Single-cell isoform RNA sequencing characterizes isoforms in thousands of cerebellar cells
Gupta, Ishaan, Collier, Paul G, Haase, Bettina, Mahfouz, Ahmed, Joglekar, Anoushka, Floyd, Taylor, Koopmans, Frank, Barres, Ben, Smit, August B, Sloan, Steven A, Luo, Wenjie, Fedrigo, Olivier, Ross, M Elizabeth, Tilgner, Hagen U
Published in Nature biotechnology (01.12.2018)
Published in Nature biotechnology (01.12.2018)
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Journal Article
Schizophrenia is defined by cell-specific neuropathology and multiple neurodevelopmental mechanisms in patient-derived cerebral organoids
Notaras, Michael, Lodhi, Aiman, Dündar, Friederike, Collier, Paul, Sayles, Nicole M, Tilgner, Hagen, Greening, David, Colak, Dilek
Published in Molecular psychiatry (01.03.2022)
Published in Molecular psychiatry (01.03.2022)
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Journal Article
Accurate isoform discovery with IsoQuant using long reads
Prjibelski, Andrey D, Mikheenko, Alla, Joglekar, Anoushka, Smetanin, Alexander, Jarroux, Julien, Lapidus, Alla L, Tilgner, Hagen U
Published in Nature biotechnology (01.07.2023)
Published in Nature biotechnology (01.07.2023)
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Journal Article
ScisorWiz: visualizing differential isoform expression in single-cell long-read data
Stein, Alexander N, Joglekar, Anoushka, Poon, Chi-Lam, Tilgner, Hagen U
Published in Bioinformatics (27.06.2022)
Published in Bioinformatics (27.06.2022)
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Journal Article
The GENCODE v7 catalog of human long noncoding RNAs: analysis of their gene structure, evolution, and expression
Derrien, Thomas, Johnson, Rory, Bussotti, Giovanni, Tanzer, Andrea, Djebali, Sarah, Tilgner, Hagen, Guernec, Gregory, Martin, David, Merkel, Angelika, Knowles, David G, Lagarde, Julien, Veeravalli, Lavanya, Ruan, Xiaoan, Ruan, Yijun, Lassmann, Timo, Carninci, Piero, Brown, James B, Lipovich, Leonard, Gonzalez, Jose M, Thomas, Mark, Davis, Carrie A, Shiekhattar, Ramin, Gingeras, Thomas R, Hubbard, Tim J, Notredame, Cedric, Harrow, Jennifer, Guigó, Roderic
Published in Genome research (01.09.2012)
Published in Genome research (01.09.2012)
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Journal Article
The variables on RNA molecules: concert or cacophony? Answers in long-read sequencing
Foord, Careen, Hsu, Justine, Jarroux, Julien, Hu, Wen, Belchikov, Natan, Pollard, Shaun, He, Yi, Joglekar, Anoushka, Tilgner, Hagen U
Published in Nature methods (01.01.2023)
Published in Nature methods (01.01.2023)
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The tech for the next decade: promises and challenges in genome biology
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Conference Proceeding
Gaining comprehensive biological insight into the transcriptome by performing a broad-spectrum RNA-seq analysis
Sahraeian, Sayed Mohammad Ebrahim, Mohiyuddin, Marghoob, Sebra, Robert, Tilgner, Hagen, Afshar, Pegah T, Au, Kin Fai, Bani Asadi, Narges, Gerstein, Mark B, Wong, Wing Hung, Snyder, Michael P, Schadt, Eric, Lam, Hugo Y K
Published in Nature communications (05.07.2017)
Published in Nature communications (05.07.2017)
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Journal Article
Deep sequencing of subcellular RNA fractions shows splicing to be predominantly co-transcriptional in the human genome but inefficient for lncRNAs
Tilgner, Hagen, Knowles, David G, Johnson, Rory, Davis, Carrie A, Chakrabortty, Sudipto, Djebali, Sarah, Curado, João, Snyder, Michael, Gingeras, Thomas R, Guigó, Roderic
Published in Genome research (01.09.2012)
