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Publications

 

You can find a full list of our publications here

 

 

 

- Global Positioning System: Understanding Long Noncoding RNAs through Subcellular Localization

J Carlevaro-Fita, R Johnson

Molecular cell (2019)

PMID: 30587508; DOI: 10.1016/j.molcel.2019.02.008

- Hacking the Cancer Genome: Profiling Therapeutically Actionable Long Non-coding RNAs Using CRISPR-Cas9 Screening

R Esposito, N Bosch, A Lanzós, T Polidori, C Pulido-Quetglas, R Johnson

Cancer cell (2019)

PMID: 30827888; DOI: 10.1016/j.ccell.2019.01.019

- Ancient exapted transposable elements promote nuclear enrichment of human long noncoding RNAs

J Carlevaro-Fita, T Polidori, M Das, C Navarro, TI Zoller, R Johnson

Genome research (2018)

PMID: 30587508; DOI: 10.1101/gr.229922.117

 

- GENCODE reference annotation for the human and mouse genomes

A Frankish, M Diekhans, AM Ferreira, R Johnson, ...

NAR (2018)

PMID: 30357393; DOI: 10.1093/nar/gky955

 

- Capturing a Long Look at Our Genetic Library

J Lagarde, R Johnson

Cell systems (2018)

PMID: 29494803; DOI: 10.1016/j.cels.2018.02.003

 

- Nearly all new protein-coding predictions in the CHESS database are not protein-coding

I Jungreis, ML Tress, J Mudge, C Sisu, T Hunt, R Johnson, ...

bioRxiv, 360602 (2018)

 

- Towards a complete map of the human long non-coding RNA transcriptome

B Uszczynska-Ratajczak, J Lagarde, A Frankish, R Guigó, R Johnson

Nature Reviews Genetics (2018)

PMID: 29795125; DOI: 10.1038/s41576-018-0017-y

- High-throughput annotation of full-length long noncoding RNAs with capture long-read sequencing

Lagarde J, Uszczynska-Ratajczak B, Carbonell S, Pérez-Lluch S, Abad A, Davis C, Gingeras TR, Frankish A, Harrow J, Guigo R, Johnson R.

Nature Genetics (2017)

PMID: 29106417; DOI: 10.1038/ng.3988

- LncATLAS database for subcellular localization of long noncoding RNAs

Mas-Ponte D, Carlevaro-Fita J, Palumbo E, Hermoso Pulido T, Guigo R, Johnson R.

RNA (2017)

PMID: 28386015; DOI: 10.1261/rna.060814.117

- Scalable Design of Paired CRISPR Guide RNAs for Genomic Deletion

Pulido-Quetglas C, Aparicio-Prat E, Arnan C, Polidori T, Hermoso T, Palumbo E, Ponomarenko J, Guigo R, Johnson R.

PLoS Computational Biology (2017)

PMID: 28253259; DOI: 10.1371/journal.pcbi.1005341

 

- Discovery of Cancer Driver Long Noncoding RNAs across 1112 Tumour Genomes: New Candidates and Distinguishing Features

Lanzós A, Carlevaro-Fita J, Mularoni L, Reverter F, Palumbo E, Guigó R, Johnson R.

Scientific Reports (2017)

PMID: 28128360; DOI: 10.1038/srep41544

 

- Cytoplasmic long noncoding RNAs are frequently bound to and degraded at ribosomes in human cells

Carlevaro-Fita J, Rahim A, Guigó R, Vardy LA, Johnson R.

RNA (2016)

PMID: 27090285; DOI: 10.1261/rna.053561.115

 

- DECKO: Single-oligo, dual-CRISPR deletion of genomic elements including long non-coding RNAs

Aparicio-Prat E, Arnan C, Sala I, Bosch N, Guigó R, Johnson R.

BMC Genomics (2015)

PMID: 26493208; DOI: 10.1186/s12864-015-2086-z