-
1
-
-
0003667602
-
Histologie du système nerveux de l'homme & des vertébrés
-
1 Ramon, Cajal, S., Histologie du système nerveux de l'homme & des vertébrés. 1909.
-
(1909)
-
-
Ramon1
Cajal, S.2
-
2
-
-
0004030413
-
Histological Studies on the Localisation of Cerebral Function
-
2 Campbell, A.W., Histological Studies on the Localisation of Cerebral Function. 1905.
-
(1905)
-
-
Campbell, A.W.1
-
3
-
-
0003724754
-
Vergleichende Lokalisationslehre der Grosshirnrinde in ihren Prinzipien dargestellt auf Grund des Zellenbaues
-
3 Brodmann, K., Vergleichende Lokalisationslehre der Grosshirnrinde in ihren Prinzipien dargestellt auf Grund des Zellenbaues. 1909.
-
(1909)
-
-
Brodmann, K.1
-
4
-
-
0000329629
-
Die myeloarchitektonische Felderung des menschlichen Stirnhirns
-
4 Vogt, O., Die myeloarchitektonische Felderung des menschlichen Stirnhirns. J Psychol Neurol 15 (1910), 221–232.
-
(1910)
J Psychol Neurol
, vol.15
, pp. 221-232
-
-
Vogt, O.1
-
5
-
-
84947260355
-
Generating neuronal diversity in the mammalian cerebral cortex
-
5 Lodato, S., Arlotta, P., Generating neuronal diversity in the mammalian cerebral cortex. Annu Rev Cell Dev Biol 31 (2015), 699–720.
-
(2015)
Annu Rev Cell Dev Biol
, vol.31
, pp. 699-720
-
-
Lodato, S.1
Arlotta, P.2
-
6
-
-
4644285773
-
Neuronal cell types
-
6 Masland, R.H., Neuronal cell types. Curr Biol 14 (2004), R497–R500.
-
(2004)
Curr Biol
, vol.14
, pp. R497-R500
-
-
Masland, R.H.1
-
7
-
-
33747687759
-
Electrophysiological and gene expression profiling of neuronal cell types in mammalian neocortex
-
7 Yano, K., Subkhankulova, T., Livesey, F.J., Robinson, Hugh, P.C., Electrophysiological and gene expression profiling of neuronal cell types in mammalian neocortex. J Physiol (Lond) 575 (2006), 361–365.
-
(2006)
J Physiol (Lond)
, vol.575
, pp. 361-365
-
-
Yano, K.1
Subkhankulova, T.2
Livesey, F.J.3
Robinson4
Hugh, P.C.5
-
8
-
-
84861908570
-
Neuronal classification and marker gene identification via single-cell expression profiling of brainstem vestibular neurons subserving cerebellar learning
-
8 Kodama, T., Guerrero, S., Shin, M., Moghadam, S., Faulstich, M., Lac du, S., Neuronal classification and marker gene identification via single-cell expression profiling of brainstem vestibular neurons subserving cerebellar learning. J Neurosci 32 (2012), 7819–7831.
-
(2012)
J Neurosci
, vol.32
, pp. 7819-7831
-
-
Kodama, T.1
Guerrero, S.2
Shin, M.3
Moghadam, S.4
Faulstich, M.5
Lac du, S.6
-
9
-
-
0038702458
-
Single-cell transcriptional analysis of neuronal progenitors
-
9 Tietjen, I., Rihel, J.M., Cao, Y., Koentges, G., Zakhary, L., Dulac, C., Single-cell transcriptional analysis of neuronal progenitors. Neuron 38 (2003), 161–175.
-
(2003)
Neuron
, vol.38
, pp. 161-175
-
-
Tietjen, I.1
Rihel, J.M.2
Cao, Y.3
Koentges, G.4
Zakhary, L.5
Dulac, C.6
-
10
-
-
34249307504
-
Molecular heterogeneity of developing retinal ganglion and amacrine cells revealed through single cell gene expression profiling
-
10 Trimarchi, J.M., Stadler, M.B., Roska, B., Billings, N., Sun, B., Bartch, B., Cepko, C.L., Molecular heterogeneity of developing retinal ganglion and amacrine cells revealed through single cell gene expression profiling. J Comp Neurol 502 (2007), 1047–1065.
-
(2007)
J Comp Neurol
, vol.502
, pp. 1047-1065
-
-
Trimarchi, J.M.1
Stadler, M.B.2
Roska, B.3
Billings, N.4
Sun, B.5
Bartch, B.6
Cepko, C.L.7
-
11
-
-
67249089012
-
Development and diversification of retinal amacrine interneurons at single cell resolution
-
11 Cherry, T.J., Trimarchi, J.M., Stadler, M.B., Cepko, C.L., Development and diversification of retinal amacrine interneurons at single cell resolution. Proc Natl Acad Sci 106 (2009), 9495–9500.
-
(2009)
Proc Natl Acad Sci
, vol.106
, pp. 9495-9500
-
-
Cherry, T.J.1
Trimarchi, J.M.2
Stadler, M.B.3
Cepko, C.L.4
-
12
-
-
84900346600
-
Reconstruction of the mouse otocyst and early neuroblast lineage at single-cell resolution
-
12 Durruthy-Durruthy, R., Gottlieb, A., Hartman, B.H., Waldhaus, J., Laske, R.D., Altman, R., Heller, S., Reconstruction of the mouse otocyst and early neuroblast lineage at single-cell resolution. Cell 157 (2014), 964–978.
-
(2014)
Cell
, vol.157
, pp. 964-978
-
-
Durruthy-Durruthy, R.1
Gottlieb, A.2
Hartman, B.H.3
Waldhaus, J.4
Laske, R.D.5
Altman, R.6
Heller, S.7
-
13
-
-
53049109205
-
Single-cell gene profiling defines differential progenitor subclasses in mammalian neurogenesis
-
13 Kawaguchi, A., Ikawa, T., Kasukawa, T., Ueda, H.R., Kurimoto, K., Saitou, M., Matsuzaki, F., Single-cell gene profiling defines differential progenitor subclasses in mammalian neurogenesis. Development 135 (2008), 3113–3124.
