Computational methods for transcriptome annotation and quantification using RNA-seq
Garber, Manuel, Grabherr, Manfred G, Guttman, Mitchell, Trapnell, Cole
Published in Nature methods (01.06.2011)
Published in Nature methods (01.06.2011)
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Journal Article
Full-length transcriptome assembly from RNA-Seq data without a reference genome
Friedman, Nir, Regev, Aviv, 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
Published in Nature biotechnology (01.07.2011)
Published in Nature biotechnology (01.07.2011)
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Journal Article
The genomic basis of adaptive evolution in threespine sticklebacks
Jones, Felicity C., Grabherr, Manfred G., Chan, Yingguang Frank, Russell, Pamela, Mauceli, Evan, Johnson, Jeremy, Swofford, Ross, Pirun, Mono, Zody, Michael C., White, Simon, Birney, Ewan, Searle, Stephen, Schmutz, Jeremy, Grimwood, Jane, Dickson, Mark C., Myers, Richard M., Miller, Craig T., Summers, Brian R., Knecht, Anne K., Brady, Shannon D., Zhang, Haili, Pollen, Alex A., Howes, Timothy, Amemiya, Chris, Lander, Eric S., Di Palma, Federica, Lindblad-Toh, Kerstin, Kingsley, David M.
Published in Nature (London) (05.04.2012)
Published in Nature (London) (05.04.2012)
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Journal Article
Genome-wide synteny through highly sensitive sequence alignment: Satsuma
Grabherr, Manfred G., Russell, Pamela, Meyer, Miriah, Mauceli, Evan, Alföldi, Jessica, Di Palma, Federica, Lindblad-Toh, Kerstin
Published in Bioinformatics (01.05.2010)
Published in Bioinformatics (01.05.2010)
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Journal Article
MindReader : Unsupervised Classification of Electroencephalographic Data
Rivas-Carrillo, Salvador Daniel, Akkuratov, Evgeny E, Valdez Ruvalcaba, Hector, Vargas-Sanchez, Angel, Komorowski, Jan, San-Juan, Daniel, Grabherr, Manfred G
Published in Sensors (Basel, Switzerland) (09.03.2023)
Published in Sensors (Basel, Switzerland) (09.03.2023)
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Journal Article
An improved canine genome and a comprehensive catalogue of coding genes and non-coding transcripts
Hoeppner, Marc P, Lundquist, Andrew, Pirun, Mono, Meadows, Jennifer R S, Zamani, Neda, Johnson, Jeremy, Sundström, Görel, Cook, April, FitzGerald, Michael G, Swofford, Ross, Mauceli, Evan, Moghadam, Behrooz Torabi, Greka, Anna, Alföldi, Jessica, Abouelleil, Amr, Aftuck, Lynne, Bessette, Daniel, Berlin, Aaron, Brown, Adam, Gearin, Gary, Lui, Annie, Macdonald, J Pendexter, Priest, Margaret, Shea, Terrance, Turner-Maier, Jason, Zimmer, Andrew, Lander, Eric S, di Palma, Federica, Lindblad-Toh, Kerstin, Grabherr, Manfred G
Published in PloS one (13.03.2014)
Published in PloS one (13.03.2014)
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Journal Article
SumStatsRehab: an efficient algorithm for GWAS summary statistics assessment and restoration
Matushyn, Mykyta, Bose, Madhuchanda, Mahmoud, Abdallah Amr, Cuthbertson, Lewis, Tello, Carlos, Bircan, KaratuÄ Ozan, Terpolovsky, Andrew, Bamunusinghe, Varuna, Khan, Umar, NovkoviÄ, Biljana, Grabherr, Manfred G, Yazdi, Puya G
Published in BMC bioinformatics (25.10.2022)
Published in BMC bioinformatics (25.10.2022)
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Journal Article
EZTraits: A programmable tool to evaluate multi-site deterministic traits
Carland, Matt, Pedersen, Haley, Bose, Madhuchanda, Novković, Biljana, Manson, Charles, Lahan, Shany, Pavlenko, Alex, Yazdi, Puya G, Grabherr, Manfred G
Published in PloS one (09.05.2022)
Published in PloS one (09.05.2022)
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Journal Article
