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Machine Learning Reveals the Diversity of Human 3D Chromatin Contact Patterns.
- Published in:
- Molecular Biology & Evolution, 2024, v. 41, n. 10, p. 1, doi. 10.1093/molbev/msae209
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- Publication type:
- Article
Proteobacteria explain significant functional variability in the human gut microbiome.
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- Microbiome, 2017, v. 5, p. 1, doi. 10.1186/s40168-017-0244-z
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- Publication type:
- Article
Strain-resolved analysis in a randomized trial of antibiotic pretreatment and maintenance dose delivery mode with fecal microbiota transplant for ulcerative colitis.
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- Scientific Reports, 2022, v. 12, n. 1, p. 1, doi. 10.1038/s41598-022-09307-5
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- Article
Gene regulatory networks in lactation: identification of global principles using bioinformatics.
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- BMC Systems Biology, 2007, v. 1, p. 56, doi. 10.1186/1752-0509-1-56
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- Article
Unboxing cluster heatmaps.
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- BMC Bioinformatics, 2017, v. 18, p. 1, doi. 10.1186/s12859-016-1442-6
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- Publication type:
- Article
SOX2 O-GlcNAcylation alters its protein-protein interactions and genomic occupancy to modulate gene expression in pluripotent cells.
- Published in:
- eLife, 2016, p. 1, doi. 10.7554/eLife.10647
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- Article
Signatures of accelerated somatic evolution in gene promoters in multiple cancer types.
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- Nucleic Acids Research, 2015, v. 43, n. 11, p. 5307, doi. 10.1093/nar/gkv419
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- Article
Fast and accurate metagenotyping of the human gut microbiome with GT-Pro.
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- Nature Biotechnology, 2022, v. 40, n. 4, p. 507, doi. 10.1038/s41587-021-01102-3
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- Article
A unified catalog of 204,938 reference genomes from the human gut microbiome.
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- Nature Biotechnology, 2021, v. 39, n. 1, p. 105, doi. 10.1038/s41587-020-0603-3
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- Article
Marked seasonal variation in the wild mouse gut microbiota.
- Published in:
- ISME Journal: Multidisciplinary Journal of Microbial Ecology, 2015, v. 9, n. 11, p. 2423, doi. 10.1038/ismej.2015.53
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- Article
Global marine bacterial diversity peaks at high latitudes in winter.
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- ISME Journal: Multidisciplinary Journal of Microbial Ecology, 2013, v. 7, n. 9, p. 1876, doi. 10.1038/ismej.2013.76
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- Article
Global marine bacterial diversity peaks at high latitudes in winter.
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- ISME Journal: Multidisciplinary Journal of Microbial Ecology, 2013, v. 7, n. 9, p. 1669, doi. 10.1038/ismej.2013.37
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- Publication type:
- Article
Hypothesis Tests for Point-Mass Mixture Data with Application to 'Omics Data with Many Zero Values.
- Published in:
- Statistical Applications in Genetics & Molecular Biology, 2009, v. 8, n. 1, p. 1, doi. 10.2202/1544-6115.1425
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- Article
Supervised Distance Matrices.
- Published in:
- Statistical Applications in Genetics & Molecular Biology, 2008, v. 7, n. 1, p. 1, doi. 10.2202/1544-6115.1404
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- Publication type:
- Article
Multiple Testing. Part I. Single-Step Procedures for Control of General Type I Error Rates.
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- Statistical Applications in Genetics & Molecular Biology, 2004, v. 3, n. 1, p. 1, doi. 10.2202/1544-6115.1040
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- Publication type:
- Article
Augmentation Procedures for Control of the Generalized Family-Wise Error Rate and Tail Probabilities for the Proportion of False Positives.
- Published in:
- Statistical Applications in Genetics & Molecular Biology, 2004, v. 3, n. 1, p. 1, doi. 10.2202/1544-6115.1042
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- Publication type:
- Article
Multiple Testing. Part II. Step-Down Procedures for Control of the Family-Wise Error Rate.