-
(2008)
Development
, vol.135
, pp. 3113-3124
-
-
Kawaguchi, A.1
Ikawa, T.2
Kasukawa, T.3
Ueda, H.R.4
Kurimoto, K.5
Saitou, M.6
Matsuzaki, F.7
-
14
-
-
84870820698
-
Single-cell mRNA profiling identifies progenitor subclasses in neurospheres
-
14 Narayanan, G., Poonepalli, A., Chen, J., Sankaran, S., Hariharan, S., Yu, Y.H., Robson, P., Yang, H., Ahmed, S., Single-cell mRNA profiling identifies progenitor subclasses in neurospheres. Stem Cells Dev 21 (2012), 3351–3362.
-
(2012)
Stem Cells Dev
, vol.21
, pp. 3351-3362
-
-
Narayanan, G.1
Poonepalli, A.2
Chen, J.3
Sankaran, S.4
Hariharan, S.5
Yu, Y.H.6
Robson, P.7
Yang, H.8
Ahmed, S.9
-
15
-
-
84928706022
-
Single-cell analysis reveals transcriptional heterogeneity of neural progenitors in human cortex
-
15 Johnson, M.B., Wang, P.P., Atabay, K.D., Murphy, E.A., Doan, R.N., Hecht, J.L., Walsh, C.A., Single-cell analysis reveals transcriptional heterogeneity of neural progenitors in human cortex. Nat Neurosci 18 (2015), 637–646.
-
(2015)
Nat Neurosci
, vol.18
, pp. 637-646
-
-
Johnson, M.B.1
Wang, P.P.2
Atabay, K.D.3
Murphy, E.A.4
Doan, R.N.5
Hecht, J.L.6
Walsh, C.A.7
-
16
-
-
84897080937
-
Serotonergic neuron regulation informed by in vivo single-cell transcriptomics
-
16 Spaethling, J.M., Piel, D., Dueck, H., Buckley, P.T., Morris, J.F., Fisher, S.A., Lee, J., Sul, J.-Y., Kim, J., Bartfai, T., et al. Serotonergic neuron regulation informed by in vivo single-cell transcriptomics. Faseb J 28 (2014), 771–780.
-
(2014)
Faseb J
, vol.28
, pp. 771-780
-
-
Spaethling, J.M.1
Piel, D.2
Dueck, H.3
Buckley, P.T.4
Morris, J.F.5
Fisher, S.A.6
Lee, J.7
Sul, J.-Y.8
Kim, J.9
Bartfai, T.10
-
17
-
-
84921466417
-
Unbiased classification of sensory neuron types by large-scale single-cell RNA sequencing
-
This study exemplifies the analysis approach central to neuron classification by scRNA-seq, with iterative PCA-based partitioning followed by differential expression testing to identify cell types. They recapitulated known developmental, morphological, and physiological sensory neuron classes, and discovered a novel subclassification of C-fiber nociceptors.
-
17•• Usoskin, D., Furlan, A., Islam, S., Abdo, H., Lönnerberg, P., Lou, D., Hjerling-Leffler, J., Haeggström, J., Kharchenko, O., Kharchenko, P.V., et al. Unbiased classification of sensory neuron types by large-scale single-cell RNA sequencing. Nat Neurosci 18 (2015), 145–153 This study exemplifies the analysis approach central to neuron classification by scRNA-seq, with iterative PCA-based partitioning followed by differential expression testing to identify cell types. They recapitulated known developmental, morphological, and physiological sensory neuron classes, and discovered a novel subclassification of C-fiber nociceptors.
-
(2015)
Nat Neurosci
, vol.18
, pp. 145-153
-
-
Usoskin, D.1
Furlan, A.2
Islam, S.3
Abdo, H.4
Lönnerberg, P.5
Lou, D.6
Hjerling-Leffler, J.7
Haeggström, J.8
Kharchenko, O.9
Kharchenko, P.V.10
-
18
-
-
84953362048
-
Somatosensory neuron types identified by high-coverage single-cell RNA-sequencing and functional heterogeneity
-
18 Li, C.-L., Li, K.-C., Wu, D., Chen, Y., Luo, H., Zhao, J.-R., Wang, S.-S., Sun, M.-M., Lu, Y.-J., Zhong, Y.-Q., et al. Somatosensory neuron types identified by high-coverage single-cell RNA-sequencing and functional heterogeneity. Cell Res 26 (2015), 83–102.
-
(2015)
Cell Res
, vol.26
, pp. 83-102
-
-
Li, C.-L.1
Li, K.-C.2
Wu, D.3
Chen, Y.4
Luo, H.5
Zhao, J.-R.6
Wang, S.-S.7
Sun, M.-M.8
Lu, Y.-J.9
Zhong, Y.-Q.10
-
19
-
-
84944341559
-
Single-cell RNA-Seq resolves cellular complexity in sensory organs from the neonatal inner ear
-
19 Burns, J.C., Kelly, M.C., Hoa, M., Morell, R.J., Kelley, M.W., Single-cell RNA-Seq resolves cellular complexity in sensory organs from the neonatal inner ear. Nat Commun, 6, 2015, 8557.
-
(2015)
Nat Commun
, vol.6
, pp. 8557
-
-
Burns, J.C.1
Kelly, M.C.2
Hoa, M.3
Morell, R.J.4
Kelley, M.W.5
-
20
-
-
84902668801
-
Single-cell RNA-seq highlights intratumoral heterogeneity in primary glioblastoma
-
20 Patel, A.P., Tirosh, I., Trombetta, J.J., Shalek, A.K., Gillespie, S.M., Wakimoto, H., Cahill, D.P., Nahed, B.V., Curry, W.T., Martuza, R.L., et al. Single-cell RNA-seq highlights intratumoral heterogeneity in primary glioblastoma. Science 344 (2014), 1396–1401.
