The Vertebrate Genome Lab

Who are we?

The Vertebrate Genome lab

The Vertebrate Genome Lab (VGL) is a genomic-focused lab at the Rockefeller University. The main goal of the VGL is to serve as one the data production and assembly hubs for the Vertebrate Genomes Project (VGP). We specialize in long-read and long-range sequencing technologies. Our lab hosts several of the latest sequencing technologies as well as computing resources for genome assemblies. Our team is composed of field biologists, molecular biologists, and bioinformaticians encompassing all the required skills and talents for generating high-quality reference genomes.

Our projects

Our interests are in comparative genomics and conservation biology. In addition to the VGP, we are also involved in several projects that require high-quality reference genomes such as the Human Pangenome Project and the COVID-19 Host Genome Structural Variant Consortium.

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News

Our latest publications

"Merfin: improved variant filtering, assembly evaluation and polishing via k-mer validation". 2022 Nature Methods. https://doi.org/10.1038/s41592-022-01445-y

"Chasing perfection: validation and polishing strategies for telomere-to-telomere genome assemblies". 2022 Nature Methods. https://doi.org/10.1038/s41592-022-01440-3

"The complete sequence of a human genome". 2022 Science. https://www.science.org/doi/10.1126/science.abj6987

"Robust haplotype-resolved assembly of diploid individuals without parental data". 2022 Nature Biotechnology. https://doi.org/10.1038/s41587-022-01261-x

Check out our latest preprints

"Gfastats: conversion, evaluation and manipulation of genome sequences using assembly graphs". https://doi.org/10.1101/2022.03.24.485682

"Recombination suppression and selection affect local ancestries in genomes of a migratory songbird". https://doi.org/10.1101/2021.12.22.473882

"A haplotype-resolved genome assembly of the Nile rat facilitates exploration of the genetic basis of diabetes". https://doi.org/10.1101/2021.12.08.471837

"Pangenomics provides insights into the role of synanthropy in barn swallow evolution". https://doi.org/10.1101/2022.03.28.486082

"Differential sensory and immune gene evolution in sea turtles with contrasting demographic and life history". https://doi.org/10.1101/2022.01.10.475373

"Automated assembly of high-quality diploid human reference genomes". https://doi.org/10.1101/2022.03.06.483034

"Benchmarking ultra-high molecular weight DNA preservation methods for long-read and long-range sequencing". https://doi.org/10.1101/2021.07.13.451380

"Fanconi Anemia Pathway Deficiency Drives Copy Number Variation in Squamous Cell Carcinomas". https://doi.org/10.1101/2021.08.14.456365

The Vertebrate Genomes Project

Generating high-quality and chromosome-level reference genomes for all vertebrates.

The Vertebrate Genomes Project.

The Vertebrate Genomes Project (VGP) aims to create an open-access genome repository cataloging at least one high-quality, near-gapless, chromosome-level, phased, and annotated reference genome assembly for all ~70,000 vertebrate species.


Links

Check out our assemblies in genomeark