Full Length cDNA Sequencing on the PacBio® RS

von Tseng, Elizabeth, Underwood, Jason G., Tseng, Elizabeth
Veröffentlicht 2013

Long-Read Sequencing of Chicken Transcripts and Identification of New Transcript Isoforms

von Thomas, Sean, Underwood, Jason G., Tseng, Elizabeth, Holloway, Alisha K.
Veröffentlicht 2014

Improving PacBio Long Read Accuracy by Short Read Alignment

von Au, Kin Fai, Underwood, Jason G., Lee, Lawrence, Wong, Wing Hung
Veröffentlicht 2012

Homologues of the Caenorhabditis elegans Fox-1 Protein Are Neuronal Splicing Regulators in Mammals

von Underwood, Jason G., Boutz, Paul L., Dougherty, Joseph D., Stoilov, Peter, Black, Douglas L.
Veröffentlicht 2005

Gene Isoform Specificity through Enhancer-Associated Antisense Transcription

von Onodera, Courtney S., Underwood, Jason G., Katzman, Sol, Jacobs, Frank, Greenberg, David, Salama, Sofie R., Haussler, David
Veröffentlicht 2012

Molecular basis of RNA recognition by the human alternative splicing factor Fox-1

von Auweter, Sigrid D, Fasan, Rudi, Reymond, Luc, Underwood, Jason G, Black, Douglas L, Pitsch, Stefan, Allain, Frédéric H-T
Veröffentlicht 2006

FragSeq: transcriptome-wide RNA structure probing using high-throughput sequencing

von Underwood, Jason G., Uzilov, Andrew V., Katzman, Sol, Onodera, Courtney S., Mainzer, Jacob E., Mathews, David H., Lowe, Todd M., Salama, Sofie R., Haussler, David
Veröffentlicht 2010

Transcriptional fates of human-specific segmental duplications in brain

von Dougherty, Max L., Underwood, Jason G., Nelson, Bradley J., Tseng, Elizabeth, Munson, Katherine M., Penn, Osnat, Nowakowski, Tomasz J., Pollen, Alex A., Eichler, Evan E.
Veröffentlicht in Genome Res (2018)

Characterization of fusion genes and the significantly expressed fusion isoforms in breast cancer by hybrid sequencing

von Weirather, Jason L., Afshar, Pegah Tootoonchi, Clark, Tyson A., Tseng, Elizabeth, Powers, Linda S., Underwood, Jason G., Zabner, Joseph, Korlach, Jonas, Wong, Wing Hung, Au, Kin Fai
Veröffentlicht in Nucleic Acids Res (2015)

Massively multiplex single-molecule oligonucleosome footprinting

von Abdulhay, Nour J, McNally, Colin P, Hsieh, Laura J, Kasinathan, Sivakanthan, Keith, Aidan, Estes, Laurel S, Karimzadeh, Mehran, Underwood, Jason G, Goodarzi, Hani, Narlikar, Geeta J, Ramani, Vijay
Veröffentlicht in eLife (2020)

Comparative Annotation Toolkit (CAT)—simultaneous clade and personal genome annotation

von Fiddes, Ian T., Armstrong, Joel, Diekhans, Mark, Nachtweide, Stefanie, Kronenberg, Zev N., Underwood, Jason G., Gordon, David, Earl, Dent, Keane, Thomas, Eichler, Evan E., Haussler, David, Stanke, Mario, Paten, Benedict
Veröffentlicht in Genome Res (2018)

Characterization of the human ESC transcriptome by hybrid sequencing

von Au, Kin Fai, Sebastiano, Vittorio, Afshar, Pegah Tootoonchi, Durruthy, Jens Durruthy, Lee, Lawrence, Williams, Brian A., van Bakel, Harm, Schadt, Eric E., Reijo-Pera, Renee A., Underwood, Jason G., Wong, Wing Hung
Veröffentlicht 2013

Robust single-cell discovery of RNA targets of RNA binding proteins and ribosomes

von Brannan, Kristopher W., Chaim, Isaac A., Marina, Ryan J., Yee, Brian A., Kofman, Eric R., Lorenz, Daniel A., Jagannatha, Pratibha, Dong, Kevin D., Madrigal, Assael A., Underwood, Jason G., Yeo, Gene W.
Veröffentlicht in Nat Methods (2021)

ORF Capture-Seq as a versatile method for targeted identification of full-length isoforms

von Sheynkman, Gloria M., Tuttle, Katharine S., Laval, Florent, Tseng, Elizabeth, Underwood, Jason G., Yu, Liang, Dong, Da, Smith, Melissa L., Sebra, Robert, Willems, Luc, Hao, Tong, Calderwood, Michael A., Hill, David E., Vidal, Marc
Veröffentlicht in Nat Commun (2020)

