/*---------------------------------------------------------------- $Header$ hugrea.asc translated Mon Jan 18 11:58:56 1993 by ntscable 2.0 source file syntax: Eutectic output file syntax: NEURON soma: diameter = 14.0754 um length = 34.5468 um area = 1527.62 um2 33 three-D points; 38 outline points numbered 634-671 outline diameter = 22.323 um 4 primary neurites 42 branches totaling 3785.29 um in length, 13302.9 um2 in area 1416 tree points translated to 81 segments (1 requested) Neurites divided into segments of equal dx between adjacent digitized branch points. Segment length constrained to be < 3785.29 um. No. points 1454 No. trees 5 Thalamic reticular cell, from the reticular sector of rat ventrobasal nucleus. This cell was recorded intracellularly in slices and stained with biocytin. The physiology of that cell is described in: Huguenard, JR and Prince, DA. A novel T-type current undelies prolonged calcium-dependent burst firing in GABAergic neurons of rat thalamic reticular nucleus. J. Neurosci. 12: 3804-3817, 1992. http://www.cnl.salk.edu/~alain http://cns.fmed.ulaval.ca The cell was traced in December 1992 by A. Destexhe using a computer-guided neuronal tracing system (Eutectic), kindly provided by D. Amaral (Salk Institute). The tracing was done using a x100 oil immersion objective and the geometry was corrected for tissue shrinkage. The morphological characteristics of the cellular reconstruction, the passive properties of the cell and the modeling of that cell were described in: Destexhe, A., Contreras, D., Steriade, M., Sejnowski, T.J. and Huguenard, J.R. In vivo, in vitro and computational analysis of dendritic calcium currents in thalamic reticular neurons. J. Neurosci. 16: 169-185, 1996. This geometry can be used by anyone interested, under the only condition that the two above papers are cited. Please also send us a copy of publications that use that cell as courtesy. A. Destexhe, Salk Institute, 1994 ----------------------------------------------------------------*/ /* make geometry explicit */ primary_branches_cell = 4 branches_cell = 42 max_dx_cell = 3785.29 points_cell = 1416 nseg_cell = 81 double sections_cell[4] sections_cell[0] = 43 sections_cell[1] = 15 sections_cell[2] = 19 sections_cell[3] = 3 nsec_cell = 81 strdef name_soma, name_section name_soma = "soma" name_section = "dend" use_axon = 0 /* create sections */ create soma,\ dend1[43],\ dend2[15],\ dend3[19],\ dend4[3] /*----------------------------------------------------------------*/ proc geometry() { local i, j /* soma geometry */ soma { nseg = 1 pt3dclear() for j = 