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Luís Pedro Coelho

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affiliation: European Molecular Biology Laboratory (EMBL), Heidelberg, Germany
affiliation: Carnegie Mellon University, Pittsburgh, Lane Center for Computational Biology

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2020 – today

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2024
[j10]
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Luís Pedro Coelho:
For long-term sustainable software in bioinformatics. PLoS Comput. Biol. 20(3): 1011920 (2024)
2023
[j9]
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  - journals/bioinformatics/PanZC23
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Shaojun Pan, Xing-Ming Zhao, Luís Pedro Coelho:
SemiBin2: self-supervised contrastive learning leads to better MAGs for short- and long-read sequencing. Bioinform. 39(Supplement-1): 21-29 (2023)
[j8]
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Rémi Gschwind, Svetlana Ugarcina perovic, Maja Weiss, Marie Petitjean, Julie Lao, Luís Pedro Coelho, Etienne Ruppé:
ResFinderFG v2.0: a database of antibiotic resistance genes obtained by functional metagenomics. Nucleic Acids Res. 51(W1): 493-500 (2023)
2022
[j7]
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Hui Chong, Yuguo Zha, Qingyang Yu, Mingyue Cheng, Guangzhou Xiong, Nan Wang, Xinhe Huang, Shijuan Huang, Chuqing Sun, Sicheng Wu, Wei-Hua Chen, Luís Pedro Coelho, Kang Ning:
EXPERT: transfer learning-enabled context-aware microbial community classification. Briefings Bioinform. 23(6) (2022)
2020
[j6]
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Daniel R. Mende, Ivica Letunic, Oleksandr M. Maistrenko, Thomas S. B. Schmidt, Alessio Milanese, Lucas Paoli, Ana Hernández-Plaza, Askarbek N. Orakov, Sofia K. Forslund, Shinichi Sunagawa, Georg Zeller, Jaime Huerta-Cepas, Luís Pedro Coelho, Peer Bork:
proGenomes2: an improved database for accurate and consistent habitat, taxonomic and functional annotations of prokaryotic genomes. Nucleic Acids Res. 48(Database-Issue): D621-D625 (2020)

2010 – 2019

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2016
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  - journals/bioinformatics/KultimaCFHLDVZS16
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Jens Roat Kultima, Luís Pedro Coelho, Kristoffer Forslund, Jaime Huerta-Cepas, Simone S. Li, Marja Driessen, Anita Yvonne Voigt, Georg Zeller, Shinichi Sunagawa, Peer Bork:
MOCAT2: a metagenomic assembly, annotation and profiling framework. Bioinform. 32(16): 2520-2523 (2016)
2015
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  - journals/bioinformatics/CoelhoPFNKRC15
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Luís Pedro Coelho, Catarina Pato, Ana Friães, Ariane Neumann, Maren von Köckritz-Blickwede, Mário Ramirez, João André Carriço:
Automatic determination of NET (neutrophil extracellular traps) coverage in fluorescent microscopy images. Bioinform. 31(14): 2364-2370 (2015)
2013
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Luís Pedro Coelho, Joshua D. Kangas, Armaghan W. Naik, Elvira Osuna-Highley, Estelle Glory-Afshar, Margaret Fuhrman, Ramanuja Simha, Peter B. Berget, Jonathan W. Jarvik, Robert F. Murphy:
Determining the subcellular location of new proteins from microscope images using local features. Bioinform. 29(18): 2343-2349 (2013)
2012
[i1]
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  - journals/corr/abs-1211-4907
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Luís Pedro Coelho:
Mahotas: Open source software for scriptable computer vision. CoRR abs/1211.4907 (2012)
2010
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  - journals/bioinformatics/CoelhoPM10
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Luís Pedro Coelho, Tao Peng, Robert F. Murphy:
Quantifying the distribution of probes between subcellular locations using unsupervised pattern unmixing. Bioinform. 26(12): 7-12 (2010)
[j1]
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  - journals/ws/AhmedACKSXCM10
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Amr Ahmed, Andrew Arnold, Luís Pedro Coelho, Joshua D. Kangas, Abdul-Saboor Sheikh, Eric P. Xing, William W. Cohen, Robert F. Murphy:
Structured literature image finder: Parsing text and figures in biomedical literature. J. Web Semant. 8(2-3): 151-154 (2010)

2000 – 2009

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2009
[c6]
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  - conf/isbi/CoelhoSM09
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Luís Pedro Coelho, Aabid Shariff, Robert F. Murphy:
Nuclear Segmentation in Microscope Cell Images: A Hand-Segmented Dataset and Comparison of Algorithms. ISBI 2009: 518-521
2008
[c5]
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  - conf/bird/CoelhoM08
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Luís Pedro Coelho, Robert F. Murphy:
Identifying Subcellular Locations from Images of Unknown Resolution. BIRD 2008: 235-242
[c4]
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  - conf/ismb/CoelhoGKQSM08
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Luís Pedro Coelho, Estelle Glory-Afshar, Joshua D. Kangas, Shannon Quinn, Aabid Shariff, Robert F. Murphy:
Principles of Bioimage Informatics: Focus on Machine Learning of Cell Patterns. BioLINK@ISMB/ECCB 2008: 8-18
[c3]
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Luís Pedro Coelho, Amr Ahmed, Andrew Arnold, Joshua D. Kangas, Abdul-Saboor Sheikh, Eric P. Xing, William W. Cohen, Robert F. Murphy:
Structured Literature Image Finder: Extracting Information from Text and Images in Biomedical Literature. BioLINK@ISMB/ECCB 2008: 23-32
2007
[c2]
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  - conf/icip/ChebiraCSLJMHCJPK07
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Amina Chebira, Luís Pedro Coelho, Aliaksei Sandryhaila, Stephen Lin, William G. Jenkinson, Jeremiah MacSleyne, Christopher Hoffman, Philipp Cuadra, Charles Jackson, Markus Püschel, Jelena Kovacevic:
An Adaptive Multiresolution Approach to Fingerprint Recognition. ICIP (1) 2007: 457-460
2006
[c1]
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Luís Pedro Coelho, Arlindo L. Oliveira:
Dotted Suffix Trees A Structure for Approximate Text Indexing. SPIRE 2006: 329-336

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