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- Statistical Applications in Genetics & Molecular Biology, 2004, v. 3, n. 1, p. 1, doi. 10.2202/1544-6115.1041
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- Publication type:
- Article
Evolutionary dynamics of bacteria in the gut microbiome within and across hosts.
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- PLoS Biology, 2019, v. 17, n. 1, p. 1, doi. 10.1371/journal.pbio.3000102
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- Publication type:
- Article
SuPreMo: a computational tool for streamlining in silico perturbation using sequence-based predictive models.
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- Bioinformatics, 2024, v. 40, n. 6, p. 1, doi. 10.1093/bioinformatics/btae340
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- Publication type:
- Article
MIDAS2: Metagenomic Intra-species Diversity Analysis System.
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- Bioinformatics, 2023, v. 39, n. 1, p. 1, doi. 10.1093/bioinformatics/btac713
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- Publication type:
- Article
CellWalkR: an R package for integrating and visualizing single-cell and bulk data to resolve regulatory elements.
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- Bioinformatics, 2022, v. 38, n. 9, p. 2621, doi. 10.1093/bioinformatics/btac150
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- Publication type:
- Article
PHAST and RPHAST: phylogenetic analysis with space/time models.
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- Briefings in Bioinformatics, 2011, v. 12, n. 1, p. 41, doi. 10.1093/bib/bbq072
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- Publication type:
- Article
Composite interval mapping to identify quantitative trait loci for point-mass mixture phenotypes.
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- Genetics Research, 2010, v. 92, n. 1, p. 39, doi. 10.1017/S0016672310000042
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- Publication type:
- Article
Pediatric Eye Injuries Treated in US Emergency Departments, 1990-2009.
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- Clinical Pediatrics, 2012, v. 51, n. 4, p. 374, doi. 10.1177/0009922811427583
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- Article
Pediatric Volleyball-Related Injuries Treated in US Emergency Departments, 1990-2009.
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- Clinical Pediatrics, 2011, v. 50, n. 9, p. 844, doi. 10.1177/0009922811406262
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- Publication type:
- Article
Culturing of a complex gut microbial community in mucin-hydrogel carriers reveals strain- and gene-associated spatial organization.
- Published in:
- Nature Communications, 2023, v. 14, n. 1, p. 1, doi. 10.1038/s41467-023-39121-0
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- Publication type:
- Article
CellWalker integrates single-cell and bulk data to resolve regulatory elements across cell types in complex tissues.
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- Genome Biology, 2021, v. 22, n. 1, p. 1, doi. 10.1186/s13059-021-02279-1
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- Publication type:
- Article
CellWalker integrates single-cell and bulk data to resolve regulatory elements across cell types in complex tissues.
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- Genome Biology, 2021, p. 1, doi. 10.1186/s13059-021-02279-1
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- Publication type:
- Article
Profile Hidden Markov Models for the Detection of Viruses within Metagenomic Sequence Data.
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- PLoS ONE, 2014, v. 9, n. 8, p. 1, doi. 10.1371/journal.pone.0105067
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- Article
A Taxonomic Signature of Obesity in the Microbiome? Getting to the Guts of the Matter.
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- PLoS ONE, 2014, v. 9, n. 1, p. 1, doi. 10.1371/journal.pone.0084689
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- Article
From Genes to Milk: Genomic Organization and Epigenetic Regulation of the Mammary Transcriptome.
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- PLoS ONE, 2013, v. 8, n. 9, p. 1, doi. 10.1371/journal.pone.0075030
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- Article
Analysis of Human Accelerated DNA Regions Using Archaic Hominin Genomes.
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- PLoS ONE, 2012, v. 7, n. 3, p. 1, doi. 10.1371/journal.pone.0032877
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- Article
The Phylogenetic Diversity of Metagenomes.
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- PLoS ONE, 2011, v. 6, n. 8, p. 1, doi. 10.1371/journal.pone.0023214
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- Article
Genes Expressed in Specific Areas of the Human Fetal Cerebral Cortex Display Distinct Patterns of Evolution.