1, fscan() { pt3dadd(fscan(),fscan(),fscan(),fscan()) } } /* connect primary neurites */ soma connect dend1[0] (0), 0.5 soma connect dend2[0] (0), 0.5 soma connect dend3[0] (0), 0.5 soma connect dend4[0] (0), 0.5 /* neurite geometry*/ for i = 0,42 { dend1[i] { nseg = fscan() pt3dclear() for j = 1, fscan() { pt3dadd(fscan(),fscan(),fscan(),fscan()) } } } for i = 0,14 { dend2[i] { nseg = fscan() pt3dclear() for j = 1, fscan() { pt3dadd(fscan(),fscan(),fscan(),fscan()) } } } for i = 0,18 { dend3[i] { nseg = fscan() pt3dclear() for j = 1, fscan() { pt3dadd(fscan(),fscan(),fscan(),fscan()) } } } for i = 0,2 { dend4[i] { nseg = fscan() pt3dclear() for j = 1, fscan() { pt3dadd(fscan(),fscan(),fscan(),fscan()) } } } /* branching topology*/ for i = 1,42 { dend1[fscan()] connect dend1[i] (0), fscan() } for i = 1,14 { dend2[fscan()] connect dend2[i] (0), fscan() } for i = 1,18 { dend3[fscan()] connect dend3[i] (0), fscan() } for i = 1,2 { dend4[fscan()] connect dend4[i] (0), fscan() } } geometry() SOMA COORDINATES AND DIAMETERS: 33 -26 1.5 16.5 0 -26 0.75 17.5 2.5 -25.5 1 18 5 -25 0.625 19 8.0039 -24.5 0.25 19 9.8615 -23.5 -0.25 19 11.63 -22.5 -0.5 18.833 12.875 -22 -0.625 18.75 13.521 -20.5 -1.25 18.75 16.14 -18.5 -1.35 18.75 18.263 -18 -1.4375 18.75 18.675 -16.5 -1.5 18.625 19.47 -15 -1.75 18.5 19.906 -14.5 -1.7917 18.5 19.988 -13 -1.9167 20.5 19.833 -12 -2 21 20.025 -11.5 -1.75 21.75 20.555 -10 -1.5 20.75 21.29 -8.5 -1.4375 21 20.519 -8 -1.4167 21 20.233 -7 -1.5 21 19.416 -6 -1.25 20.5 17.755 -5.5 -1.25 20.167 16.714 -4.5 -1.4167 20 15.134 -4 -1.5 19.917 14.354 -3 -1.3333 19.75 12.18 -2.5 -1.375 19.75 10.831 -2 -1.25 20 9.3941 -2 -1.25 21 8.7321 -1.5 -2 22.25 5.0249 -1.5 -1 23 3.6056 -1.5 -0.25 22.5 1.8028 -1.5 0.5 22 0 NEURITE COORDINATES AND DIAMETERS: 1 2 -3 7 -6 7 -5.5 6 -6 7 1 13 -5.5 6 -6 7 -5.5 3.5 -6 6.4 -6 1.5 -6 5.5 -7 -0.5 -6.5 5.3 -8 -2 -7 4.5 -9 -3.5 -7.5 4.3 -10 -5.5 -7 4.3 -11 -7.5 -6.5 4.3 -12 -9 -6 4.3 -13 -11 -6.5 4.3 -14.5 -12.5 -7 4.3 -16.5 -14 -8 4 -18.5 -15.5 -8.5 4.6 1 9 -18.5 -15.5 -8.5 4.6 -20.5 -15.5 -11 3.5 -23 -16 -13 3.5 -24 -17 -16 3.5 -24 -18 -20.5 3.5 -22.5 -19 -25.5 3.5 -22.5 -20.5 -29.5 3.5 -23.5 -21 -32.5 3.5 -25 -22 -35.5 3.5 1 38 -25 -22 -35.5 3.5 -25 -23.5 -33.5 2.9 -25.5 -25 -32.5 2.9 -26 -27 -33 2.9 -27.5 -28.5 -33 2.9 -28.5 -30 -34.5 2.9 -30 -31.5 -35 2.9 -30.5 -33 -36 2 -31 -34 -36.5 2 -31.5 -35.5 -37.5 1.6 -32 -37 -37 1.6 -32.5 -38.5 -37 2 -32.5 -40 -37 2.2 -32.5 -41.5 -37.5 2.2 -32.5 -43 -37.5 2.2 -32.5 -44.5 -36.5 2.2 -32.5 -46 -36 2 -33 -47.5 -35.5 1.6 -33 -49 -35 2.2 -33 -50.5 -35 2.2 -33.5 -52 -35.5 2.2 -33.5 -54 -36 2.2 -33.5 -55.5 -35 