-
(2014)
Science
, vol.344
, pp. 1396-1401
-
-
Patel, A.P.1
Tirosh, I.2
Trombetta, J.J.3
Shalek, A.K.4
Gillespie, S.M.5
Wakimoto, H.6
Cahill, D.P.7
Nahed, B.V.8
Curry, W.T.9
Martuza, R.L.10
-
21
-
-
84930227326
-
Single-cell transcriptome analyses reveal signals to activate dormant neural stem cells
-
21 Luo, Y., Coskun, V., Liang, A., Yu, J., Cheng, L., Ge, W., Shi, Z., Zhang, K., Li, C., Cui, Y., et al. Single-cell transcriptome analyses reveal signals to activate dormant neural stem cells. Cell 161 (2015), 1175–1186.
-
(2015)
Cell
, vol.161
, pp. 1175-1186
-
-
Luo, Y.1
Coskun, V.2
Liang, A.3
Yu, J.4
Cheng, L.5
Ge, W.6
Shi, Z.7
Zhang, K.8
Li, C.9
Cui, Y.10
-
22
-
-
84941010341
-
Single-cell RNA-Seq with waterfall reveals molecular cascades underlying adult neurogenesis
-
22 Shin, J., Berg, D.A., Zhu, Y., Shin, J.Y., Song, J., Bonaguidi, M.A., Enikolopov, G., Nauen, D.W., Christian, K.M., Ming, G.-L., et al. Single-cell RNA-Seq with waterfall reveals molecular cascades underlying adult neurogenesis. Cell Stem Cell 17 (2015), 360–372.
-
(2015)
Cell Stem Cell
, vol.17
, pp. 360-372
-
-
Shin, J.1
Berg, D.A.2
Zhu, Y.3
Shin, J.Y.4
Song, J.5
Bonaguidi, M.A.6
Enikolopov, G.7
Nauen, D.W.8
Christian, K.M.9
Ming, G.-L.10
-
23
-
-
85021389457
-
Integrative single-cell transcriptomics reveals molecular networks defining neuronal maturation during postnatal neurogenesis
-
23 Gao, Y., Wang, F., Eisinger, B.E., Kelnhofer, L.E., Jobe, E.M., Zhao, X., Integrative single-cell transcriptomics reveals molecular networks defining neuronal maturation during postnatal neurogenesis. Cereb Cortex, 2016, 10.1093/cercor/bhw040.
-
(2016)
Cereb Cortex
-
-
Gao, Y.1
Wang, F.2
Eisinger, B.E.3
Kelnhofer, L.E.4
Jobe, E.M.5
Zhao, X.6
-
24
-
-
84978879999
-
Cellular taxonomy of the mouse striatum as revealed by single-cell RNA-Seq
-
24 Gökce, Ö., Stanley, G.M., Treutlein, B., Neff, N.F., Camp, J.G., Malenka, R.C., Rothwell, P.E., Fuccillo, M.V., Südhof, T.C., Quake, S.R., Cellular taxonomy of the mouse striatum as revealed by single-cell RNA-Seq. Cell Rep 16 (2016), 1126–1137.
-
(2016)
Cell Rep
, vol.16
, pp. 1126-1137
-
-
Gökce, Ö.1
Stanley, G.M.2
Treutlein, B.3
Neff, N.F.4
Camp, J.G.5
Malenka, R.C.6
Rothwell, P.E.7
Fuccillo, M.V.8
Südhof, T.C.9
Quake, S.R.10
-
25
-
-
84975165639
-
Oligodendrocyte heterogeneity in the mouse juvenile and adult central nervous system
-
25 Marques, S., Zeisel, A., Codeluppi, S., van Bruggen, D., Mendanha Falcão, A., Xiao, L., Li, H., Häring, M., Hochgerner, H., Romanov, R.A., et al. Oligodendrocyte heterogeneity in the mouse juvenile and adult central nervous system. Science 352 (2016), 1326–1329.
-
(2016)
Science
, vol.352
, pp. 1326-1329
-
-
Marques, S.1
Zeisel, A.2
Codeluppi, S.3
van Bruggen, D.4
Mendanha Falcão, A.5
Xiao, L.6
Li, H.7
Häring, M.8
Hochgerner, H.9
Romanov, R.A.10
-
26
-
-
84983741021
-
Comprehensive classification of retinal bipolar neurons by single-cell transcriptomics
-
1308–1323.e30
-
26 Shekhar, K., Lapan, S.W., Whitney, I.E., Tran, N.M., Macosko, E.Z., Kowalczyk, M., Adiconis, X., Levin, J.Z., Nemesh, J., Goldman, M., et al. Comprehensive classification of retinal bipolar neurons by single-cell transcriptomics. Cell, 166, 2016 1308–1323.e30.
-
(2016)
Cell
, vol.166
-
-
Shekhar, K.1
Lapan, S.W.2
Whitney, I.E.3
Tran, N.M.4
Macosko, E.Z.5
Kowalczyk, M.6
Adiconis, X.7
Levin, J.Z.8
Nemesh, J.9
Goldman, M.10
-
27
-
-
84984677948
-
Disentangling neural cell diversity using single-cell transcriptomics
-
27 Poulin, J.-F., Tasic, B., Hjerling-Leffler, J., Trimarchi, J.M., Awatramani, R., Disentangling neural cell diversity using single-cell transcriptomics. Nat Neurosci 19 (2016), 1131–1141.
-
(2016)
Nat Neurosci
, vol.19
, pp. 1131-1141
-
-
Poulin, J.-F.1
Tasic, B.2
Hjerling-Leffler, J.3
Trimarchi, J.M.4
Awatramani, R.5
-
28
-
-
84949035291
-
Single-cell transcriptomics reveals receptor transformations during olfactory neurogenesis
-
28 Hanchate, N.K., Kondoh, K., Lu, Z., Kuang, D., Ye, X., Qiu, X., Pachter, L., Trapnell, C., Buck, L.B., Single-cell transcriptomics reveals receptor transformations during olfactory neurogenesis. Science 350 (2015), 1251–1255.
