Nuno A Fonseca
Nuno A Fonseca
Verified email at ebi.ac.uk - Homepage
TitleCited byYear
Assemblathon 2: evaluating de novo methods of genome assembly in three vertebrate species
KR Bradnam, JN Fass, A Alexandrov, P Baranay, M Bechner, I Birol, ...
GigaScience 2 (1), 2047-217X-2-10, 2013
5572013
Assemblathon 1: a competitive assessment of de novo short read assembly methods
D Earl, K Bradnam, JS John, A Darling, D Lin, J Fass, HOK Yu, V Buffalo, ...
Genome research 21 (12), 2224-2241, 2011
5012011
Expression Atlas update—an integrated database of gene and protein expression in humans, animals and plants
R Petryszak, M Keays, YA Tang, NA Fonseca, E Barrera, T Burdett, ...
Nucleic acids research 44 (D1), D746-D752, 2016
3562016
Two independent modes of chromosome organization are revealed by cohesin removal
FS Wibke Schwarzer, Nezar Abdennur, Anton Goloborodko, Aleksandra Pekowska ...
Nature, 2017
346*2017
Tools for mapping high-throughput sequencing data
NA Fonseca, J Rung, A Brazma, JC Marioni
Bioinformatics 28 (24), 3169-3177, 2012
2892012
Expression Atlas update—a database of gene and transcript expression from microarray-and sequencing-based functional genomics experiments
R Petryszak, T Burdett, B Fiorelli, NA Fonseca, M Gonzalez-Porta, ...
Nucleic acids research 42 (D1), D926-D932, 2014
2842014
Expression Atlas: gene and protein expression across multiple studies and organisms
I Papatheodorou, NA Fonseca, M Keays, YA Tang, E Barrera, W Bazant, ...
Nucleic acids research 46 (D1), D246-D251, 2018
1202018
Gramene 2016: comparative plant genomics and pathway resources
MK Tello-Ruiz, J Stein, S Wei, J Preece, A Olson, S Naithani, ...
Nucleic acids research 44 (D1), D1133-D1140, 2016
1032016
Long-range enhancers regulating Myc expression are required for normal facial morphogenesis
VV Uslu, M Petretich, S Ruf, K Langenfeld, NA Fonseca, JC Marioni, ...
Nature genetics 46 (7), 753, 2014
972014
RNA-seq gene profiling-a systematic empirical comparison
NA Fonseca, J Marioni, A Brazma
PloS one 9 (9), 2014
822014
Comparison of GENCODE and RefSeq gene annotation and the impact of reference geneset on variant effect prediction
A Frankish, B Uszczynska, GRS Ritchie, JM Gonzalez, D Pervouchine, ...
BMC genomics 16 (S8), S2, 2015
602015
An S-RNase-based gametophytic self-incompatibility system evolved only once in eudicots
J Vieira, NA Fonseca, CP Vieira
Journal of Molecular Evolution 67 (2), 179-190, 2008
562008
Gramene 2018: unifying comparative genomics and pathway resources for plant research
MK Tello-Ruiz, S Naithani, JC Stein, P Gupta, M Campbell, A Olson, ...
Nucleic acids research 46 (D1), D1181-D1189, 2018
532018
High-resolution mapping of transcriptional dynamics across tissue development reveals a stable mRNA–tRNA interface
BM Schmitt, KLM Rudolph, P Karagianni, NA Fonseca, RJ White, ...
Genome research 24 (11), 1797-1807, 2014
492014
Pan-cancer analysis of whole genomes
PJ Campbell, G Getz, JO Korbel, P Consortium
Nature 578 (7793), 82-93, 2020
462020
Transcription factor activities enhance markers of drug sensitivity in cancer
LM Garcia-Alonso, F Iorio, A Matchan, NA Fonseca, P Jaaks, G Peat, ...
Cancer Research, canres. 1679.2017, 2017
352017
Convergent evolution at the gametophytic self-incompatibility system in Malus and Prunus
B Aguiar, J Vieira, AE Cunha, NA Fonseca, A Iezzoni, S van Nocker, ...
PloS one 10 (5), 2015
332015
ArrayExpress update–from bulk to single-cell expression data
A Athar, A Füllgrabe, N George, H Iqbal, L Huerta, A Ali, C Snow, ...
Nucleic acids research 47 (D1), D711-D715, 2019
322019
PopAffiliator: online calculator for individual affiliation to a major population group based on 17 autosomal short tandem repeat genotype profile
L Pereira, F Alshamali, R Andreassen, R Ballard, W Chantratita, NS Cho, ...
International journal of legal medicine 125 (5), 629-636, 2011
312011
Amino acid pairing at the N‐and C‐termini of helical segments in proteins
NA Fonseca, R Camacho, AL Magalhaes
PROTEINS: Structure, Function, and Bioinformatics 70 (1), 188-196, 2008
292008
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Articles 1–20