-
1
-
-
84928987900
-
HTSeq-a Python framework to work with high-throughput sequencing data
-
Anders, S., P.T. Pyl, and W. Huber. 2015. HTSeq-a Python framework to work with high-throughput sequencing data. Bioinformatics. 31:166-169. http://dx.doi.org/10.1093/bioinformatics/btu638
-
(2015)
Bioinformatics
, vol.31
, pp. 166-169
-
-
Anders, S.1
Pyl, P.T.2
Huber, W.3
-
2
-
-
77953522371
-
+ dendritic cells
-
+ dendritic cells. J. Exp. Med. 207:1273-1281. http://dx.doi.org/10.1084/jem.20100348
-
(2010)
J. Exp. Med
, vol.207
, pp. 1273-1281
-
-
Bachem, A.1
Güttler, S.2
Hartung, E.3
Ebstein, F.4
Schaefer, M.5
Tannert, A.6
Salama, A.7
Movassaghi, K.8
Opitz, C.9
Mages, H.W.10
-
3
-
-
84940552348
-
Defining human dendritic cell progenitors by multiparametric flow cytometry
-
Breton, G., J. Lee, K. Liu, and M.C. Nussenzweig. 2015a. Defining human dendritic cell progenitors by multiparametric flow cytometry. Nat. Protoc. 10:1407-1422. http://dx.doi.org/10.1038/nprot.2015.092
-
(2015)
Nat. Protoc
, vol.10
, pp. 1407-1422
-
-
Breton, G.1
Lee, J.2
Liu, K.3
Nussenzweig, M.C.4
-
4
-
-
84924724513
-
Circulating precursors of human CD1c+ and CD141+ dendritic cells
-
Breton, G., J. Lee, Y.J. Zhou, J.J. Schreiber, T. Keler, S. Puhr, N. Anandasabapathy, S. Schlesinger, M. Caskey, K. Liu, and M.C. Nussenzweig. 2015b. Circulating precursors of human CD1c+ and CD141+ dendritic cells. J. Exp. Med. 212:401-413. http://dx.doi.org/10.1084/jem.20141441
-
(2015)
J. Exp. Med
, vol.212
, pp. 401-413
-
-
Breton, G.1
Lee, J.2
Zhou, Y.J.3
Schreiber, J.J.4
Keler, T.5
Puhr, S.6
Anandasabapathy, N.7
Schlesinger, S.8
Caskey, M.9
Liu, K.10
Nussenzweig, M.C.11
-
5
-
-
84879580324
-
Antigen delivery to early endosomes eliminates the superiority of human blood BDCA3+ dendritic cells at cross presentation
-
Cohn, L., B. Chatterjee, F. Esselborn, A. Smed-Sörensen, N. Nakamura, C. Chalouni, B.C. Lee, R. Vandlen, T. Keler, P. Lauer, et al. 2013. Antigen delivery to early endosomes eliminates the superiority of human blood BDCA3+ dendritic cells at cross presentation. J. Exp. Med. 210:1049-1063. http://dx.doi.org/10.1084/jem.20121251
-
(2013)
J. Exp. Med
, vol.210
, pp. 1049-1063
-
-
Cohn, L.1
Chatterjee, B.2
Esselborn, F.3
Smed-Sörensen, A.4
Nakamura, N.5
Chalouni, C.6
Lee, B.C.7
Vandlen, R.8
Keler, T.9
Lauer, P.10
-
6
-
-
15244349785
-
Plasmacytoid dendritic cells in immunity
-
Colonna, M., G. Trinchieri, and Y.J. Liu. 2004. Plasmacytoid dendritic cells in immunity. Nat. Immunol. 5:1219-1226. http://dx.doi.org/10.1038/ni1141
-
(2004)
Nat. Immunol
, vol.5
, pp. 1219-1226
-
-
Colonna, M.1
Trinchieri, G.2
Liu, Y.J.3
-
7
-
-
77953506509
-
+ dendritic cells
-
+ dendritic cells. J. Exp. Med. 207:1283-1292. http://dx.doi.org/10.1084/jem.20100223
-
(2010)
J. Exp. Med
, vol.207
, pp. 1283-1292
-
-
Crozat, K.1
Guiton, R.2
Contreras, V.3
Feuillet, V.4
Dutertre, C.A.5
Ventre, E.6
Vu Manh, T.P.7
Baranek, T.8
Storset, A.K.9
Marvel, J.10
-
8
-
-
84871809302
-
STAR: ultrafast universal RNAseq aligner
-
Dobin, A., C.A. Davis, F. Schlesinger, J. Drenkow, C. Zaleski, S. Jha, P. Batut, M. Chaisson, and T.R. Gingeras. 2013. STAR: ultrafast universal RNAseq aligner. Bioinformatics. 29:15-21. http://dx.doi.org/10.1093/bioinformatics/bts635
