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Alejandro Reyes
Alejandro Reyes
Novartis Institute for Biomedical Research
Adresse e-mail validée de embl.de - Page d'accueil
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Orchestrating high-throughput genomic analysis with Bioconductor
W Huber, VJ Carey, R Gentleman, S Anders, M Carlson, BS Carvalho, ...
Nature methods 12 (2), 115-121, 2015
28812015
Detecting differential usage of exons from RNA-seq data
S Anders*, A Reyes*, W Huber
Genome Research, 2012
14462012
Identification of regulatory networks in HSCs and their immediate progeny via integrated proteome, transcriptome, and DNA methylome analysis
N Cabezas-Wallscheid*, D Klimmeck*, J Hansson*, DB Lipka*, A Reyes*, ...
Cell stem cell 15 (4), 507-522, 2014
4822014
Direct competition between hnRNP C and U2AF65 protects the transcriptome from the exonization of Alu elements
K Zarnack*, J König*, M Tajnik, I Martincorena, S Eustermann, I Stévant, ...
Cell 152 (3), 453-466, 2013
4232013
Myc depletion induces a pluripotent dormant state mimicking diapause
R Scognamiglio, N Cabezas-Wallscheid, MC Thier, S Altamura, A Reyes, ...
Cell 164 (4), 668-680, 2016
2082016
Alternative start and termination sites of transcription drive most transcript isoform differences across human tissues
A Reyes*, W Huber*
Nucleic acids research 46 (2), 582-592, 2018
1902018
A practical guide to methods controlling false discoveries in computational biology
K Korthauer*, PK Kimes*, C Duvallet, A Reyes, A Subramanian, M Teng, ...
Genome Biology 20 (1), 118, 2019
1602019
Single-cell transcriptome analysis reveals coordinated ectopic gene-expression patterns in medullary thymic epithelial cells
P Brennecke*, A Reyes*, S Pinto*, K Rattay*, M Nguyen, R Küchler, ...
Nature Immunology, 2015
1342015
Drift and conservation of differential exon usage across tissues in primate species
A Reyes*, S Anders*, RJ Weatheritt, TJ Gibson, LM Steinmetz, W Huber
Proceedings of the National Academy of Sciences 110 (38), 15377-15382, 2013
1102013
Personal receptor repertoires: olfaction as a model.
LD Olender T, Waszak SM, Viavant M, Khen M, Ben-Asher
BMC Genomics, 2012
992012
Large-Scale Topological Changes Restrain Malignant Progression in Colorectal Cancer
SE Johnstone*, A Reyes*, Y Qi, C Adriaens, E Hegazi, K Pelka, JH Chen, ...
Cell, 2020
852020
CTCF-mediated chromatin loops between promoter and gene body regulate alternative splicing across individuals
M Ruiz-Velasco, M Kumar, MC Lai, P Bhat, AB Solis-Pinson, A Reyes, ...
Cell systems 5 (6), 628-637. e6, 2017
692017
RNA sequencing identifies novel non-coding RNA and exon-specific effects associated with cigarette smoking
MM Parker, RP Chase, A Lamb, A Reyes, A Saferali, JH Yun, BE Himes, ...
BMC Medical Genomics 10 (1), 58, 2017
522017
Transcriptome-wide profiling and posttranscriptional analysis of hematopoietic stem/progenitor cell differentiation toward myeloid commitment
D Klimmeck*, N Cabezas-Wallscheid*, A Reyes*, L von Paleske, ...
Stem cell reports 3 (5), 858-875, 2014
382014
Data-driven polymer model for mechanistic exploration of diploid genome organization
Y Qi, A Reyes, SE Johnstone, MJ Aryee, BE Bernstein, B Zhang
Biophysical Journal 119 (9), 1905-1916, 2020
322020
An orally available, brain penetrant, small molecule lowers huntingtin levels by enhancing pseudoexon inclusion
CG Keller, Y Shin, AM Monteys, N Renaud, M Beibel, N Teider, T Peters, ...
Nature communications 13 (1), 1-11, 2022
222022
Reproducible and replicable comparisons using SummarizedBenchmark
PK Kimes*, A Reyes*
Bioinformatics, 2019
102019
Programmatic access to bacterial regulatory networks with regutools
J Chávez*, C Barberena-Jonas*, JE Sotelo-Fonseca*, ...
Bioinformatics, btaa575, 2020
32020
Mutated SF3B1 is associated with transcript isoform changes of the genes UQCC and RPL31 both in CLLs and uveal melanomas
A Reyes, C Blume, V Pelechano, P Jakob, LM Steinmetz, T Zenz, ...
bioRxiv, 2013
12013
TRAWLING: a Transcriptome Reference Aware of spLIciNG events
N Di Nanni, A Reyes, D Ho, R Ihry, A Kauffmann, EY Durand, A de Weck
biorxiv, 2021
2021
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