rymer JT, Ryan SM, Sammons M, Scott AK, Scott AL, Shinomiya A, Smith C, Smith K, Smith NL, Sobeski MA, Suleiman A, Swift J, Takemura S, Talebi I, Tarnogorska D, Tenshaw E, Tokhi T, Walsh JJ, Yang T, Horne JA, Li F, Parekh R, Rivlin PK, Jayaraman V, Costa M, Jefferis GS, Ito K, Saalfeld S, George R, Meinertzhagen IA, Rubin GM, Hess HF, Jain V, Plaza SM. Scheffer LK, et al. Among authors: trautman et. Elife. 2020 Sep 7;9:e57443. doi: 10.7554/eLife.57443. Elife. 2020. PMID: 32880371 Free PMC article.
A GAL4-driver line resource for Drosophila neurobiology.
Jenett A, Rubin GM, Ngo TT, Shepherd D, Murphy C, Dionne H, Pfeiffer BD, Cavallaro A, Hall D, Jeter J, Iyer N, Fetter D, Hausenfluck JH, Peng H, Trautman ET, Svirskas RR, Myers EW, Iwinski ZR, Aso Y, DePasquale GM, Enos A, Hulamm P, Lam SC, Li HH, Laverty TR, Long F, Qu L, Murphy SD, Rokicki K, Safford T, Shaw K, Simpson JH, Sowell A, Tae S, Yu Y, Zugates CT. Jenett A, et al. Among authors: trautman et. Cell Rep. 2012 Oct 25;2(4):991-1001. doi: 10.1016/j.celrep.2012.09.011. Epub 2012 Oct 11. Cell Rep. 2012. PMID: 23063364 Free PMC article.
Connectome-driven neural inventory of a complete visual system.
Nern A, Loesche F, Takemura SY, Burnett LE, Dreher M, Gruntman E, Hoeller J, Huang GB, Januszewski M, Klapoetke NC, Koskela S, Longden KD, Lu Z, Preibisch S, Qiu W, Rogers EM, Seenivasan P, Zhao A, Bogovic J, Canino BS, Clements J, Cook M, Finley-May S, Flynn MA, Hameed I, Hayworth KJ, Hopkins GP, Hubbard PM, Katz WT, Kovalyak J, Lauchie SA, Leonard M, Lohff A, Maldonado CA, Mooney C, Okeoma N, Olbris DJ, Ordish C, Paterson T, Phillips EM, Pietzsch T, Rivas Salinas J, Rivlin PK, Scott AL, Scuderi LA, Takemura S, Talebi I, Thomson A, Trautman ET, Umayam L, Walsh C, Walsh JJ, Xu CS, Yakal EA, Yang T, Zhao T, Funke J, George R, Hess HF, Jefferis GSXE, Knecht C, Korff W, Plaza SM, Romani S, Saalfeld S, Scheffer LK, Berg S, Rubin GM, Reiser MB. Nern A, et al. Among authors: trautman et. bioRxiv [Preprint]. 2024 Apr 18:2024.04.16.589741. doi: 10.1101/2024.04.16.589741. bioRxiv. 2024. PMID: 38659887 Free PMC article. Preprint.