2.2 -33.5 -57.5 -34.5 2.2 -33.5 -59 -34 1.7 -33 -60.5 -34 2 -32.5 -62.5 -34 2.2 -31 -64.5 -34 2.2 -29.5 -66 -34 2.2 -28 -68 -34 2.2 -27 -69 -34 2.2 -26 -70.5 -34 2.2 -25 -72 -34 2.2 -24 -73.5 -34.5 1.7 -23 -75 -35 1.7 -22 -76.5 -35.5 1.7 -21.5 -78.5 -35.5 2.4 -21.5 -80 -35.5 3.7 1 4 -21.5 -80 -35.5 3.7 -19.5 -81 -35.5 2.2 -18 -82.5 -35.5 2.2 -16.5 -84.5 -36.5 2.2 1 33 -16.5 -84.5 -36.5 2.2 -15 -84.5 -33 1.2 -14 -84.5 -29.5 1 -12.5 -85 -27.5 1 -11.5 -86.5 -26 1 -10.5 -88.5 -26 1 -10 -91 -24 1 -9.5 -93.5 -22.5 1 -8.5 -96 -21.5 1 -8 -98 -20 1 -6.5 -99 -19 0.8 -5.5 -99 -18 0.8 -4.5 -98.5 -18 0.8 -3.5 -98 -17.5 0.8 -2.5 -97 -17 1 -1 -96.5 -16.5 1 0.5 -96 -16.5 1 2.5 -95.5 -16.5 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0.8 0.5 -264 -38.5 0.8 1.5 -267 -38.5 0.8 2 -270 -40 0.8 1 7 -21.5 -80 -35.5 3.7 -22.5 -81 -35.5 2 -23 -83 -36.5 1.5 -23 -85 -38 0.8 -22.5 -87.5 -39.5 0.8 -22.5 -90 -40 0.8 -22.5 -92.5 -40 2 1 20 -22.5 -92.5 -40 2 -21 -93.5 -39.5 1 -20 -94.5 -40 1 -18.5 -96.5 -42.5 1 -17 -99 -45.5 1 -16 -101.5 -48.5 1 -15.5 -104.5 -48.5 1 -16 -107.5 -48.5 1 -16.5 -110.5 -48 1 -17.5 -114 -48.5 1 -18 -117.5 -49 1 -18.5 -121 -50 1 -19.5 -124 -52.5 1 -20.5 -127 -55.5 0.8 -21.5 -130 -58 0.8 -22 -133.5 -58.5 0.8 -22.5 -137 -59 0.8 -22.5 -140 -60 0.8 -22.5 -143 -60.5 0.8 -23 -146.5 -60 0.8 1 24 -22.5 -92.5 -40 2 -23.5 -93 -40.5 0.8 -24 -94 -42.5 0.8 -24.5 -95.5 -46 0.8 -24.5 -97.5 -48 0.8 -24.5 -100 -49.5 0.8 -25.5 -102.5 -49.5 0.8 -26.5 -105 -49.5 0.8 -27.5 -107.5 -49.5 0.8 -28.5 -110 -51 0.8 -30 -112.5 -53 0.8 -31.5 -115 -56 0.8 -34 -118 -59 0.8 -37 -121 -62.5 0.8 -39.5 -124.5 -66.5 0.8 -42 -127 -69.5 0.8 -43.5 -129.5 -70 0.8 -45.5 -132 -70.5 0.8 -46.5 -135.5 -70.5 0.8 -47.5 -138.5 -71.5 0.8 -48.5 -142 -72 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4 -47 -15.5 1.7 2.5 -47.5 -16 1.2 1 -48.5 -17.5 1.2 0 -50 -18 1.2 0 -51 -19.5 1.2 0 -52.5 -19.5 1.2 0 -53 -20 0.8 0 -54 -20 0.8 -1 -55 -21 0.8 -3 -55.5 -21 0.8 -5 -56.5 -23.5 0.8 -5.5 -57.5 -26 0.8 -6 -59.5 -29 0.8 -7 -62 -29.5 0.8 -8.5 -64.5 -29.5 0.8 -9.5 -67.5 -31.5 0.8 -10.5 -69.5 -34.5 0.8 -11 -72 -37 0.8 -12 -74 -39 0.8 -13 -76.5 -39 0.8 -14 -78.5 -40.5 0.8 -14 -81 -41 1 -13.5 -83.5 -42 1 -13.5 -86 -41.5 1.5 -14 -88 -42 0.8 -14.5 -90.5 -43 0.8 -15 -93 -46.5 0.8 -15.5 -95.5 -48.5 0.8 -16.5 -98.5 -52 0.8 -18 -103 -56 0.8 -19.5 -108.5 -59.5 0.8 -21 -113.5 -64.5 0.8 -23 -117 -66.5 0.8 -25 -120.5 -67.5 0.8 -26.5 -124.5 -67.5 0.8 -27 -128 -66 0.8 -27.5 -131 -64.5 0.8 1 42 4 -47 -15.5 1.7 5 -47.5 -14 1.1 6 -49 -13 1.1 7 -51 -12 1.1 6.5 -54 -12 1.1 6 -56.5 -10.5 1.1 7 -59.5 -9 1.1 7 -61 -9 0.8 6 -62.5 -10.5 1 4 -63.5 -13 1 2 -65 -14 1 0.5 -67 -15 1 0 -69.5 -15.5 1 -0.5 -71.5 -17.5 1 -1 -72.5 -18.5 1 -2 -73.5 -20.5 1 -2.5 -74 -20.5 0.6 -2.5 -75 -20.5 0.6 -2.5 -76.5 -20.5 0.6 -4 -78 -21.5 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23.5 65 0.8 -77 27 65.5 0.8 -76.5 29.5 65 0.8 -76.5 32 64.5 0.8 -76.5 34 66 0.8 -75.5 35 68 0.8 -73.5 35.5 70 0.8 -71.5 36.5 71 1.2 1 8 -71.5 36.5 71 1.2 -73 38 71.5 0.6 -75 39 71.5 0.6 -76 41 70 0.6 -77 42.5 68 0.6 -78 44.5 66.5 0.6 -79 46.5 65.5 0.6 -80 49 64 1.7 1 8 -71.5 36.5 71 1.2 -69 36.5 71.5 0.6 -67 36 72 0.6 -64.5 36 72 0.6 -62 35.5 72 0.6 -59.5 34.5 73 0.6 -56.5 34.5 74.5 0.6 -53.5 35 77 0.6 1 13 -12 6.5 15 1.7 -11.5 8 15 1.7 -10.5 9 15 1.7 -9.5 10 15.5 2 -8.5 11 15.5 2 -7.5 12 15.5 1.7 -6.5 13 16.5 1.7 -5 14.5 16.5 1.7 -4.5 16 18 0.8 -2.5 16.5 18 0.8 -0.5 16.5 18 1.7 0 18 18.5 1.7 1.5 19 19 1.5 1 48 1.5 19 19 1.5 3 19.5 17.5 1 5 20.5 17.5 1 6.5 21 17.5 1 8.5 23 16.5 1 9 24.5 16.5 1 10 25 16.5 1.5 12.5 26.5 16.5 1.5 14 27.5 16 1 16.5 28 16 1 19 29.5 16 1.5 20 30.5 16 0.8 21.5 32 16 0.8 23 32.5 17 0.5 23.5 33 17.5 1.2 26 34.5 17.5 1.2 27.5 35 18.5 0.8 30 36 18.5 0.8 31.5 36 18.5 0.8 30.5 36.5 18.5 0.8 31 37.5 18.5 0.8 33 38 18.5 0.8 34.5 39 18.5 0.8 36 39.5 18.5 0.8 36.5 41 18.5 0.8 37.5 42.5 19 0.8 38.5 43.5 19 1.2 40.5 44.5 19 1 41 45.5 18.5 0.6 41 48 18 0.6 41.5 49 18 1.1 42 50.5 17 0.4 40.5 52.5 17 0.4 39 54 16.5 0.4 38.5 55 16 0.4 39.5 55 16.5 0.4 40.5 54.5 17 0.4 40.5 56 16.5 0.4 39.5 57.5 16 0.4 38.5 59 16 0.4 39 60.5 15.5 0.4 38 61.5 15 0.4 37.5 60 15.5 0.4 36 61 15.5 0.4 36.5 62 15.5 0.4 35.5 63.5 16.5 0.4 35 65 16 0.4 34 67.5 16.5 0.4 1 23 1.5 19 19 1.5 1.5 20 20 0.8 2.5 21.5 20 0.8 1 23.5 20 0.8 1.5 26.5 22.5 0.8 3 29 23 0.8 4.5 30 23.5 0.8 7 30.5 23 0.8 9 33 23.5 0.8 11.5 36.5 24.5 0.8 14 40 25 0.8 17.5 44 26 0.8 20 45 26.5 0.8 21 48.5 27.5 0.8 20.5 50 26.5 0.8 21.5 52 28.5 0.8 24.5 53.5 28.5 0.8 27 55 28.5 0.8 27.5 57.5 28.5 0.8 29.5 57.5 29.5 0.8 32 58 32 0.8 32.5 60 31.5 0.8 30 62 31.5 0.8 CONNECTIONS: 0 1 1 1 2 1 3 1 4 1 4 1 6 1 6 1 8 1 8 1 10 1 10 1 3 1 13 1 13 1 2 1 16 1 16 1 1 1 19 1 19 1 0 1 22 1 23 1 23 1 25 1 26 1 26 1 25 1 29 1 29 1 31 1 31 1 22 1 34 1 34 1 36 1 37 1 37 1 36 1 40 1 40 1 0 1 1 1 1 1 0 1 4 1 5 1 6 1 6 1 5 1 4 1 10 1 10 1 12 1 12 1 0 1 1 1 2 1 3 1 3 1 2 1 1 1 7 1 7 1 0 1 10 1 11 1 11 1 10 1 14 1 14 1 16 1 16 1 0 1 0 1 /*----------------------------------------------------------------*/ proc geometry() { /* NULL geometry procedure: keeps the user from calling the geometry procedure in isolation. */ printf("\nYou must re-read the entire geometry\n") printf("file to execute geometry().\n\n") }