-
(2015)
Science
, vol.350
, pp. 1251-1255
-
-
Hanchate, N.K.1
Kondoh, K.2
Lu, Z.3
Kuang, D.4
Ye, X.5
Qiu, X.6
Pachter, L.7
Trapnell, C.8
Buck, L.B.9
-
29
-
-
84950239737
-
Hierarchical deconstruction of mouse olfactory sensory neurons: from whole mucosa to single-cell RNA-seq
-
29 Saraiva, L.R., Ibarra-Soria, X., Khan, M., Omura, M., Scialdone, A., Mombaerts, P., Marioni, J.C., Logan, D.W., Hierarchical deconstruction of mouse olfactory sensory neurons: from whole mucosa to single-cell RNA-seq. Sci Rep, 5, 2015, 18178.
-
(2015)
Sci Rep
, vol.5
, pp. 18178
-
-
Saraiva, L.R.1
Ibarra-Soria, X.2
Khan, M.3
Omura, M.4
Scialdone, A.5
Mombaerts, P.6
Marioni, J.C.7
Logan, D.W.8
-
30
-
-
84956600040
-
Olfactory sensory neurons transiently express multiple olfactory receptors during development
-
30 Tan, L., Li, Q., Xie, X.S., Olfactory sensory neurons transiently express multiple olfactory receptors during development. Mol Syst Biol, 11, 2015, 844.
-
(2015)
Mol Syst Biol
, vol.11
, pp. 844
-
-
Tan, L.1
Li, Q.2
Xie, X.S.3
-
31
-
-
84964898686
-
Transcriptome analysis of murine olfactory sensory neurons during development using single Cell RNA-Seq
-
31 Scholz, P., Kalbe, B., Jansen, F., Altmueller, J., Becker, C., Mohrhardt, J., Schreiner, B., Gisselmann, G., Hatt, H., Osterloh, S., Transcriptome analysis of murine olfactory sensory neurons during development using single Cell RNA-Seq. Chem Senses 41 (2016), 313–323.
-
(2016)
Chem Senses
, vol.41
, pp. 313-323
-
-
Scholz, P.1
Kalbe, B.2
Jansen, F.3
Altmueller, J.4
Becker, C.5
Mohrhardt, J.6
Schreiner, B.7
Gisselmann, G.8
Hatt, H.9
Osterloh, S.10
-
32
-
-
84924565530
-
Brain structure. Cell types in the mouse cortex and hippocampus revealed by single-cell RNA-seq
-
The first study to apply scRNA-seq to neuron classification in the cerebral cortex highlights the advantages and drawbacks of unbiased sampling of a complex tissue, and uses targeted subsampling to identify a novel interneuron subtype.
-
32•• Zeisel, A., Muñoz-Manchado, A.B., Codeluppi, S., Lönnerberg, P., La Manno, G., Juréus, A., Marques, S., Munguba, H., He, L., Betsholtz, C., et al. Brain structure. Cell types in the mouse cortex and hippocampus revealed by single-cell RNA-seq. Science 347 (2015), 1138–1142 The first study to apply scRNA-seq to neuron classification in the cerebral cortex highlights the advantages and drawbacks of unbiased sampling of a complex tissue, and uses targeted subsampling to identify a novel interneuron subtype.
-
(2015)
Science
, vol.347
, pp. 1138-1142
-
-
Zeisel, A.1
Muñoz-Manchado, A.B.2
Codeluppi, S.3
Lönnerberg, P.4
La Manno, G.5
Juréus, A.6
Marques, S.7
Munguba, H.8
He, L.9
Betsholtz, C.10
-
33
-
-
84961327715
-
Adult mouse cortical cell taxonomy revealed by single cell transcriptomics
-
This group's unique classification strategy allows for ‘intermediate’ cell types that exhibit mixed transcriptional signatures between two cortical neuron subtypes. The need for flexible categorization may reflect the complexity of the cerebral cortex and the degree of interplay between ‘state’ (e.g., highly plastic synaptic connectivity and activity) and ‘trait’ (cell type).
-
33•• Tasic, B., Menon, V., Nguyen, T.N., Kim, T.-K., Jarsky, T., Yao, Z., Levi, B., Gray, L.T., Sorensen, S.A., Dolbeare, T., et al. Adult mouse cortical cell taxonomy revealed by single cell transcriptomics. Nat Neurosci 19 (2016), 335–346 This group's unique classification strategy allows for ‘intermediate’ cell types that exhibit mixed transcriptional signatures between two cortical neuron subtypes. The need for flexible categorization may reflect the complexity of the cerebral cortex and the degree of interplay between ‘state’ (e.g., highly plastic synaptic connectivity and activity) and ‘trait’ (cell type).
-
(2016)
Nat Neurosci
, vol.19
, pp. 335-346
-
-
Tasic, B.1
Menon, V.2
Nguyen, T.N.3
Kim, T.-K.4
Jarsky, T.5
Yao, Z.6
Levi, B.7
Gray, L.T.8
Sorensen, S.A.9
Dolbeare, T.10
-
34
-
-
84976276942
-
Neuronal subtypes and diversity revealed by single-nucleus RNA sequencing of the human brain
-
This study highlights the potential of single-nucleus RNA-sequencing for analyzing difficult-to-dissociate tissues such as postmortem adult human cortex. Analysis of several Brodmann areas also provides an exciting first look at how transcriptomic cell type composition varies across functional domains of the cortex.
-
34•• Lake, B.B., Ai, R., Kaeser, G.E., Salathia, N.S., Yung, Y.C., Liu, R., Wildberg, A., Gao, D., Fung, H.-L., Chen, S., et al. Neuronal subtypes and diversity revealed by single-nucleus RNA sequencing of the human brain. Science 352 (2016), 1586–1590 This study highlights the potential of single-nucleus RNA-sequencing for analyzing difficult-to-dissociate tissues such as postmortem adult human cortex. Analysis of several Brodmann areas also provides an exciting first look at how transcriptomic cell type composition varies across functional domains of the cortex.
