Comprehensive comparative analysis of strand-specific RNA sequencing methods

por Levin, Joshua Z., Yassour, Moran, Adiconis, Xian, Nusbaum, Chad, Thompson, Dawn Anne, Friedman, Nir, Gnirke, Andreas, Regev, Aviv
Publicado 2010

Strand-specific RNA sequencing reveals extensive regulated long antisense transcripts that are conserved across yeast species

por Yassour, Moran, Pfiffner, Jenna, Levin, Joshua Z, Adiconis, Xian, Gnirke, Andreas, Nusbaum, Chad, Thompson, Dawn-Anne, Friedman, Nir, Regev, Aviv
Publicado 2010

Targeted next-generation sequencing of a cancer transcriptome enhances detection of sequence variants and novel fusion transcripts

por Levin, Joshua Z, Berger, Michael F, Adiconis, Xian, Rogov, Peter, Melnikov, Alexandre, Fennell, Timothy, Nusbaum, Chad, Garraway, Levi A, Gnirke, Andreas
Publicado 2009

Massively Parallel Sequencing of Human Urinary Exosome/Microvesicle RNA Reveals a Predominance of Non-Coding RNA

por Miranda, Kevin C., Bond, Daniel T., Levin, Joshua Z., Adiconis, Xian, Sivachenko, Andrey, Russ, Carsten, Brown, Dennis, Nusbaum, Chad, Russo, Leileata M.
Publicado 2014

Development and evaluation of RNA-seq methods

por Levin, Joshua, Adiconis, Xian, Yassour, Moran, Thompson, Dawn, Guttman, Mitchell, Berger, Michael, Fan, Lin, Friedman, Nir, Nusbaum, Chad, Gnirke, Andreas, Regev, Aviv
Publicado 2010

The effect of background noise and its removal on the analysis of single-cell expression data

por Janssen, Philipp, Kliesmete, Zane, Vieth, Beate, Adiconis, Xian, Simmons, Sean, Marshall, Jamie, McCabe, Cristin, Heyn, Holger, Levin, Joshua Z., Enard, Wolfgang, Hellmann, Ines
Publicado 2023

Disparities in allele frequencies and population differentiation for 101 disease-associated single nucleotide polymorphisms between Puerto Ricans and non-Hispanic whites

por Mattei, Josiemer, Parnell, Laurence D, Lai, Chao-Qiang, Garcia-Bailo, Bibiana, Adiconis, Xian, Shen, Jian, Arnett, Donna, Demissie, Serkalem, Tucker, Katherine L, Ordovas, Jose M
Publicado 2009

Metabolic labeling of RNA uncovers principles of RNA production and degradation dynamics in mammalian cells

por Rabani, Michal, Levin, Joshua Z, Fan, Lin, Adiconis, Xian, Raychowdhury, Raktima, Garber, Manuel, Gnirke, Andreas, Nusbaum, Chad, Hacohen, Nir, Friedman, Nir, Amit, Ido, Regev, Aviv
Publicado 2011

RNA-Seq methods for imperfect samples: development, evaluation and applications

por Adiconis, Xian, Fan, Lin, DeLuca, David, Sivachenko, Andrey, Pochet, Nathalie, Berlin, Aaron, Young, Sarah, Getz, Gad, Regev, Aviv, Nusbaum, Chad, Gnirke, Andreas, Levin, Joshua Z
Publicado 2011

Individual brain organoids reproducibly form cell diversity of the human cerebral cortex

por Velasco, Silvia, Kedaigle, Amanda J., Simmons, Sean K., Nash, Allison, Rocha, Marina, Quadrato, Giorgia, Paulsen, Bruna, Nguyen, Lan, Adiconis, Xian, Regev, Aviv, Levin, Joshua Z., Arlotta, Paola
Publicado 2019

Ab initio reconstruction of transcriptomes of pluripotent and lineage committed cells reveals gene structures of thousands of lincRNAs

por Guttman, Mitchell, Garber, Manuel, Levin, Joshua Z., Donaghey, Julie, Robinson, James, Adiconis, Xian, Fan, Lin, Koziol, Magdalena J., Gnirke, Andreas, Nusbaum, Chad, Rinn, John L., Lander, Eric S., Regev, Aviv
Publicado 2010

Comprehensive comparative analysis of 5’ end RNA sequencing methods

por Adiconis, Xian, Haber, Adam, Simmons, Sean K., Moonshine, Ami Levy, Ji, Zhe, Busby, Michele A., Shi, Xi, Jacques, Justin, Lancaster, Madeline A., Pan, Jen Q., Regev, Aviv, Levin, Joshua Z.
Publicado 2018