Published in Genome research (01.09.2012)
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Journal Article
Comprehensive transcriptome analysis using synthetic long-read sequencing reveals molecular co-association of distant splicing events
Tilgner, Hagen, Jahanbani, Fereshteh, Blauwkamp, Tim, Moshrefi, Ali, Jaeger, Erich, Chen, Feng, Harel, Itamar, Bustamante, Carlos D, Rasmussen, Morten, Snyder, Michael P
Published in Nature biotechnology (01.07.2015)
Published in Nature biotechnology (01.07.2015)
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Journal Article
Nucleosome positioning as a determinant of exon recognition
Sammeth, Michael, Althammer, Sonja, Beato, Miguel, Guigó, Roderic, Nikolaou, Christoforos, Valcárcel, Juan, Tilgner, Hagen
Published in Nature structural & molecular biology (01.09.2009)
Published in Nature structural & molecular biology (01.09.2009)
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Journal Article
From words to complete phrases: insight into single-cell isoforms using short and long reads
Joglekar, Anoushka, Foord, Careen, Jarroux, Julien, Pollard, Shaun, Tilgner, Hagen U
Published in Transcription (20.10.2023)
Published in Transcription (20.10.2023)
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Journal Article
Single-nuclei isoform RNA sequencing unlocks barcoded exon connectivity in frozen brain tissue
Hardwick, Simon A, Hu, Wen, Joglekar, Anoushka, Fan, Li, Collier, Paul G, Foord, Careen, Balacco, Jennifer, Lanjewar, Samantha, Sampson, Maureen McGuirk, Koopmans, Frank, Prjibelski, Andrey D, Mikheenko, Alla, Belchikov, Natan, Jarroux, Julien, Lucas, Anne Bergstrom, Palkovits, Miklós, Luo, Wenjie, Milner, Teresa A, Ndhlovu, Lishomwa C, Smit, August B, Trojanowski, John Q, Lee, Virginia M Y, Fedrigo, Olivier, Sloan, Steven A, Tombácz, Dóra, Ross, M Elizabeth, Jarvis, Erich, Boldogkői, Zsolt, Gan, Li, Tilgner, Hagen U
Published in Nature biotechnology (01.07.2022)
Published in Nature biotechnology (01.07.2022)
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Journal Article
Induction of an immortalized songbird cell line allows for gene characterization and knockout by CRISPR-Cas9
Biegler, Matthew T, Fedrigo, Olivier, Collier, Paul, Mountcastle, Jacquelyn, Haase, Bettina, Tilgner, Hagen U, Jarvis, Erich D
Published in Scientific reports (14.03.2022)
Published in Scientific reports (14.03.2022)
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Journal Article
Absence of canonical marks of active chromatin in developmentally regulated genes
Pérez-Lluch, Sílvia, Blanco, Enrique, Tilgner, Hagen, Curado, Joao, Ruiz-Romero, Marina, Corominas, Montserrat, Guigó, Roderic
Published in Nature genetics (01.10.2015)
Published in Nature genetics (01.10.2015)
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Journal Article
Getting the Entire Message: Progress in Isoform Sequencing
Hardwick, Simon A, Joglekar, Anoushka, Flicek, Paul, Frankish, Adam, Tilgner, Hagen U
Published in Frontiers in genetics (16.08.2019)
Published in Frontiers in genetics (16.08.2019)
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Journal Article
Single-cell long-read sequencing-based mapping reveals specialized splicing patterns in developing and adult mouse and human brain
Joglekar, Anoushka, Hu, Wen, Zhang, Bei, Narykov, Oleksandr, Diekhans, Mark, Marrocco, Jordan, Balacco, Jennifer, Ndhlovu, Lishomwa C, Milner, Teresa A, Fedrigo, Olivier, Jarvis, Erich D, Sheynkman, Gloria, Korkin, Dmitry, Ross, M Elizabeth, Tilgner, Hagen U
Published in Nature neuroscience (01.06.2024)
Published in Nature neuroscience (01.06.2024)
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