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 …

Single-molecule optical genome mapping in nanochannels: multidisciplinarity at the nanoscale

J Jeffet, S Margalit, Y Michaeli… - Essays in …, 2021 - portlandpress.com
The human genome contains multiple layers of information that extend beyond the genetic
sequence. In fact, identical genetics do not necessarily yield identical phenotypes as evident …

[PDF][PDF] De novo assembly of 20 chicken genomes reveals the undetectable phenomenon for thousands of core genes on microchromosomes and subtelomeric regions

M Li, C Sun, N Xu, P Bian, X Tian… - Molecular biology …, 2022 - academic.oup.com
The gene numbers and evolutionary rates of birds were assumed to be much lower than
those of mammals, which is in sharp contrast to the huge species number and …

Whole-genome sequencing of 1,171 elderly admixed individuals from Brazil

MS Naslavsky, MO Scliar, GL Yamamoto… - Nature …, 2022 - nature.com
As whole-genome sequencing (WGS) becomes the gold standard tool for studying
population genomics and medical applications, data on diverse non-European and admixed …

Novel functional sequences uncovered through a bovine multiassembly graph

D Crysnanto, AS Leonard, ZH Fang… - Proceedings of the …, 2021 - National Acad Sciences
Many genomic analyses start by aligning sequencing reads to a linear reference genome.
However, linear reference genomes are imperfect, lacking millions of bases of unknown …

Expanding the Russian allele frequency reference via cross-laboratory data integration: insights from 7452 exome samples

YA Barbitoff, DN Khmelkova… - National Science …, 2024 - academic.oup.com
Population allele frequency is crucially important for accurate interpretation of known and
novel variants in medical genetics. Recently, several large allele frequency databases, such …

Pangenome graphs and their applications in biodiversity genomics

S Secomandi, GR Gallo, R Rossi… - Nature Genetics, 2025 - nature.com
Complete datasets of genetic variants are key to biodiversity genomic studies. Long-read
sequencing technologies allow the routine assembly of highly contiguous, haplotype …

Human pangenome analysis of sequences missing from the reference genome reveals their widespread evolutionary, phenotypic, and functional roles

Z Wu, T Li, Z Jiang, J Zheng, Y Gu, Y Liu… - Nucleic Acids …, 2024 - academic.oup.com
Nonreference sequences (NRSs) are DNA sequences present in global populations but
absent in the current human reference genome. However, the extent and functional …

Going beyond the means: Exploring the role of bias from digital determinants of health in technologies

ML Charpignon, A Carrel, Y Jiang, T Kwaga… - PLOS Digital …, 2023 - journals.plos.org
Background In light of recent retrospective studies revealing evidence of disparities in
access to medical technology and of bias in measurements, this narrative review assesses …

Human Placental Trophoblasts Infected by Listeria monocytogenes Undergo a Pro-Inflammatory Switch Associated With Poor Pregnancy Outcomes

LJ Johnson, S Azari, A Webb, X Zhang… - Frontiers in …, 2021 - frontiersin.org
The placenta controls the growth of the fetus and ensures its immune protection. Key to
these functions, the syncytiotrophoblast (SYN) is a syncytium formed by fusion of underlying …