-
(2013)
Bioinformatics
, vol.29
, pp. 15-21
-
-
Dobin, A.1
Davis, C.A.2
Schlesinger, F.3
Drenkow, J.4
Zaleski, C.5
Jha, S.6
Batut, P.7
Chaisson, M.8
Gingeras, T.R.9
-
9
-
-
84975275160
-
Root regeneration triggers an embryolike sequence guided by hormonal interactions
-
Efroni, I., A. Mello, T. Nawy, P.L. Ip, R. Rahni, N. DelRose, A. Powers, R. Satija, and K.D. Birnbaum. 2016. Root regeneration triggers an embryolike sequence guided by hormonal interactions. Cell. 165:1721-1733. http://dx.doi.org/10.1016/j.cell.2016.04.046
-
(2016)
Cell
, vol.165
, pp. 1721-1733
-
-
Efroni, I.1
Mello, A.2
Nawy, T.3
Ip, P.L.4
Rahni, R.5
DelRose, N.6
Powers, A.7
Satija, R.8
Birnbaum, K.D.9
-
10
-
-
84931406064
-
+ conventional DC clonogenic progenitor
-
+ conventional DC clonogenic progenitor. Nat. Immunol. 16:708-717. http://dx.doi.org/10.1038/ni.3197
-
(2015)
Nat. Immunol
, vol.16
, pp. 708-717
-
-
Grajales-Reyes, G.E.1
Iwata, A.2
Albring, J.3
Wu, X.4
Tussiwand, R.5
Kc, W.6
Kretzer, N.M.7
Briseño, C.G.8
Durai, V.9
Bagadia, P.10
-
11
-
-
84958058589
-
Classification of low quality cells from single-cell RNA-seq data
-
Ilicic, T., J.K. Kim, A.A. Kolodziejczyk, F.O. Bagger, D.J. McCarthy, J.C. Marioni, and S.A. Teichmann. 2016. Classification of low quality cells from single-cell RNA-seq data. Genome Biol. 17:29. http://dx.doi.org/10.1186/s13059-016-0888-1
-
(2016)
Genome Biol
, vol.17
, pp. 29
-
-
Ilicic, T.1
Kim, J.K.2
Kolodziejczyk, A.A.3
Bagger, F.O.4
McCarthy, D.J.5
Marioni, J.C.6
Teichmann, S.A.7
-
12
-
-
84907960586
-
BDCA1-positive dendritic cells (DCs) represent a unique human myeloid DC subset that induces innate and adaptive immune responses to Staphylococcus aureus infection
-
Jin, J.O., W. Zhang, J.Y. Du, and Q. Yu. 2014. BDCA1-positive dendritic cells (DCs) represent a unique human myeloid DC subset that induces innate and adaptive immune responses to Staphylococcus aureus infection. Infect. Immun. 82:4466-4476. http://dx.doi.org/10.1128/IAI.01851-14
-
(2014)
Infect. Immun
, vol.82
, pp. 4466-4476
-
-
Jin, J.O.1
Zhang, W.2
Du, J.Y.3
Yu, Q.4
-
13
-
-
77953502765
-
Human CD141+ (BDCA-3)+ dendritic cells (DCs) represent a unique myeloid DC subset that cross-presents necrotic cell antigens
-
Jongbloed, S.L., A.J. Kassianos, K.J. McDonald, G.J. Clark, X. Ju, C.E. Angel, C.J. Chen, P.R. Dunbar, R.B. Wadley, V. Jeet, et al. 2010. Human CD141+ (BDCA-3)+ dendritic cells (DCs) represent a unique myeloid DC subset that cross-presents necrotic cell antigens. J. Exp. Med. 207:1247-1260. http://dx.doi.org/10.1084/jem.20092140
-
(2010)
J. Exp. Med
, vol.207
, pp. 1247-1260
-
-
Jongbloed, S.L.1
Kassianos, A.J.2
McDonald, K.J.3
Clark, G.J.4
Ju, X.5
Angel, C.E.6
Chen, C.J.7
Dunbar, P.R.8
Wadley, R.B.9
Jeet, V.10
-
14
-
-
84924743273
-
Restricted dendritic cell and monocyte progenitors in human cord blood and bone marrow
-
Lee, J., G. Breton, T.Y. Oliveira, Y.J. Zhou, A. Aljoufi, S. Puhr, M.J. Cameron, R.P. Sékaly, M.C. Nussenzweig, and K. Liu. 2015. Restricted dendritic cell and monocyte progenitors in human cord blood and bone marrow. J. Exp. Med. 212:385-399. http://dx.doi.org/10.1084/jem.20141442
