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Vijay Ramani
Vijay Ramani
Assistant Professor, Gladstone Institutes / UCSF
Verified email at ucsf.edu - Homepage
Title
Cited by
Cited by
Year
Comprehensive single-cell transcriptional profiling of a multicellular organism
J Cao, JS Packer, V Ramani, DA Cusanovich, C Huynh, R Daza, X Qiu, ...
Science 357 (6352), 661-667, 2017
12342017
Joint profiling of chromatin accessibility and gene expression in thousands of single cells
J Cao, DA Cusanovich, V Ramani, D Aghamirzaie, HA Pliner, AJ Hill, ...
Science 361 (6409), 1380-1385, 2018
7382018
Massively multiplex single-cell Hi-C
V Ramani, X Deng, R Qiu, KL Gunderson, FJ Steemers, CM Disteche, ...
Nature methods 14 (3), 263-266, 2017
5252017
Massively multiplex chemical transcriptomics at single-cell resolution
SR Srivatsan, JL McFaline-Figueroa, V Ramani, L Saunders, J Cao, ...
Science 367 (6473), 45-51, 2020
2342020
Bipartite structure of the inactive mouse X chromosome
X Deng, W Ma, V Ramani, A Hill, F Yang, F Ay, JB Berletch, CA Blau, ...
Genome biology 16, 1-21, 2015
2322015
Dynamics of genome reorganization during human cardiogenesis reveal an RBM20-dependent splicing factory
A Bertero, PA Fields, V Ramani, G Bonora, GG Yardimci, H Reinecke, ...
Nature communications 10 (1), 1538, 2019
1222019
Mapping 3D genome architecture through in situ DNase Hi-C
V Ramani, DA Cusanovich, RJ Hause, W Ma, R Qiu, X Deng, CA Blau, ...
Nature protocols 11 (11), 2104-2121, 2016
1142016
High-throughput determination of RNA structure by proximity ligation
V Ramani, R Qiu, J Shendure
Nature biotechnology 33 (9), 980-984, 2015
1102015
Orientation-dependent Dxz4 contacts shape the 3D structure of the inactive X chromosome
G Bonora, X Deng, H Fang, V Ramani, R Qiu, JB Berletch, GN Filippova, ...
Nature communications 9 (1), 1445, 2018
712018
Capturing cell type-specific chromatin compartment patterns by applying topic modeling to single-cell Hi-C data
HJ Kim, GG Yardımcı, G Bonora, V Ramani, J Liu, R Qiu, C Lee, J Hesson, ...
PLoS computational biology 16 (9), e1008173, 2020
682020
Sci-Hi-C: a single-cell Hi-C method for mapping 3D genome organization in large number of single cells
V Ramani, X Deng, R Qiu, C Lee, CM Disteche, WS Noble, J Shendure, ...
Methods 170, 61-68, 2020
662020
Understanding spatial genome organization: methods and insights
V Ramani, J Shendure, Z Duan
Genomics, Proteomics and Bioinformatics 14 (1), 7-20, 2016
632016
Massively multiplex single-molecule oligonucleosome footprinting
NJ Abdulhay, CP McNally, LJ Hsieh, S Kasinathan, A Keith, LS Estes, ...
Elife 9, e59404, 2020
602020
Unsupervised manifold alignment for single-cell multi-omics data
R Singh, P Demetci, G Bonora, V Ramani, C Lee, H Fang, Z Duan, ...
Proceedings of the 11th ACM International Conference on Bioinformatics …, 2020
512020
High sensitivity profiling of chromatin structure by MNase-SSP
V Ramani, R Qiu, J Shendure
Cell reports 26 (9), 2465-2476. e4, 2019
322019
A hexasome is the preferred substrate for the INO80 chromatin remodeling complex, allowing versatility of function
LJ Hsieh, MA Gourdet, CM Moore, EN Muñoz, N Gamarra, V Ramani, ...
Molecular cell 82 (11), 2098-2112. e4, 2022
162022
Single-cell landscape of nuclear configuration and gene expression during stem cell differentiation and X inactivation
G Bonora, V Ramani, R Singh, H Fang, DL Jackson, S Srivatsan, R Qiu, ...
Genome Biology 22, 1-36, 2021
162021
Smash and DASH with Cas9
V Ramani, J Shendure
Genome Biology 17, 1-3, 2016
82016
The glucose-sensing transcription factor MLX balances metabolism and stress to suppress apoptosis and maintain spermatogenesis
PA Carroll, BW Freie, PF Cheng, S Kasinathan, H Gu, T Hedrich, ...
PLoS biology 19 (10), e3001085, 2021
7*2021
Nucleosome density shapes kilobase-scale regulation by a mammalian chromatin remodeler
NJ Abdulhay, LJ Hsieh, CP McNally, MS Ostrowski, CM Moore, ...
Nature Structural & Molecular Biology 30 (10), 1571-1581, 2023
6*2023
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