Paleoproteomics

C Warinner, K Korzow Richter, MJ Collins - Chemical reviews, 2022 - ACS Publications
Paleoproteomics, the study of ancient proteins, is a rapidly growing field at the intersection of
molecular biology, paleontology, archaeology, paleoecology, and history. Paleoproteomics …

[HTML][HTML] The need for a human pangenome reference sequence

KH Miga, T Wang - Annual Review of Genomics and Human …, 2021 - annualreviews.org
The reference human genome sequence is inarguably the most important and widely used
resource in the fields of human genetics and genomics. It has transformed the conduct of …

[HTML][HTML] Towards complete and error-free genome assemblies of all vertebrate species

A Rhie, SA McCarthy, O Fedrigo, J Damas, G Formenti… - Nature, 2021 - nature.com
High-quality and complete reference genome assemblies are fundamental for the
application of genomics to biology, disease, and biodiversity conservation. However, such …

[HTML][HTML] Dense sampling of bird diversity increases power of comparative genomics

S Feng, J Stiller, Y Deng, J Armstrong, QI Fang… - Nature, 2020 - nature.com
Whole-genome sequencing projects are increasingly populating the tree of life and
characterizing biodiversity,,–. Sparse taxon sampling has previously been proposed to …

BlobToolKit–interactive quality assessment of genome assemblies

R Challis, E Richards, J Rajan… - G3: Genes …, 2020 - academic.oup.com
Reconstruction of target genomes from sequence data produced by instruments that are
agnostic as to the species-of-origin may be confounded by contaminant DNA. Whether …

3D genomics across the tree of life reveals condensin II as a determinant of architecture type

C Hoencamp, O Dudchenko, AMO Elbatsh… - Science, 2021 - science.org
We investigated genome folding across the eukaryotic tree of life. We find two types of three-
dimensional (3D) genome architectures at the chromosome scale. Each type appears and …

The Ensembl gene annotation system

BL Aken, S Ayling, D Barrell, L Clarke, V Curwen… - Database, 2016 - academic.oup.com
The Ensembl gene annotation system has been used to annotate over 70 different
vertebrate species across a wide range of genome projects. Furthermore, it generates the …

Chromosome-scale shotgun assembly using an in vitro method for long-range linkage

NH Putnam, BL O'Connell, JC Stites, BJ Rice… - Genome …, 2016 - genome.cshlp.org
Long-range and highly accurate de novo assembly from short-read data is one of the most
pressing challenges in genomics. Recently, it has been shown that read pairs generated by …

Efficient de novo assembly of highly heterozygous genomes from whole-genome shotgun short reads

R Kajitani, K Toshimoto, H Noguchi, A Toyoda… - Genome …, 2014 - genome.cshlp.org
Although many de novo genome assembly projects have recently been conducted using
high-throughput sequencers, assembling highly heterozygous diploid genomes is a …

Primer3—new capabilities and interfaces

A Untergasser, I Cutcutache, T Koressaar… - Nucleic acids …, 2012 - academic.oup.com
Polymerase chain reaction (PCR) is a basic molecular biology technique with a multiplicity
of uses, including deoxyribonucleic acid cloning and sequencing, functional analysis of …