-
(2015)
J. Exp. Med
, vol.212
, pp. 385-399
-
-
Lee, J.1
Breton, G.2
Oliveira, T.Y.3
Zhou, Y.J.4
Aljoufi, A.5
Puhr, S.6
Cameron, M.J.7
Sékaly, R.P.8
Nussenzweig, M.C.9
Liu, K.10
-
15
-
-
84924629414
-
Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2
-
Love, M.I., W. Huber, and S. Anders. 2014. Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2. Genome Biol. 15:550. http://dx.doi.org/10.1186/s13059-014-0550-8
-
(2014)
Genome Biol
, vol.15
, pp. 550
-
-
Love, M.I.1
Huber, W.2
Anders, S.3
-
16
-
-
84929684999
-
Highly parallel genome-wide expression profiling of individual cells using nanoliter droplets
-
Macosko, E.Z., A. Basu, R. Satija, J. Nemesh, K. Shekhar, M. Goldman, I. Tirosh, A.R. Bialas, N. Kamitaki, E.M. Martersteck, et al. 2015. Highly parallel genome-wide expression profiling of individual cells using nanoliter droplets. Cell. 161:1202-1214. http://dx.doi.org/10.1016/j.cell.2015.05.002
-
(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
-
17
-
-
79954506102
-
Dendritic cell control of tolerogenic responses
-
Manicassamy, S., and B. Pulendran. 2011. Dendritic cell control of tolerogenic responses. Immunol. Rev. 241:206-227. http://dx.doi.org/10.1111/j.1600-065X.2011.01015.x
-
(2011)
Immunol. Rev
, vol.241
, pp. 206-227
-
-
Manicassamy, S.1
Pulendran, B.2
-
18
-
-
84874321000
-
Data exploration, quality control and testing in single-cell qPCR-based gene expression experiments
-
McDavid, A., G. Finak, P.K. Chattopadyay, M. Dominguez, L. Lamoreaux, S.S. Ma, M. Roederer, and R. Gottardo. 2013. Data exploration, quality control and testing in single-cell qPCR-based gene expression experiments. Bioinformatics. 29:461-467. http://dx.doi.org/10.1093/bioinformatics/bts714
-
(2013)
Bioinformatics
, vol.29
, pp. 461-467
-
-
McDavid, A.1
Finak, G.2
Chattopadyay, P.K.3
Dominguez, M.4
Lamoreaux, L.5
Ma, S.S.6
Roederer, M.7
Gottardo, R.8
-
19
-
-
84955164174
-
Distinct routes of lineage development reshape the human blood hierarchy across ontogeny
-
Notta, F., S. Zandi, N. Takayama, S. Dobson, O.I. Gan, G. Wilson, K.B. Kaufmann, J. McLeod, E. Laurenti, C.F. Dunant, et al. 2016. Distinct routes of lineage development reshape the human blood hierarchy across ontogeny. Science. 351:aab2116. http://dx.doi.org/10.1126/science.aab2116
-
(2016)
Science
, vol.351
-
-
Notta, F.1
Zandi, S.2
Takayama, N.3
Dobson, S.4
Gan, O.I.5
Wilson, G.6
Kaufmann, K.B.7
McLeod, J.8
Laurenti, E.9
Dunant, C.F.10
-
20
-
-
84950290139
-
Transcriptional heterogeneity and lineage commitment in myeloid progenitors
-
Paul, F., Y. Arkin, A. Giladi, D.A. Jaitin, E. Kenigsberg, H. Keren-Shaul, D. Winter, D. Lara-Astiaso, M. Gury, A. Weiner, et al. 2015. Transcriptional heterogeneity and lineage commitment in myeloid progenitors. Cell. 163:1663-1677. http://dx.doi.org/10.1016/j.cell.2015.11.013
-
(2015)
Cell
, vol.163
, pp. 1663-1677
-
-
Paul, F.1
Arkin, Y.2
Giladi, A.3
Jaitin, D.A.4
Kenigsberg, E.5
Keren-Shaul, H.6
Winter, D.7
Lara-Astiaso, D.8
Gury, M.9
Weiner, A.10
-
21
-
-
84950283224
-
The branching point in erythro-myeloid differentiation
-
