Author

Lisa K. Johnson

University of California, DavisORCID 0000-0002-3600-7218Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

Click to filter author papers

Bioinformatics· 2 Genomics· 1

Signature Assays, Organisms & Methods

Click to filter · or open tag

Assay:bulk RNA-seq· 2 Approach:statistical model· 2 Research Focus:benchmarking· 1 Research Focus:database / resource· 1 Approach:experimental assay· 1 Research Focus:genome assembly· 1 Research Focus:software / tool· 1 Assay:whole-genome sequencing· 1

Frequent Co-Authors

C. Titus BrowniD· 2 shared Andrew WhiteheadiD· 1 shared Charlotte SonesoniD· 1 shared Harriet AlexanderiD· 1 shared James Anthony Gill· 1 shared Jennifer L. Roach· 1 shared Lori A. ShepherdiD· 1 shared Lutz Froenicke· 1 shared

Activity by Year

2018-2020 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 17 mutual co-author links

Click any collaborator node to inspect or filter shared papers

Focal author (center)Selected co-authorORCID co-authorUnlinked name

Curved chords = mutual co-authorship

2 shared papersGenomics

C. Titus BrownORCID

Mutual co-authors in cluster

Author profile →

3 papers

Recent·Most cited

GenomicsGigaSciencePeer-reviewedJun 1, 2020

Draft genome assemblies using sequencing reads from Oxford Nanopore Technology and Illumina platforms for four species of North American killifish from the Fundulus genus

Lisa K. Johnson, Ruta Madhusudan Sahasrabudhe, James Anthony Gill…·Andrew Whitehead

The paper presents draft genome assemblies for four Fundulus killifish species using Illumina and Oxford Nanopore sequencing data, with contig N50 values ranging from 0.4 Mb to 2.7 Mb and BUSCO scores above 90%.

17 citations

whole-genome sequencingexperimental assay

BioinformaticsPLoS Computational BiologyPeer-reviewedFeb 25, 2020

Tximeta: reference sequence checksums for provenance identification in RNA-seq

Michael I. Love, Charlotte Soneson, Peter F. Hickey…·Rob Patro

Tximeta automatically identifies reference transcriptomes and gathers metadata for RNA-seq analysis using checksums, improving reproducibility and reducing errors.

358 citationstop 1%

bulk RNA-seqstatistical model

BioinformaticsGigaSciencePeer-reviewedDec 12, 2018

Re-assembly, quality evaluation, and annotation of 678 microbial eukaryotic reference transcriptomes

Lisa K. Johnson, Harriet Alexander, C. Titus Brown

The paper re-assembles and annotates 678 microbial eukaryotic transcriptomes using new tools and compares them to previous assemblies, finding novel gene content and taxon-specific trends.

94 citations

bulk RNA-seqstatistical model