-
(2016)
Science
, vol.352
, pp. 1586-1590
-
-
Lake, B.B.1
Ai, R.2
Kaeser, G.E.3
Salathia, N.S.4
Yung, Y.C.5
Liu, R.6
Wildberg, A.7
Gao, D.8
Fung, H.-L.9
Chen, S.10
-
35
-
-
84931274624
-
A survey of human brain transcriptome diversity at the single cell level
-
35 Darmanis, S., Sloan, S.A., Zhang, Y., Enge, M., Caneda, C., Shuer, L.M., Hayden Gephart, M.G., Barres, B.A., Quake, S.R., A survey of human brain transcriptome diversity at the single cell level. Proc Natl Acad Sci 112 (2015), 7285–7290.
-
(2015)
Proc Natl Acad Sci
, vol.112
, pp. 7285-7290
-
-
Darmanis, S.1
Sloan, S.A.2
Zhang, Y.3
Enge, M.4
Caneda, C.5
Shuer, L.M.6
Hayden Gephart, M.G.7
Barres, B.A.8
Quake, S.R.9
-
36
-
-
22144497124
-
Retrospective birth dating of cells in humans
-
36 Spalding, K.L., Bhardwaj, R.D., Buchholz, B.A., Druid, H., Frisén, J., Retrospective birth dating of cells in humans. Cell 122 (2005), 133–143.
-
(2005)
Cell
, vol.122
, pp. 133-143
-
-
Spalding, K.L.1
Bhardwaj, R.D.2
Buchholz, B.A.3
Druid, H.4
Frisén, J.5
-
37
-
-
84868032982
-
Single-neuron sequencing analysis of L1 retrotransposition and somatic mutation in the human brain
-
37 Evrony, G.D., Cai, X., Lee, E., Hills, L.B., Elhosary, P.C., Lehmann, H.S., Parker, J.J., Atabay, K.D., Gilmore, E.C., Poduri, A., et al. Single-neuron sequencing analysis of L1 retrotransposition and somatic mutation in the human brain. Cell 151 (2012), 483–496.
-
(2012)
Cell
, vol.151
, pp. 483-496
-
-
Evrony, G.D.1
Cai, X.2
Lee, E.3
Hills, L.B.4
Elhosary, P.C.5
Lehmann, H.S.6
Parker, J.J.7
Atabay, K.D.8
Gilmore, E.C.9
Poduri, A.10
-
38
-
-
84959361379
-
Using single nuclei for RNA-seq to capture the transcriptome of postmortem neurons
-
38 Krishnaswami, S.R., Grindberg, R.V., Novotny, M., Venepally, P., Lacar, B., Bhutani, K., Linker, S.B., Pham, S., Erwin, J.A., Miller, J.A., et al. Using single nuclei for RNA-seq to capture the transcriptome of postmortem neurons. Nat Protoc 11 (2016), 499–524.
-
(2016)
Nat Protoc
, vol.11
, pp. 499-524
-
-
Krishnaswami, S.R.1
Grindberg, R.V.2
Novotny, M.3
Venepally, P.4
Lacar, B.5
Bhutani, K.6
Linker, S.B.7
Pham, S.8
Erwin, J.A.9
Miller, J.A.10
-
39
-
-
84973299445
-
Nuclear RNA-seq of single neurons reveals molecular signatures of activation
-
39 Lacar, B., Linker, S.B., Jaeger, B.N., Krishnaswami, S., Barron, J., Kelder, M., Parylak, S., Paquola, A., Venepally, P., Novotny, M., et al. Nuclear RNA-seq of single neurons reveals molecular signatures of activation. Nat Commun, 7, 2016, 11022.
-
(2016)
Nat Commun
, vol.7
, pp. 11022
-
-
Lacar, B.1
Linker, S.B.2
Jaeger, B.N.3
Krishnaswami, S.4
Barron, J.5
Kelder, M.6
Parylak, S.7
Paquola, A.8
Venepally, P.9
Novotny, M.10
-
40
-
-
84980325679
-
Div-Seq: Single-nucleus RNA-Seq reveals dynamics of rare adult newborn neurons
-
40 Habib, N., Li, Y., Heidenreich, M., Swiech, L., Avraham-Davidi, I., Trombetta, J.J., Hession, C., Zhang, F., Regev, A., Div-Seq: Single-nucleus RNA-Seq reveals dynamics of rare adult newborn neurons. Science 353 (2016), 925–928.
-
(2016)
Science
, vol.353
, pp. 925-928
-
-
Habib, N.1
Li, Y.2
Heidenreich, M.3
Swiech, L.4
Avraham-Davidi, I.5
Trombetta, J.J.6
Hession, C.7
Zhang, F.8
Regev, A.9
-
41
-
-
84957536197
-
Integration of electrophysiological recordings with single-cell RNA-seq data identifies neuronal subtypes
-
This study exemplifies the opportunities and challenges in merging neuronal taxonomies derived from different data modalities, and provides strong evidence that in the cerebral cortex, neuronal types defined by scRNA-seq may not map uniquely onto the types derived from electrophysiology and/or morphology.
-
41• Fuzik, J., Zeisel, A., Máté, Z., Calvigioni, D., Yanagawa, Y., Szabó, G., Linnarsson, S., Harkany, T., Integration of electrophysiological recordings with single-cell RNA-seq data identifies neuronal subtypes. Nat Biotechnol 34 (2016), 175–183 This study exemplifies the opportunities and challenges in merging neuronal taxonomies derived from different data modalities, and provides strong evidence that in the cerebral cortex, neuronal types defined by scRNA-seq may not map uniquely onto the types derived from electrophysiology and/or morphology.
-
(2016)
Nat Biotechnol
, vol.34
, pp. 175-183
-
-
Fuzik, J.1
Zeisel, A.2
Máté, Z.3
Calvigioni, D.4
Yanagawa, Y.5
Szabó, G.6
Linnarsson, S.7
Harkany, T.8
-
42
-
-
84957569471
-
Electrophysiological, transcriptomic and morphologic profiling of single neurons using Patch-seq
-
42 Cadwell, C.R., Palasantza, A., Jiang, X., Berens, P., Deng, Q., Yilmaz, M., Reimer, J., Shen, S., Bethge, M., Tolias, K.F., et al. Electrophysiological, transcriptomic and morphologic profiling of single neurons using Patch-seq. Nat Biotechnol 34 (2016), 199–203.
