Sequences to systems

by Kellis, Manolis, Rinn, John L.
Published 2012

Live-cell mapping of organelle-associated RNAs via proximity biotinylation combined with protein-RNA crosslinking

by Kaewsapsak, Pornchai, Shechner, David Michael, Mallard, William, Rinn, John L, Ting, Alice Y
Published 2018

Computational analysis of noncoding RNAs

by Washietl, Stefan, Will, Sebastian, Hendrix, David A., Goff, Loyal, Rinn, John L., Berger, Bonnie, Kellis, Manolis
Published 2014

Integrative annotation of human large intergenic noncoding RNAs reveals global properties and specific subclasses

by Cabili, Moran N., Trapnell, Cole, Goff, Loyal, Koziol, Magdalena J., Tazon-Vega, Barbara, Regev, Aviv, Rinn, John L.
Published 2014

Chromatin signature of embryonic pluripotency is established during genome activation

by Vastenhouw, Nadine L., Zhang, Yong, Woods, Ian G., Imam, Farhad, Regev, Aviv, Liu, X. Shirley, Rinn, John L., Schier, Alexander F.
Published 2012

Localization and abundance analysis of human lncRNAs at single-cell and single-molecule resolution

by Cabili, Moran N, Dunagin, Margaret C, McClanahan, Patrick D, Biaesch, Andrew, Padovan-Merhar, Olivia, Regev, Aviv, Rinn, John L, Raj, Arjun
Published 2016

Genomics in 2011: challenges and opportunities

by Berger, Bonnie, Adams, David J., Harismendy, Olivier, Huttenhower, Curtis, Liu, X. Shirley, Myers, Chad L., Oshlack, Alicia, Rinn, John L., Walhout, Albertha J. M.
Published 2012

Systematic identification of long noncoding RNAs expressed during zebrafish embryogenesis

by Lin, Michael F., Regev, Aviv, Pauli, Andrea, Valen, Eivind, Garber, Manuel, Vastenhouw, Nadine L., Levin, Joshua Z., Fan, Lin, Sandelin, Albin, Rinn, John L., Schier, Alexander F.
Published 2012

Mining data from 1000 genomes to identify the causal variant in regions under positive selection

by Grossman, Sharon Rachel, Karlsson, Elinor K., Tabrizi, Shervin, Andersen, Kristian G., Rinn, John L., Lander, Eric S., Schaffner, Steve, Sabeti, Pardis C., 1000 Genomes Project Consortium, Shlyakhter, Ilya 1975-
Published 2012

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

by 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., Regev, Aviv, Lander, Eric Steven
Published 2012

Many human large intergenic noncoding RNAs associate with chromatin-modifying complexes and affect gene expression

by Presser, Aviva, Guttman, Mitchell, Raj, Arjun, van Oudenaarden, Alexander, Rinn, John L., Lander, Eric S., Regev, Aviv, Bernstein, Bradley E., Thomas, Kelly, Morales, Dianali Rivea, Garber, Manuel, Khalil, Ahmad M., Huarte, Maite
Published 2010

Gene co-regulation by Fezf2 selects neurotransmitter identity and connectivity of corticospinal neurons

by Lodato, Simona, Zuccaro, Emanuela, Chen, Hsu-Hsin, Yuan, Wen, Meleski, Alyssa, Takahashi, Emi, Mahony, Shaun, Gifford, David K, Arlotta, Paola, Molyneaux, Bradley J., Goff, Loyal A., Rinn, John L., Gifford, David K.
Published 2015

Long noncoding RNAs regulate adipogenesis

by Sun, Lei, Goff, Loyal, Alexander, Ryan K., Lo, Kinyui Alice, Yuan, Bingbing B., Kellis, Manolis, Lodish, Harvey F., Trapnell, Cole, Hacisuleyman, Ezgi, Sauvageau, Martin, Tazon-Vega, Barbara, Kelley, David R., Hendrickson, David G., Rinn, John L.
Published 2013

A Large Intergenic Noncoding RNA Induced by p53 Mediates Global Gene Repression in the p53 Response

by Huarte, Maite, Guttman, Mitchell, Feldser, David M., Garber, Manuel, Koziol, Magdalena J., Kenzelmann-Broz, Daniela, Khalil, Ahmad M., Zuk, Or, Amit, Ido, Rabani, Michal, Attardi, Laura D., Regev, Aviv, Rinn, John L., Lander, Eric Steven, Jacks, Tyler E
Published 2015

A distant trophoblast-specific enhancer controls HLA-G expression at the maternal-fetal interface

by Ferreira, Leonardo M. R., Meissner, Torsten B., Mikkelsen, Tarjei S., Mallard, William, O'Donnell, Charles W., Tilburgs, Tamara, Gomes, Hannah A. B., Camahort, Raymond, Sherwood, Richard I., Rinn, John L., Cowan, Chad A., Strominger, Jack L., Gifford, David K
Published 2017

Large intergenic non-coding RNA-RoR modulates reprogramming of human induced pluripotent stem cells

by Guttman, Mitchell, Loewer, Sabine, Cabili, Moran N., Loh, Yuin-Han, Thomas, Kelly, Park, In Hyun, Garber, Manuel, Curran, Matthew, Onder, Tamer T., Agarwal, Suneet, Manos, Philip D., Datta, Sumon, Schlaeger, Thorsten M., Daley, George Q., Rinn, John L., Lander, Eric Steven
Published 2012

lincRNAs act in the circuitry controlling pluripotency and differentiation

by Guttman, Mitchell, Donaghey, Julie, Carey, Bryce W., Garber, Manuel, Grenier, Jennifer K., Munson, Glen, Young, Geneva, Lucas, Anne Bergstom, Ach, Robert, Bruhn, Laurakay, Yang, Xiaoping, Amit, Ido, Meissner, Alexander, Regev, Aviv, Rinn, John L., Root, David E., Lander, Eric Steven
Published 2012

Spatiotemporal expression and transcriptional perturbations by long noncoding RNAs in the mouse brain

by Goff, Loyal A., Groff, Abigail F., Sauvageau, Martin, Trayes-Gibson, Zachary, Sanchez-Gomez, Diana B., Morse, Michael, Martin, Ryan D., Elcavage, Lara E., Liapis, Stephen C., Gonzalez-Celeiro, Meryem, Plana, Olivia, Li, Eric, Gerhardinger, Chiara, Tomassy, Giulio S., Arlotta, Paola, Rinn, John L.
Published 2016

Topological organization of multi-chromosomal regions by Firre

by Hacisuleyman, Ezgi, Trapnell, Cole, Williams, Adam, Henao-Mejia, Jorge, Sun, Lei, McClanahan, Patrick, Hendrickson, David G., Sauvageau, Martin, Kelley, David R., Morse, Michael, Engreitz, Jesse Michael, Guttman, Mitchell, Flavell, Richard A., Raj, Arjun, Rinn, John L., Goff, Loyal, Lander, Eric Steven, Lodish, Harvey F
Published 2015