ACES: a machine learning toolbox for clustering analysis and visualization
Gao, Jiangning, Sundström, Görel, Moghadam, Behrooz Torabi, Zamani, Neda, Grabherr, Manfred G
Published in BMC genomics (27.12.2018)
Published in BMC genomics (27.12.2018)
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Journal Article
Unsupervised genome-wide recognition of local relationship patterns
Zamani, Neda, Russell, Pamela, Lantz, Henrik, Hoeppner, Marc P, Meadows, Jennifer Rs, Vijay, Nagarjun, Mauceli, Evan, di Palma, Federica, Lindblad-Toh, Kerstin, Jern, Patric, Grabherr, Manfred G
Published in BMC genomics (24.05.2013)
Published in BMC genomics (24.05.2013)
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Journal Article
Serendipitous Meta-Transcriptomics: The Fungal Community of Norway Spruce (Picea abies)
Delhomme, Nicolas, Sundström, Görel, Zamani, Neda, Lantz, Henrik, Lin, Yao-Cheng, Hvidsten, Torgeir R, Höppner, Marc P, Jern, Patric, Van de Peer, Yves, Lundeberg, Joakim, Grabherr, Manfred G, Street, Nathaniel R
Published in PloS one (28.09.2015)
Published in PloS one (28.09.2015)
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Journal Article
Exploiting nucleotide composition to engineer promoters
Grabherr, Manfred G, Pontiller, Jens, Mauceli, Evan, Ernst, Wolfgang, Baumann, Martina, Biagi, Tara, Swofford, Ross, Russell, Pamela, Zody, Michael C, Di Palma, Federica, Lindblad-Toh, Kerstin, Grabherr, Reingard M
Published in PloS one (18.05.2011)
Published in PloS one (18.05.2011)
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Journal Article
Combinatorial identification of DNA methylation patterns over age in the human brain
Torabi Moghadam, Behrooz, Dabrowski, Michal, Kaminska, Bozena, Grabherr, Manfred G, Komorowski, Jan
Published in BMC bioinformatics (23.09.2016)
Published in BMC bioinformatics (23.09.2016)
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Journal Article
Whiteboard: a framework for the programmatic visualization of complex biological analyses
Sundström, Görel, Zamani, Neda, Grabherr, Manfred G, Mauceli, Evan
Published in Bioinformatics (Oxford, England) (15.06.2015)
Published in Bioinformatics (Oxford, England) (15.06.2015)
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Journal Article
Artificially designed promoters: Understanding the role of spatial features and canonical binding sites in transcription
Baumann, Martina, Höppner, Marc P., Meier, Michael, Pontiller, Jens, Ernst, Wolfgang, Grabherr, Reingard, Mauceli, Evan, Grabherr, Manfred G.
Published in Bioengineered (01.03.2012)
Published in Bioengineered (01.03.2012)
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Journal Article
A universal genomic coordinate translator for comparative genomics
Zamani, Neda, Sundström, Görel, Meadows, Jennifer R S, Höppner, Marc P, Dainat, Jacques, Lantz, Henrik, Haas, Brian J, Grabherr, Manfred G
Published in BMC bioinformatics (30.06.2014)
Published in BMC bioinformatics (30.06.2014)
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Journal Article
Modular and configurable optimal sequence alignment software: Cola
Zamani, Neda, Sundström, Görel, Höppner, Marc P, Grabherr, Manfred G
Published in Source code for biology and medicine (09.06.2014)
Published in Source code for biology and medicine (09.06.2014)
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Journal Article
Genome sequencing and assembly
Grabherr, Manfred G, Mauceli, Evan, Ma, Li-Jun
Published in Methods in molecular biology (Clifton, N.J.) (01.01.2011)
Published in Methods in molecular biology (Clifton, N.J.) (01.01.2011)
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