Reconstruction of cell-type specific interactomes at single-cell resolution

по Mohammadi, Shahin, Davila-Velderrain, Jose, Kellis, Manolis
Опубликовано в: Cell Syst (2019)

A multiresolution framework to characterize single-cell state landscapes

по Mohammadi, Shahin, Davila-Velderrain, Jose, Kellis, Manolis
Опубликовано в: Nat Commun (2020)

Reshaping the epigenetic landscape during early flower development: induction of attractor transitions by relative differences in gene decay rates

по Davila-Velderrain, Jose, Villarreal, Carlos, Alvarez-Buylla, Elena R
Опубликовано в: BMC Syst Biol (2015)

Integrative construction of regulatory region networks in 127 human reference epigenomes by matrix factorization

по Liu, Dianbo, Davila-Velderrain, Jose, Zhang, Zhizhuo, Kellis, Manolis
Опубликовано в: Nucleic Acids Res (2019)

Modeling the epigenetic attractors landscape: toward a post-genomic mechanistic understanding of development

по Davila-Velderrain, Jose, Martinez-Garcia, Juan C., Alvarez-Buylla, Elena R.
Опубликовано в: Front Genet (2015)

NEBULA is a fast negative binomial mixed model for differential or co-expression analysis of large-scale multi-subject single-cell data

по He, Liang, Davila-Velderrain, Jose, Sumida, Tomokazu S., Hafler, David A., Kellis, Manolis, Kulminski, Alexander M.
Опубликовано в: Commun Biol (2021)

In vivo and in vitro human gene essentiality estimations capture contrasting functional constraints

по Caldu-Primo, Jose Luis, Verduzco-Martínez, Jorge Armando, Alvarez-Buylla, Elena R, Davila-Velderrain, Jose
Опубликовано в: NAR Genom Bioinform (2021)

Gene regulatory network underlying the immortalization of epithelial cells

по Méndez-López, Luis Fernando, Davila-Velderrain, Jose, Domínguez-Hüttinger, Elisa, Enríquez-Olguín, Christian, Martínez-García, Juan Carlos, Alvarez-Buylla, Elena R.
Опубликовано в: BMC Syst Biol (2017)

Mapping the epigenomic and transcriptomic interplay during memory formation and recall in the hippocampal engram ensemble

по Marco, Asaf, Meharena, Hiruy S., Dileep, Vishnu, Raju, Ravikiran M., Davila-Velderrain, Jose, Zhang, Amy, Adaikkan, Chinnakkaruppan, Young, Jennie Z., Gao, Fan, Kellis, Manolis, Tsai, Li-Huei
Опубликовано в: Nat Neurosci (2020)

Single-cell transcriptomic atlas of the human retina identifies cell types associated with age-related macular degeneration

по Menon, Madhvi, Mohammadi, Shahin, Davila-Velderrain, Jose, Goods, Brittany A., Cadwell, Tanina D., Xing, Yu, Stemmer-Rachamimov, Anat, Shalek, Alex K., Love, John Christopher, Kellis, Manolis, Hafler, Brian P.
Опубликовано в: Nat Commun (2019)

Cell Type-Specific Transcriptomics Reveals that Mutant Huntingtin Leads to Mitochondrial RNA Release and Neuronal Innate Immune Activation

по Lee, Hyeseung, Fenster, Robert J., Pineda, S. Sebastian, Gibbs, Whitney S., Mohammadi, Shahin, Davila-Velderrain, Jose, Garcia, Francisco J., Therrien, Martine, Novis, Hailey S., Gao, Fan, Wilkinson, Hilary, Vogt, Thomas, Kellis, Manolis, LaVoie, Matthew J., Heiman, Myriam
Опубликовано в: Neuron (2020)

Single-cell transcriptomic analysis of Alzheimer’s disease

по Mathys, Hansruedi, Davila-Velderrain, Jose, Peng, Zhuyu, Gao, Fan, Mohammadi, Shahin, Young, Jennie Z., Menon, Madhvi, He, Liang, Abdurrob, Fatema, Jiang, Xueqiao, Martorell, Anthony J., Ransohoff, Richard M., Hafler, Brian P., Bennett, David A., Kellis, Manolis, Tsai, Li-Huei
Опубликовано в: Nature (2019)

Reconstruction of the Human Blood-Brain Barrier in vitro reveals a Pathogenic Mechanism of APOE4 in Pericytes