-
(2016)
Nat Biotechnol
, vol.34
, pp. 199-203
-
-
Cadwell, C.R.1
Palasantza, A.2
Jiang, X.3
Berens, P.4
Deng, Q.5
Yilmaz, M.6
Reimer, J.7
Shen, S.8
Bethge, M.9
Tolias, K.F.10
-
43
-
-
84984706622
-
Single-cell RNAseq reveals cell adhesion molecule profiles in electrophysiologically defined neurons
-
43 Földy, C., Darmanis, S., Aoto, J., Malenka, R.C., Quake, S.R., Südhof, T.C., Single-cell RNAseq reveals cell adhesion molecule profiles in electrophysiologically defined neurons. Proc Natl Acad Sci 113 (2016), E5222–E5231.
-
(2016)
Proc Natl Acad Sci
, vol.113
, pp. E5222-E5231
-
-
Földy, C.1
Darmanis, S.2
Aoto, J.3
Malenka, R.C.4
Quake, S.R.5
Südhof, T.C.6
-
44
-
-
84943612722
-
Reconstruction and simulation of neocortical microcircuitry
-
44 Markram, H., Muller, E., Ramaswamy, S., Reimann, M.W., Abdellah, M., Sanchez, C.A., Ailamaki, A., Alonso-Nanclares, L., Antille, N., Arsever, S., et al. Reconstruction and simulation of neocortical microcircuitry. Cell 163 (2015), 456–492.
-
(2015)
Cell
, vol.163
, pp. 456-492
-
-
Markram, H.1
Muller, E.2
Ramaswamy, S.3
Reimann, M.W.4
Abdellah, M.5
Sanchez, C.A.6
Ailamaki, A.7
Alonso-Nanclares, L.8
Antille, N.9
Arsever, S.10
-
45
-
-
84929684998
-
Droplet barcoding for single-cell transcriptomics applied to embryonic stem cells
-
45 Klein, A.M., Mazutis, L., Akartuna, I., Tallapragada, N., Veres, A., Li, V., Peshkin, L., Weitz, D.A., Kirschner, M.W., Droplet barcoding for single-cell transcriptomics applied to embryonic stem cells. Cell 161 (2015), 1187–1201.
-
(2015)
Cell
, vol.161
, pp. 1187-1201
-
-
Klein, A.M.1
Mazutis, L.2
Akartuna, I.3
Tallapragada, N.4
Veres, A.5
Li, V.6
Peshkin, L.7
Weitz, D.A.8
Kirschner, M.W.9
-
46
-
-
84929684999
-
Highly parallel genome-wide expression profiling of individual cells using nanoliter droplets
-
Droplet-based scRNA-seq developed by this group and by Klein et al. [45] expands throughput by orders of magnitude, enabling higher sample sizes needed for heterogeneous tissues like cortex. Here, a novel analysis in retina also provides a template for unbiased sampling of tissues that contain both highly abundant and very rare cell types of interest.
-
46• Macosko, E.Z., Basu, A., Satija, R., Nemesh, J., Shekhar, K., Goldman, M., Tirosh, I., Bialas, A.R., Kamitaki, N., Martersteck, E.M., et al. Highly parallel genome-wide expression profiling of individual cells using nanoliter droplets. Cell 161 (2015), 1202–1214 Droplet-based scRNA-seq developed by this group and by Klein et al. [45] expands throughput by orders of magnitude, enabling higher sample sizes needed for heterogeneous tissues like cortex. Here, a novel analysis in retina also provides a template for unbiased sampling of tissues that contain both highly abundant and very rare cell types of interest.
-
(2015)
Cell
, vol.161
, pp. 1202-1214
-
-
Macosko, E.Z.1
Basu, A.2
Satija, R.3
Nemesh, J.4
Shekhar, K.5
Goldman, M.6
Tirosh, I.7
Bialas, A.R.8
Kamitaki, N.9
Martersteck, E.M.10
-
47
-
-
84867733984
-
The neuronal organization of the retina
-
47 Masland, R.H., The neuronal organization of the retina. Neuron 76 (2012), 266–280.
-
(2012)
Neuron
, vol.76
, pp. 266-280
-
-
Masland, R.H.1
-
48
-
-
84960110736
-
Sequential transcriptional waves direct the differentiation of newborn neurons in the mouse neocortex
-
48 Telley, L., Govindan, S., Prados, J., Stevant, I., Nef, S., Dermitzakis, E., Dayer, A., Jabaudon, D., Sequential transcriptional waves direct the differentiation of newborn neurons in the mouse neocortex. Science 351 (2016), 1443–1446.
-
(2016)
Science
, vol.351
, pp. 1443-1446
-
-
Telley, L.1
Govindan, S.2
Prados, J.3
Stevant, I.4
Nef, S.5
Dermitzakis, E.6
Dayer, A.7
Jabaudon, D.8
-
49
-
-
84948457494
-
Molecular identity of human outer radial glia during cortical development
-
•] used distinct experimental designs to arrive at similar results searching for genes enriched in known subtypes of human fetal cortex progenitors. These authors performed extensive validations, and find important developmental differences that highlight the need for larger studies across more ages.
-
•] used distinct experimental designs to arrive at similar results searching for genes enriched in known subtypes of human fetal cortex progenitors. These authors performed extensive validations, and find important developmental differences that highlight the need for larger studies across more ages.
-
(2015)
Cell
, vol.163
, pp. 55-67
-
-
Pollen, A.A.1
Nowakowski, T.J.2
Chen, J.3
Retallack, H.4
Sandoval-Espinosa, C.5
Nicholas, C.R.6
Shuga, J.7
Liu, S.J.8
Oldham, M.C.9
Diaz, A.10
-
50
-
-
84955681537
-
Fixed single-cell transcriptomic characterization of human radial glial diversity
-
In addition to identifying a novel transcriptional signature of outer radial glial progenitors in human fetal cortex, this work presents a new method for isolating specific cell types of interest from non-genetic models, which will be critical for future scRNA-seq work in primates and other species.