Fallacy of the Unique Genome: Sequence Diversity within Single Helicobacter pylori Strains

von Draper, Jenny L., Hansen, Lori M., Bernick, David L., Abedrabbo, Samar, Underwood, Jason G., Kong, Nguyet, Huang, Bihua C., Weis, Allison M., Weimer, Bart C., van Vliet, Arnoud H. M., Pourmand, Nader, Solnick, Jay V., Karplus, Kevin, Ottemann, Karen M.
Veröffentlicht in mBio (2017)

Genomic characterization of the RH locus detects complex and novel structural variation in multi-ethnic cohorts

von Wheeler, Marsha M., Lannert, Kerry W., Huston, Haley, Fletcher, Shelley N., Harris, Samantha, Teramura, Gayle, Maki, Helena J., Frazar, Chris, Underwood, Jason G., Shaffer, Tristan, Correa, Adolfo, Delaney, Meghan, Reiner, Alex P., Wilson, James G., Nickerson, Deborah A., Johnsen, Jill M.
Veröffentlicht in Genet Med (2018)

Adaptive archaic introgression of copy number variants and the discovery of previously unknown human genes

von Hsieh, PingHsun, Vollger, Mitchell R., Dang, Vy, Porubsky, David, Baker, Carl, Cantsilieris, Stuart, Hoekzema, Kendra, Lewis, Alexandra P., Munson, Katherine M., Sorensen, Melanie, Kronenberg, Zev N., Murali, Shwetha, Nelson, Bradley J., Chiatante, Giorgia, Maggiolini, Flavia Angela Maria, Blanché, Hélène, Underwood, Jason G., Antonacci, Francesca, Deleuze, Jean-François, Eichler, Evan E.
Veröffentlicht in Science (2019)

An evolutionary driver of interspersed segmental duplications in primates

von Cantsilieris, Stuart, Sunkin, Susan M., Johnson, Matthew E., Anaclerio, Fabio, Huddleston, John, Baker, Carl, Dougherty, Max L., Underwood, Jason G., Sulovari, Arvis, Hsieh, PingHsun, Mao, Yafei, Catacchio, Claudia Rita, Malig, Maika, Welch, AnneMarie E., Sorensen, Melanie, Munson, Katherine M., Jiang, Weihong, Girirajan, Santhosh, Ventura, Mario, Lamb, Bruce T., Conlon, Ronald A., Eichler, Evan E.
Veröffentlicht in Genome Biol (2020)

Multi-platform and cross-methodological reproducibility of transcriptome profiling by RNA-seq in the ABRF Next-Generation Sequencing Study

von Li, Sheng, Tighe, Scott W., Nicolet, Charles M., Grove, Deborah, Levy, Shawn, Farmerie, William, Viale, Agnes, Wright, Chris, Schweitzer, Peter A., Gao, Yuan, Kim, Dewey, Boland, Joe, Hicks, Belynda, Kim, Ryan, Chhangawala, Sagar, Jafari, Nadereh, Raghavachari, Nalini, Gandara, Jorge, Garcia-Reyero, Natàlia, Hendrickson, Cynthia, Roberson, David, Rosenfeld, Jeffrey, Smith, Todd, Underwood, Jason G., Wang, May, Zumbo, Paul, Baldwin, Don A., Grills, George S., Mason, Christopher E.
Veröffentlicht 2014

Massively parallel digital transcriptional profiling of single cells

von Zheng, Grace X. Y., Terry, Jessica M., Belgrader, Phillip, Ryvkin, Paul, Bent, Zachary W., Wilson, Ryan, Ziraldo, Solongo B., Wheeler, Tobias D., McDermott, Geoff P., Zhu, Junjie, Gregory, Mark T., Shuga, Joe, Montesclaros, Luz, Underwood, Jason G., Masquelier, Donald A., Nishimura, Stefanie Y., Schnall-Levin, Michael, Wyatt, Paul W., Hindson, Christopher M., Bharadwaj, Rajiv, Wong, Alexander, Ness, Kevin D., Beppu, Lan W., Deeg, H. Joachim, McFarland, Christopher, Loeb, Keith R., Valente, William J., Ericson, Nolan G., Stevens, Emily A., Radich, Jerald P., Mikkelsen, Tarjei S., Hindson, Benjamin J., Bielas, Jason H.
Veröffentlicht in Nat Commun (2017)