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| 36630290 | The first gapless, reference-quality, fully annotated genome from a Southern Han Chinese individual. | G3 (Bethesda) | 2023 |
| 38014212 | A Genome Sequence for the Threatened Whitebark Pine. | bioRxiv | 2023 |
| 37904256 | CHESS 3: an improved, comprehensive catalog of human genes and transcripts based on large-scale expression data, phylogenetic analysis, and protein structure. | Genome Biol | 2023 |
| 37577699 | Major data analysis errors invalidate cancer microbiome findings. | bioRxiv | 2023 |
| 37612512 | The complete sequence of a human Y chromosome. | Nature | 2023 |
| 36630290 | The first gapless, reference-quality, fully annotated genome from a Southern Han Chinese individual. | G3 (Bethesda) | 2023 |
| 37000853 | JASPER: A fast genome polishing tool that improves accuracy of genome assemblies. | PLoS Comput Biol | 2023 |
| 36993373 | Investigating Open Reading Frames in Known and Novel Transcripts using ORFanage. | bioRxiv | 2023 |
| 37503064 | Detecting differential transcript usage in complex diseases with SPIT. | bioRxiv | 2023 |
| 37546880 | Splam: a deep-learning-based splice site predictor that improves spliced alignments. | bioRxiv | 2023 |
| 38014212 | A Genome Sequence for the Threatened Whitebark Pine. | bioRxiv | 2023 |
| 37904256 | CHESS 3: an improved, comprehensive catalog of human genes and transcripts based on large-scale expression data, phylogenetic analysis, and protein structure. | Genome Biol | 2023 |
| 37612512 | The complete sequence of a human Y chromosome. | Nature | 2023 |
| 37546880 | Splam: a deep-learning-based splice site predictor that improves spliced alignments. | bioRxiv | 2023 |
| 37577699 | Major data analysis errors invalidate cancer microbiome findings. | bioRxiv | 2023 |
| 37503064 | Detecting differential transcript usage in complex diseases with SPIT. | bioRxiv | 2023 |
| 36993373 | Investigating Open Reading Frames in Known and Novel Transcripts using ORFanage. | bioRxiv | 2023 |
| 37000853 | JASPER: A fast genome polishing tool that improves accuracy of genome assemblies. | PLoS Comput Biol | 2023 |
| 34800071 | Genome-wide association identifies candidate genes for drought tolerance in coast redwood and giant sequoia. | Plant J | 2022 |
| 36171387 | Metagenome analysis using the Kraken software suite. | Nat Protoc | 2022 |
| 35440538 | High-quality genome and methylomes illustrate features underlying evolutionary success of oaks. | Nat Commun | 2022 |
| 36069879 | The Human "Contaminome" and Understanding Infectious Disease. | N Engl J Med | 2022 |
| 35362479 | Next-generation sequencing: insights to advance clinical investigations of the microbiome. | J Clin Invest | 2022 |
| 36448847 | 3D-Beacons: decreasing the gap between protein sequences and structures through a federated network of protein structure data resources. | Gigascience | 2022 |
| 37602140 | Metagenomic classification with KrakenUniq on low-memory computers. | J Open Source Softw | 2022 |
| 36519529 | Structure-guided isoform identification for the human transcriptome. | Elife | 2022 |
| 34800071 | Genome-wide association identifies candidate genes for drought tolerance in coast redwood and giant sequoia. | Plant J | 2022 |
| 34734986 | PhyloCSF++: a fast and user-friendly implementation of PhyloCSF with annotation tools. | Bioinformatics | 2022 |
| 34897437 | A reference-quality, fully annotated genome from a Puerto Rican individual. | Genetics | 2022 |
| 35120119 | The SAMBA tool uses long reads to improve the contiguity of genome assemblies. | PLoS Comput Biol | 2022 |
| 35100403 | Assembled and annotated 26.5 Gbp coast redwood genome: a resource for estimating evolutionary adaptive potential and investigating hexaploid origin. | G3 (Bethesda) | 2022 |
| 37602140 | Metagenomic classification with KrakenUniq on low-memory computers. | J Open Source Softw | 2022 |
| 35440538 | High-quality genome and methylomes illustrate features underlying evolutionary success of oaks. | Nat Commun | 2022 |
| 35362479 | Next-generation sequencing: insights to advance clinical investigations of the microbiome. | J Clin Invest | 2022 |
| 36448847 | 3D-Beacons: decreasing the gap between protein sequences and structures through a federated network of protein structure data resources. | Gigascience | 2022 |
| 36519529 | Structure-guided isoform identification for the human transcriptome. | Elife | 2022 |
| 36069879 | The Human "Contaminome" and Understanding Infectious Disease. | N Engl J Med | 2022 |
| 36171387 | Metagenome analysis using the Kraken software suite. | Nat Protoc | 2022 |
| 35100403 | Assembled and annotated 26.5 Gbp coast redwood genome: a resource for estimating evolutionary adaptive potential and investigating hexaploid origin. | G3 (Bethesda) | 2022 |
| 35120119 | The SAMBA tool uses long reads to improve the contiguity of genome assemblies. | PLoS Comput Biol | 2022 |
| 34897437 | A reference-quality, fully annotated genome from a Puerto Rican individual. | Genetics | 2022 |
| 34734986 | PhyloCSF++: a fast and user-friendly implementation of PhyloCSF with annotation tools. | Bioinformatics | 2022 |
| 33320174 | Liftoff: accurate mapping of gene annotations. | Bioinformatics | 2021 |
| 36303747 | Releasing the Kraken. | Front Bioinform | 2021 |
| 36212901 | Identification of microbial agents in tissue specimens of ocular and periocular sarcoidosis using a metagenomics approach. | F1000Res | 2021 |
| 33635857 | Balrog: A universal protein model for prokaryotic gene prediction. | PLoS Comput Biol | 2021 |
| 33477542 | Dissecting the Polygenic Basis of Cold Adaptation Using Genome-Wide Association of Traits and Environmental Data in Douglas-fir. | Genes (Basel) | 2021 |
| 33983397 | Rapid detection of inter-clade recombination in SARS-CoV-2 with Bolotie. | Genetics | 2021 |
| 33547152 | Guillain-Barré Syndrome Outbreak in Peru 2019 Associated With Campylobacter jejuni Infection. | Neurol Neuroimmunol Neuroinflamm | 2021 |
| 33320174 | Liftoff: accurate mapping of gene annotations. | Bioinformatics | 2021 |