Comprehensive comparative analysis of RNA sequencing methods for degraded or low input samples

por Adiconis, Xian, Borges-Rivera, Diego, Satija, Rahul, DeLuca, David S., Busby, Michele A., Berlin, Aaron M., Sivachenko, Andrey, Thompson, Dawn Anne, Wysoker, Alec, Fennell, Timothy, Gnirke, Andreas, Pochet, Nathalie, Regev, Aviv, Levin, Joshua Z.
Publicado 2013

Mostly natural sequencing-by-synthesis for scRNA-seq using Ultima sequencing

por Simmons, Sean K., Lithwick-Yanai, Gila, Adiconis, Xian, Oberstrass, Florian, Iremadze, Nika, Geiger-Schuller, Kathryn, Thakore, Pratiksha I., Frangieh, Chris J., Barad, Omer, Almogy, Gilad, Rozenblatt-Rosen, Orit, Regev, Aviv, Lipson, Doron, Levin, Joshua Z.
Publicado 2022

Single-cell transcriptomics reveals bimodality in expression and splicing in immune cells

por Shalek, Alex K., Satija, Rahul, Adiconis, Xian, Gertner, Rona S., Gaublomme, Jellert T., Raychowdhury, Raktima, Schwartz, Schragi, Yosef, Nir, Malboeuf, Christine, Lu, Diana, Trombetta, John T., Gennert, Dave, Gnirke, Andreas, Goren, Alon, Hacohen, Nir, Levin, Joshua Z., Park, Hongkun, Regev, Aviv
Publicado 2013

Effects of 3D culturing conditions on the transcriptomic profile of stem-cell-derived neurons

por Tekin, Halil, Simmons, Sean, Cummings, Beryl, Gao, Linyi, Adiconis, Xian, Hession, Cynthia C., Ghoshal, Ayan, Dionne, Danielle, Choudhury, Sourav R., Yesilyurt, Volkan, Sanjana, Neville E., Shi, Xi, Lu, Congyi, Heidenreich, Matthias, Pan, Jen Q, Levin, Joshua Z., Zhang, Feng
Publicado 2018

Pluripotent stem cell-derived models of neurological diseases reveal early transcriptional heterogeneity

por Sorek, Matan, Oweis, Walaa, Nissim-Rafinia, Malka, Maman, Moria, Simon, Shahar, Hession, Cynthia C., Adiconis, Xian, Simmons, Sean K., Sanjana, Neville E., Shi, Xi, Lu, Congyi, Pan, Jen Q., Xu, Xiaohong, Pouladi, Mahmoud A., Ellerby, Lisa M., Zhang, Feng, Levin, Joshua Z., Meshorer, Eran
Publicado 2021

Trinity: reconstructing a full-length transcriptome without a genome from RNA-Seq data

por Grabherr, Manfred G., Haas, Brian J., Yassour, Moran, Levin, Joshua Z., Thompson, Dawn A., Amit, Ido, Adiconis, Xian, Fan, Lin, Raychowdhury, Raktima, Zeng, Qiandong, Chen, Zehua, Mauceli, Evan, Hacohen, Nir, Gnirke, Andreas, Rhind, Nicholas, di Palma, Federica, Birren, Bruce W., Nusbaum, Chad, Lindblad-Toh, Kerstin, Friedman, Nir, Regev, Aviv
Publicado 2011

Heterochronic parabiosis reprograms the mouse brain transcriptome by shifting aging signatures in multiple cell types

por Ximerakis, Methodios, Holton, Kristina M., Giadone, Richard M., Ozek, Ceren, Saxena, Monika, Santiago, Samara, Adiconis, Xian, Dionne, Danielle, Nguyen, Lan, Shah, Kavya M., Goldstein, Jill M., Gasperini, Caterina, Gampierakis, Ioannis A., Lipnick, Scott L., Simmons, Sean K., Buchanan, Sean M., Wagers, Amy J., Regev, Aviv, Levin, Joshua Z., Rubin, Lee L.
Publicado 2023

Comparative Analysis Highlights Variable Genome Content of Wheat Rusts and Divergence of the Mating Loci

por Cuomo, Christina A., Bakkeren, Guus, Khalil, Hala Badr, Panwar, Vinay, Joly, David, Linning, Rob, Sakthikumar, Sharadha, Song, Xiao, Adiconis, Xian, Fan, Lin, Goldberg, Jonathan M., Levin, Joshua Z., Young, Sarah, Zeng, Qiandong, Anikster, Yehoshua, Bruce, Myron, Wang, Meinan, Yin, Chuntao, McCallum, Brent, Szabo, Les J., Hulbert, Scot, Chen, Xianming, Fellers, John P.
Publicado 2016