Perié, L., K.R. Duffy, L. Kok, R.J. de Boer, and T.N. Schumacher. 2015. The branching point in erythro-myeloid differentiation. Cell. 163:1655-1662. http://dx.doi.org/10.1016/j.cell.2015.11.059
-
(2015)
Cell
, vol.163
, pp. 1655-1662
-
-
Perié, L.1
Duffy, K.R.2
Kok, L.3
de Boer, R.J.4
Schumacher, T.N.5
-
22
-
-
84878167904
-
IRF4 transcription-factor-dependent CD103+CD11b+ dendritic cells drive mucosal T helper 17 cell differentiation
-
Persson, E.K., H. Uronen-Hansson, M. Semmrich, A. Rivollier, K. Hägerbrand, J. Marsal, S. Gudjonsson, U. Håkansson, B. Reizis, K. Kotarsky, and W.W. Agace. 2013. IRF4 transcription-factor-dependent CD103+CD11b+ dendritic cells drive mucosal T helper 17 cell differentiation. Immunity. 38:958-969. http://dx.doi.org/10.1016/j.immuni.2013.03.009
-
(2013)
Immunity
, vol.38
, pp. 958-969
-
-
Persson, E.K.1
Uronen-Hansson, H.2
Semmrich, M.3
Rivollier, A.4
Hägerbrand, K.5
Marsal, J.6
Gudjonsson, S.7
Håkansson, U.8
Reizis, B.9
Kotarsky, K.10
Agace, W.W.11
-
23
-
-
84887101406
-
Smart-seq2 for sensitive full-length transcriptome profiling in single cells
-
Picelli, S., A.K. Björklund, O.R. Faridani, S. Sagasser, G. Winberg, and R. Sandberg. 2013. Smart-seq2 for sensitive full-length transcriptome profiling in single cells. Nat. Methods. 10:1096-1098. http://dx.doi.org/10.1038/nmeth.2639
-
(2013)
Nat. Methods
, vol.10
, pp. 1096-1098
-
-
Picelli, S.1
Björklund, A.K.2
Faridani, O.R.3
Sagasser, S.4
Winberg, G.5
Sandberg, R.6
-
24
-
-
77953484184
-
+ dendritic cells
-
+ dendritic cells. J. Exp. Med. 207:1261-1271. http://dx.doi.org/10.1084/jem.20092618
-
(2010)
J. Exp. Med
, vol.207
, pp. 1261-1271
-
-
Poulin, L.F.1
Salio, M.2
Griessinger, E.3
Anjos-Afonso, F.4
Craciun, L.5
Chen, J.L.6
Keller, A.M.7
Joffre, O.8
Zelenay, S.9
Nye, E.10
-
25
-
-
0034235748
-
Flt3-ligand and granulocyte colony-stimulating factor mobilize distinct human dendritic cell subsets in vivo
-
Pulendran, B., J. Banchereau, S. Burkeholder, E. Kraus, E. Guinet, C. Chalouni, D. Caron, C. Maliszewski, J. Davoust, J. Fay, and K. Palucka. 2000. Flt3-ligand and granulocyte colony-stimulating factor mobilize distinct human dendritic cell subsets in vivo. J. Immunol. 165:566-572. http://dx.doi.org/10.4049/jimmunol.165.1.566
-
(2000)
J. Immunol
, vol.165
, pp. 566-572
-
-
Pulendran, B.1
Banchereau, J.2
Burkeholder, S.3
Kraus, E.4
Guinet, E.5
Chalouni, C.6
Caron, D.7
Maliszewski, C.8
Davoust, J.9
Fay, J.10
Palucka, K.11
-
26
-
-
45749120843
-
Novel insights into the relationships between dendritic cell subsets in human and mouse revealed by genome-wide expression profiling
-
Robbins, S.H., T. Walzer, D. Dembélé, C. Thibault, A. Defays, G. Bessou, H. Xu, E. Vivier, M. Sellars, P. Pierre, et al. 2008. Novel insights into the relationships between dendritic cell subsets in human and mouse revealed by genome-wide expression profiling. Genome Biol. 9:R17. http://dx.doi.org/10.1186/gb-2008-9-1-r17
-
(2008)
Genome Biol
, vol.9
-
-
Robbins, S.H.1
Walzer, T.2
Dembélé, D.3
Thibault, C.4
Defays, A.5
Bessou, G.6
Xu, H.7
Vivier, E.8
Sellars, M.9
Pierre, P.10
-
27
-
-
84929151009
-
Spatial reconstruction of single-cell gene expression data
-