-
50• Thomsen, E.R., Mich, J.K., Yao, Z., Hodge, R.D., Doyle, A.M., Jang, S., Shehata, S.I., Nelson, A.M., Shapovalova, N.V., Levi, B.P., et al. Fixed single-cell transcriptomic characterization of human radial glial diversity. Nat Methods 13 (2016), 87–93 In addition to identifying a novel transcriptional signature of outer radial glial progenitors in human fetal cortex, this work presents a new method for isolating specific cell types of interest from non-genetic models, which will be critical for future scRNA-seq work in primates and other species.
-
(2016)
Nat Methods
, vol.13
, pp. 87-93
-
-
Thomsen, E.R.1
Mich, J.K.2
Yao, Z.3
Hodge, R.D.4
Doyle, A.M.5
Jang, S.6
Shehata, S.I.7
Nelson, A.M.8
Shapovalova, N.V.9
Levi, B.P.10
-
51
-
-
84952674076
-
Human cerebral organoids recapitulate gene expression programs of fetal neocortex development
-
51 Camp, J.G., Badsha, F., Florio, M., Kanton, S., Gerber, T., Wilsch-Bräuninger, M., Lewitus, E., Sykes, A., Hevers, W., Lancaster, M., et al. Human cerebral organoids recapitulate gene expression programs of fetal neocortex development. Proc Natl Acad Sci 112 (2015), 15672–15677.
-
(2015)
Proc Natl Acad Sci
, vol.112
, pp. 15672-15677
-
-
Camp, J.G.1
Badsha, F.2
Florio, M.3
Kanton, S.4
Gerber, T.5
Wilsch-Bräuninger, M.6
Lewitus, E.7
Sykes, A.8
Hevers, W.9
Lancaster, M.10
-
52
-
-
77952642527
-
Heterogeneity in ventricular zone neural precursors contributes to neuronal fate diversity in the postnatal neocortex
-
52 Stancik, E.K., Navarro-Quiroga, I., Sellke, R., Haydar, T.F., Heterogeneity in ventricular zone neural precursors contributes to neuronal fate diversity in the postnatal neocortex. J Neurosci 30 (2010), 7028–7036.
-
(2010)
J Neurosci
, vol.30
, pp. 7028-7036
-
-
Stancik, E.K.1
Navarro-Quiroga, I.2
Sellke, R.3
Haydar, T.F.4
-
53
-
-
77950076985
-
Neurogenic radial glia in the outer subventricular zone of human neocortex
-
53 Hansen, D.V., Lui, J.H., Parker, P.R.L., Kriegstein, A.R., Neurogenic radial glia in the outer subventricular zone of human neocortex. Nature 464 (2010), 554–561.
-
(2010)
Nature
, vol.464
, pp. 554-561
-
-
Hansen, D.V.1
Lui, J.H.2
Parker, P.R.L.3
Kriegstein, A.R.4
-
54
-
-
77952867780
-
OSVZ progenitors of human and ferret neocortex are epithelial-like and expand by integrin signaling
-
54 Fietz, S.A., Kelava, I., Vogt, J., Wilsch-Bräuninger, M., Stenzel, D., Fish, J.L., Corbeil, D., Riehn, A., Distler, W., Nitsch, R., et al. OSVZ progenitors of human and ferret neocortex are epithelial-like and expand by integrin signaling. Nat Neurosci 13 (2010), 690–699.
-
(2010)
Nat Neurosci
, vol.13
, pp. 690-699
-
-
Fietz, S.A.1
Kelava, I.2
Vogt, J.3
Wilsch-Bräuninger, M.4
Stenzel, D.5
Fish, J.L.6
Corbeil, D.7
Riehn, A.8
Distler, W.9
Nitsch, R.10
-
55
-
-
84885728828
-
Precursor diversity and complexity of lineage relationships in the outer subventricular zone of the primate
-
55 Betizeau, M., Cortay, V., Patti, D., Pfister, S., Gautier, E., Bellemin-Ménard, A., Afanassieff, M., Huissoud, C., Douglas, R.J., Kennedy, H., et al. Precursor diversity and complexity of lineage relationships in the outer subventricular zone of the primate. Neuron 80 (2013), 442–457.
-
(2013)
Neuron
, vol.80
, pp. 442-457
-
-
Betizeau, M.1
Cortay, V.2
Patti, D.3
Pfister, S.4
Gautier, E.5
Bellemin-Ménard, A.6
Afanassieff, M.7
Huissoud, C.8
Douglas, R.J.9
Kennedy, H.10
-
56
-
-
84959475041
-
Assessing similarity to primary tissue and cortical layer identity in induced pluripotent stem cell-derived cortical neurons through single-cell transcriptomics
-
56 Handel, A.E., Chintawar, S., Lalic, T., Whiteley, E., Vowles, J., Giustacchini, A., Argoud, K., Sopp, P., Nakanishi, M., Bowden, R., et al. Assessing similarity to primary tissue and cortical layer identity in induced pluripotent stem cell-derived cortical neurons through single-cell transcriptomics. Hum Mol Genet 25 (2016), 989–1000.
-
(2016)
Hum Mol Genet
, vol.25
, pp. 989-1000
-
-
Handel, A.E.1
Chintawar, S.2
Lalic, T.3
Whiteley, E.4
Vowles, J.5
Giustacchini, A.6
Argoud, K.7
Sopp, P.8
Nakanishi, M.9
Bowden, R.10
-
57
-
-
84975473183
-
Dissecting direct reprogramming from fibroblast to neuron using single-cell RNA-seq
-
57 Treutlein, B., Lee, Q.Y., Camp, J.G., Mall, M., Koh, W., Shariati, S.A.M., Sim, S., Neff, N.F., Skotheim, J.M., Wernig, M., et al. Dissecting direct reprogramming from fibroblast to neuron using single-cell RNA-seq. Nature 534 (2016), 391–395.