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- PLoS ONE, 2011, v. 6, n. 3, p. 1, doi. 10.1371/journal.pone.0017753
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- Article
Evaluation of Two Methods to Estimate and Monitor Bird Populations.
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- PLoS ONE, 2008, v. 3, n. 8, p. 1, doi. 10.1371/journal.pone.0003047
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- Article
A qualitative study on conveyance decision-making during emergency call outs to people with dementia: the HOMEWARD project.
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- 2020
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- Publication type:
- journal article
Systematic identification of non-canonical transcription factor motifs.
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- BMC Molecular & Cell Biology, 2021, v. 22, n. 1, p. 1, doi. 10.1186/s12860-021-00382-6
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- Publication type:
- Article
A genome-wide approach to identifying novel-imprinted genes.
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- Human Genetics, 2008, v. 122, n. 6, p. 625, doi. 10.1007/s00439-007-0440-1
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- Article
Preliminary piloting and validation of a questionnaire identifying basic clinical skills practised by research nurses.
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- British Journal of Nursing, 2019, v. 28, n. 3, p. 162, doi. 10.12968/bjon.2019.28.3.162
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- Article
Sustained mucosal colonization and fecal metabolic dysfunction by Bacteroides associates with fecal microbial transplant failure in ulcerative colitis patients.
- Published in:
- Scientific Reports, 2024, v. 14, n. 1, p. 1, doi. 10.1038/s41598-024-62463-8
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- Publication type:
- Article
Principles of meiotic chromosome assembly revealed in S. cerevisiae.
- Published in:
- Nature Communications, 2019, v. 10, n. 1, p. N.PAG, doi. 10.1038/s41467-019-12629-0
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- Article
How do they measure up? Differences in stakeholder perceptions of quality measures used in English community nursing.
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- Journal of Health Services Research & Policy, 2020, v. 25, n. 3, p. 142, doi. 10.1177/1355819619868506
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- Publication type:
- Article
Effect of an Educational Intervention on Medical Student Scripting and Patient Satisfaction: A Randomized Trial.
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- Western Journal of Emergency Medicine: Integrating Emergency Care with Population Health, 2018, v. 19, n. 3, p. 585, doi. 10.5811/westjem.2018.1.35992
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- Article
Transcriptional control in embryonic Drosophila midline guidance assessed through a whole genome approach.
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- BMC Neuroscience, 2007, v. 8, p. 59, doi. 10.1186/1471-2202-8-59
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- Publication type:
- Article
Coevolutionary analyses require phylogenetically deep alignments and better null models to accurately detect inter-protein contacts within and between species.
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- BMC Bioinformatics, 2015, v. 16, n. 1, p. 1, doi. 10.1186/s12859-015-0677-y
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- Publication type:
- Article
G-NEST: a gene neighborhood scoring tool to identify co-conserved, co-expressed genes.
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- BMC Bioinformatics, 2012, v. 13, n. 1, p. 1, doi. 10.1186/1471-2105-13-253
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- Publication type:
- Article
Sifting through genomes with iterative-sequence clustering produces a large, phylogenetically diverse protein-family resource.
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- BMC Bioinformatics, 2012, v. 13, n. 1, p. 264, doi. 10.1186/1471-2105-13-264
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- Publication type:
- Article
Developmental Loci Harbor Clusters of Accelerated Regions That Evolved Independently in Ape Lineages.
- Published in:
- Molecular Biology & Evolution, 2018, v. 35, n. 8, p. 2034, doi. 10.1093/molbev/msy109
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- Publication type:
- Article
Accelerated Evolution of Enhancer Hotspots in the Mammal Ancestor.
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- Molecular Biology & Evolution, 2016, v. 33, n. 4, p. 1008, doi. 10.1093/molbev/msv344
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- Publication type:
- Article
Genomic and Network Patterns of Schizophrenia Genetic Variation in Human Evolutionary Accelerated Regions.
- Published in:
- Molecular Biology & Evolution, 2015, v. 32, n. 5, p. 1148, doi. 10.1093/molbev/msv031
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- Article