Satija, R., J.A. Farrell, D. Gennert, A.F. Schier, and A. Regev. 2015. Spatial reconstruction of single-cell gene expression data. Nat. Biotechnol. 33:495-502. http://dx.doi.org/10.1038/nbt.3192
-
(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
-
28
-
-
84878191150
-
IRF4 transcription factor-dependent CD11b+ dendritic cells in human and mouse control mucosal IL-17 cytokine responses
-
Schlitzer, A., N. McGovern, P. Teo, T. Zelante, K. Atarashi, D. Low, A.W. Ho, P. See, A. Shin, P.S. Wasan, et al. 2013. IRF4 transcription factor-dependent CD11b+ dendritic cells in human and mouse control mucosal IL-17 cytokine responses. Immunity. 38:970-983. http://dx.doi.org/10.1016/j.immuni.2013.04.011
-
(2013)
Immunity
, vol.38
, pp. 970-983
-
-
Schlitzer, A.1
McGovern, N.2
Teo, P.3
Zelante, T.4
Atarashi, K.5
Low, D.6
Ho, A.W.7
See, P.8
Shin, A.9
Wasan, P.S.10
-
29
-
-
84931394611
-
Identification of cDC1-and cDC2-committed DC progenitors reveals early lineage priming at the common DC progenitor stage in the bone marrow
-
Schlitzer, A., V. Sivakamasundari, J. Chen, H.R. Sumatoh, J. Schreuder, J. Lum, B. Malleret, S. Zhang, A. Larbi, F. Zolezzi, et al. 2015. Identification of cDC1-and cDC2-committed DC progenitors reveals early lineage priming at the common DC progenitor stage in the bone marrow. Nat. Immunol. 16:718-728. http://dx.doi.org/10.1038/ni.3200
-
(2015)
Nat. Immunol
, vol.16
, pp. 718-728
-
-
Schlitzer, A.1
Sivakamasundari, V.2
Chen, J.3
Sumatoh, H.R.4
Schreuder, J.5
Lum, J.6
Malleret, B.7
Zhang, S.8
Larbi, A.9
Zolezzi, F.10
-
30
-
-
84903185013
-
Single-cell RNAseq reveals dynamic paracrine control of cellular variation
-
Shalek, A.K., R. Satija, J. Shuga, J.J. Trombetta, D. Gennert, D. Lu, P. Chen, R.S. Gertner, J.T. Gaublomme, N. Yosef, et al. 2014. Single-cell RNAseq reveals dynamic paracrine control of cellular variation. Nature. 510:363-369.
-
(2014)
Nature
, vol.510
, pp. 363-369
-
-
Shalek, A.K.1
Satija, R.2
Shuga, J.3
Trombetta, J.J.4
Gennert, D.5
Lu, D.6
Chen, P.7
Gertner, R.S.8
Gaublomme, J.T.9
Yosef, N.10
-
31
-
-
34848837386
-
Taking dendritic cells into medicine
-
Steinman, R.M., and J. Banchereau. 2007. Taking dendritic cells into medicine. Nature. 449:419-426. http://dx.doi.org/10.1038/nature06175
-
(2007)
Nature
, vol.449
, pp. 419-426
-
-
Steinman, R.M.1
Banchereau, J.2
-
32
-
-
33750934617
-
Dendritic cells: translating innate to adaptive immunity
-
B. Pulendran and R. Ahmed, editors. Springer-Verlig, Berlin, Heidelberg
-
Steinman, R.M., and H. Hemmi. 2006. Dendritic cells: translating innate to adaptive immunity. In Innate Immunity to Immunological Memory. B. Pulendran and R. Ahmed, editors. Springer-Verlig, Berlin, Heidelberg. 17-58. http://dx.doi.org/10.1007/3-540-32636-7 2
-
(2006)
Innate Immunity to Immunological Memory
, pp. 17-58
-
-
Steinman, R.M.1
Hemmi, H.2
-
33
-
-
33745612095
-
Pvclust: an R package for assessing the uncertainty in hierarchical clustering
-
Suzuki, R., and H. Shimodaira. 2006. Pvclust: an R package for assessing the uncertainty in hierarchical clustering. Bioinformatics. 22:1540-1542. http://dx.doi.org/10.1093/bioinformatics/btl117
-
(2006)
Bioinformatics
, vol.22
, pp. 1540-1542
-
-
Suzuki, R.1
Shimodaira, H.2
|