-
(2016)
Nature
, vol.534
, pp. 391-395
-
-
Treutlein, B.1
Lee, Q.Y.2
Camp, J.G.3
Mall, M.4
Koh, W.5
Shariati, S.A.M.6
Sim, S.7
Neff, N.F.8
Skotheim, J.M.9
Wernig, M.10
-
58
-
-
84899902525
-
Transcriptional profiling of cells sorted by RNA abundance
-
58 Klemm, S., Semrau, S., Wiebrands, K., Mooijman, D., Faddah, D.A., Jaenisch, R., van Oudenaarden, A., Transcriptional profiling of cells sorted by RNA abundance. Nat Methods 11 (2014), 549–551.
-
(2014)
Nat Methods
, vol.11
, pp. 549-551
-
-
Klemm, S.1
Semrau, S.2
Wiebrands, K.3
Mooijman, D.4
Faddah, D.A.5
Jaenisch, R.6
van Oudenaarden, A.7
-
59
-
-
84969286769
-
RNA-Seq following PCR-based sorting reveals rare cell transcriptional signatures
-
59 Pellegrino, M., Sciambi, A., Yates, J.L., Mast, J.D., Silver, C., Eastburn, D.J., RNA-Seq following PCR-based sorting reveals rare cell transcriptional signatures. BMC Genomics, 17, 2016, 361.
-
(2016)
BMC Genomics
, vol.17
, pp. 361
-
-
Pellegrino, M.1
Sciambi, A.2
Yates, J.L.3
Mast, J.D.4
Silver, C.5
Eastburn, D.J.6
-
60
-
-
84897090228
-
Highly multiplexed subcellular RNA sequencing in situ
-
60 Lee, J.H., Daugharthy, E.R., Scheiman, J., Kalhor, R., Yang, J.L., Ferrante, T.C., Terry, R., Jeanty, S.S.F., Li, C., Amamoto, R., et al. Highly multiplexed subcellular RNA sequencing in situ. Science 343 (2014), 1360–1363.
-
(2014)
Science
, vol.343
, pp. 1360-1363
-
-
Lee, J.H.1
Daugharthy, E.R.2
Scheiman, J.3
Kalhor, R.4
Yang, J.L.5
Ferrante, T.C.6
Terry, R.7
Jeanty, S.S.F.8
Li, C.9
Amamoto, R.10
-
61
-
-
84929151009
-
Spatial reconstruction of single-cell gene expression data
-
61 Satija, R., Farrell, J.A., Gennert, D., Schier, A.F., Regev, A., Spatial reconstruction of single-cell gene expression data. Nat Biotechnol 33 (2015), 495–502.
-
(2015)
Nat Biotechnol
, vol.33
, pp. 495-502
-
-
Satija, R.1
Farrell, J.A.2
Gennert, D.3
Schier, A.F.4
Regev, A.5
-
62
-
-
84929166604
-
High-throughput spatial mapping of single-cell RNA-seq data to tissue of origin
-
62 Achim, K., Pettit, J.-B., Saraiva, L.R., Gavriouchkina, D., Larsson, T., Arendt, D., Marioni, J.C., High-throughput spatial mapping of single-cell RNA-seq data to tissue of origin. Nat Biotechnol 33 (2015), 503–509.
-
(2015)
Nat Biotechnol
, vol.33
, pp. 503-509
-
-
Achim, K.1
Pettit, J.-B.2
Saraiva, L.R.3
Gavriouchkina, D.4
Larsson, T.5
Arendt, D.6
Marioni, J.C.7
-
63
-
-
84930178333
-
G&T-seq: parallel sequencing of single-cell genomes and transcriptomes
-
63 Macaulay, I.C., Haerty, W., Kumar, P., Li, Y.I., Hu, T.X., Teng, M.J., Goolam, M., Saurat, N., Coupland, P., Shirley, L.M., et al. G&T-seq: parallel sequencing of single-cell genomes and transcriptomes. Nat Methods 12 (2015), 519–522.
-
(2015)
Nat Methods
, vol.12
, pp. 519-522
-
-
Macaulay, I.C.1
Haerty, W.2
Kumar, P.3
Li, Y.I.4
Hu, T.X.5
Teng, M.J.6
Goolam, M.7
Saurat, N.8
Coupland, P.9
Shirley, L.M.10
-
64
-
-
84924423596
-
Integrated genome and transcriptome sequencing of the same cell
-
64 Dey, S.S., Kester, L., Spanjaard, B., Bienko, M., van Oudenaarden, A., Integrated genome and transcriptome sequencing of the same cell. Nat Biotechnol 33 (2015), 285–289.
-
(2015)
Nat Biotechnol
, vol.33
, pp. 285-289
-
-
Dey, S.S.1
Kester, L.2
Spanjaard, B.3
Bienko, M.4
van Oudenaarden, A.5
-
65
-
-
84903574951
-
Bayesian approach to single-cell differential expression analysis
-
65 Kharchenko, P.V., Silberstein, L., Scadden, D.T., Bayesian approach to single-cell differential expression analysis. Nat Methods 11 (2014), 740–742.
-
(2014)
Nat Methods
, vol.11
, pp. 740-742
-
-
Kharchenko, P.V.1
Silberstein, L.2
Scadden, D.T.3
-
66
-
-
84959189722
-
Characterizing transcriptional heterogeneity through pathway and gene set overdispersion analysis
-
66 Fan, J., Salathia, N., Liu, R., Kaeser, G.E., Yung, Y.C., Herman, J.L., Kaper, F., Fan, J.-B., Zhang, K., Chun, J., et al. Characterizing transcriptional heterogeneity through pathway and gene set overdispersion analysis. Nat Methods 13 (2016), 241–244.
-
(2016)
Nat Methods
, vol.13
, pp. 241-244
-
-
Fan, J.1
Salathia, N.2
Liu, R.3
Kaeser, G.E.4
Yung, Y.C.5
Herman, J.L.6
Kaper, F.7
Fan, J.-B.8
Zhang, K.9
Chun, J.10
|