по Blanchard, Joel W., Bula, Michael, Davila-Velderrain, Jose, Akay, Leyla Anne, Zhu, Lena, Frank, Alexander, Victor, Matheus B., Bonner, Julia Maeve, Mathys, Hansruedi, Lin, Yuan-Ta, Ko, Tak, Bennett, David A., Cam, Hugh P., Kellis, Manolis, Tsai, Li-Huei
Опубликовано в: Nat Med (2020)

Inferring multimodal latent topics from electronic health records

по Li, Yue, Nair, Pratheeksha, Lu, Xing Han, Wen, Zhi, Wang, Yuening, Dehaghi, Amir Ardalan Kalantari, Miao, Yan, Liu, Weiqi, Ordog, Tamas, Biernacka, Joanna M., Ryu, Euijung, Olson, Janet E., Frye, Mark A., Liu, Aihua, Guo, Liming, Marelli, Ariane, Ahuja, Yuri, Davila-Velderrain, Jose, Kellis, Manolis
Опубликовано в: Nat Commun (2020)

Association studies of up to 1.2 million individuals yield new insights into the genetic etiology of tobacco and alcohol use

по Liu, Mengzhen, Jiang, Yu, Wedow, Robbee, Li, Yue, Brazel, David M., Chen, Fang, Datta, Gargi, Davila-Velderrain, Jose, McGuire, Daniel, Tian, Chao, Zhan, Xiaowei, Choquet, Hélène, Docherty, Anna R., Faul, Jessica D., Foerster, Johanna R., Fritsche, Lars G., Gabrielsen, Maiken Elvestad, Gordon, Scott D., Haessler, Jeffrey, Hottenga, Jouke-Jan, Huang, Hongyan, Jang, Seon-Kyeong, Jansen, Philip R., Ling, Yueh, Mägi, Reedik, Matoba, Nana, McMahon, George, Mulas, Antonella, Orrù, Valeria, Palviainen, Teemu, Pandit, Anita, Reginsson, Gunnar W., Skogholt, Anne Heidi, Smith, Jennifer A., Taylor, Amy E., Turman, Constance, Willemsen, Gonneke, Young, Hannah, Young, Kendra A., Zajac, Gregory J. M., Zhao, Wei, Zhou, Wei, Bjornsdottir, Gyda, Boardman, Jason D., Boehnke, Michael, Boomsma, Dorret I., Chen, Chu, Cucca, Francesco, Davies, Gareth E., Eaton, Charles B., Ehringer, Marissa A., Esko, Tõnu, Fiorillo, Edoardo, Gillespie, Nathan A., Gudbjartsson, Daniel F., Haller, Toomas, Harris, Kathleen Mullan, Heath, Andrew C., Hewitt, John K., Hickie, Ian B., Hokanson, John E., Hopfer, Christian J., Hunter, David J., Iacono, William G., Johnson, Eric O., Kamatani, Yoichiro, Kardia, Sharon L. R., Keller, Matthew C., Kellis, Manolis, Kooperberg, Charles, Kraft, Peter, Krauter, Kenneth S., Laakso, Markku, Lind, Penelope A., Loukola, Anu, Lutz, Sharon M., Madden, Pamela A. F., Martin, Nicholas G., McGue, Matt, McQueen, Matthew B., Medland, Sarah E., Metspalu, Andres, Mohlke, Karen L., Nielsen, Jonas B., Okada, Yukinori, Peters, Ulrike, Polderman, Tinca J. C., Posthuma, Danielle, Reiner, Alexander P., Rice, John P., Rimm, Eric, Rose, Richard J., Runarsdottir, Valgerdur, Stallings, Michael C., Stančáková, Alena, Stefansson, Hreinn, Thai, Khanh K., Tindle, Hilary A., Tyrfingsson, Thorarinn, Wall, Tamara L., Weir, David R., Weisner, Constance, Whitfield, John B., Winsvold, Bendik Slagsvold, Yin, Jie, Zuccolo, Luisa, Bierut, Laura J., Hveem, Kristian, Lee, James J., Munafo, Marcus R., Saccone, Nancy L., Willer, Cristen J., Cornelis, Marilyn C., David, Sean P., Hinds, David, Jorgenson, Eric, Kaprio, Jaakko, Stitzel, Jerry A., Stefansson, Kari, Thorgeirsson, Thorgeir E., Abecasis, Goncalo, Liu, Dajiang J., Vrieze, Scott
Опубликовано в: Nat Genet (2019)