Searching journal content for articles similar to Raymond et al. 15 (9): 1250.

Displaying results 1-10 of 33

For checked items

view abstracts
download to citation manager

Select this article
Research: Unraveling the architecture of major histocompatibility complex class II haplotypes in rhesus macaques
- Nanine de Groot,
- Marit van der Wiel,
- Ngoc Giang Le,
- Natasja G. de Groot,
- Jesse Bruijnesteijn,
- and Ronald E. Bontrop
Genome Res. November 2024 34: 1811-1824; Published in Advance October 23, 2024, doi:10.1101/gr.278968.124
...is provided for all 21 resolved MHC class II haplotypes in Supplemental Table S1.The Mamu-DP regionThe human DP region encompasses two tandems of genes, namely, HLA-DPA1 and -DPB1, and -DPA2 and -DPB2 (Klein and Sato 2000). The latter tandem represents a set of pseudogenes that are characterized by several...
OPEN ACCESS ARTICLE
Select this article
Method: Full-resolution HLA and KIR gene annotations for human genome assemblies
- Ying Zhou,
- Li Song,
- and Heng Li
Genome Res. November 2024 34: 1931-1941; Published in Advance June 5, 2024, doi:10.1101/gr.278985.124
...calls have incomplete ORF (Supplemental Table S7).HLA DR haplotypesThe HLA class II region is highly structured (Klitz et al. 2003; Norman et al. 2017; Chin et al. 2023), which is commonly characterized by DR haplotype. Following earlier work (Houwaart et al. 2023), the HLA DR haplotype is defined...
Select this article
Resource: Assembly and analysis of 100 full MHC haplotypes from the Danish population
- Jacob M. Jensen,
- Palle Villesen,
- Rune M. Friborg,
- The Danish Pan-Genome Consortium,
- Thomas Mailund,
- Søren Besenbacher,
- and Mikkel H. Schierup
Genome Res. September 2017 27: 1597-1607; Published in Advance August 3, 2017, doi:10.1101/gr.218891.116
...assuming 73% and 27% of sites to be nonsynonymous and synonymous, respectively, calculated as the proportions in the reference pgf haplotype. The MHC classes and important genes, such as classical HLA genes, are marked above. Assembly and analysis of 100 MHC haplotypes Genome Research 1601 www..org almost...
OPEN ACCESS ARTICLE
Select this article
Method: Minimizing reference bias with an imputed personalized reference
- Kavya Vaddadi,
- Mao-Jan Lin,
- Sina Majidian,
- Taher Mun,
- and Ben Langmead
Genome Res. March 5, 2026 gr.280989.125; Published in Advance March 5, 2026, doi:10.1101/gr.280989.125
...et al. 2015), allele-specific effects (Van De Geijn et al. 2015; Degner et al. 2009; Rozowsky et al. 2011; Salavati et al. 2019), ancient DNA (Martiniano et al. 2020; Günther and Nettelblad 2019) or epigenomics (Groza et al. 2020). Pan alignment methods reduce bias by using a pan graph (Siren et al...
- Abstract
- Full Text (PDF)
OPEN ACCESS ARTICLEACCEPTED MANUSCRIPT
Select this article
Research: MHC in newts illuminates the evolutionary dynamics of complex regions in giant genomes
- Wiesław Babik,
- Katarzyna Dudek,
- Gemma Palomar,
- Marzena Marszałek,
- Grzegorz Dubin,
- Maximina H. Yun,
- and Magdalena Migalska
Genome Res. February 2026 36: 303-317; Published in Advance January 12, 2026, doi:10.1101/gr.281127.125
...to T cells: MHC class I (MHC-I, referred to as MHC-Ia) and MHC class II (MHC-II) (Murphy and Weaver 2016; Pishesha et al. 2022). Class I molecules are ubiquitously expressed and present cytosol-derived antigens to cytotoxic CD8+ T cells. In contrast, class II molecules are primarily expressed...
Select this article
Resource: Complete sequencing of a cynomolgus macaque major histocompatibility complex haplotype
- Julie A. Karl,
- Trent M. Prall,
- Hailey E. Bussan,
- Joshua M. Varghese,
- Aparna Pal,
- Roger W. Wiseman,
- and David H. O'Connor
Genome Res. March 2023 33: 448-462; Published in Advance February 28, 2023, doi:10.1101/gr.277429.122
...of human diseases. Although the macaque major histocompatibility complex (MHC) region shares most features with the human leukocyte antigen (HLA) region, macaques have an expanded repertoire of MHC class I genes. Although a chimera of two rhesus macaque MHC haplotypes was first published in 2004...
Select this article
Research: Pangenome analysis reveals families of ubiquitin-ligase adaptors as key genomic divergence drivers that lead to hybrid incompatibility
- Dongying Xie,
- Pohao Ye,
- Yiming Ma,
- and Zhongying Zhao
Genome Res. March 2026 36: 506-521; Published in Advance February 17, 2026, doi:10.1101/gr.280885.125
...prominence across diverse species (Sirén et al. 2021; Liao et al. 2023). By analyzing gene repertoires across populations within a species, pan studies capture the full spectrum of genetic diversity, often emphasizing unique haplotypes and sequence variations (Todesco et al. 2020; Sirén et al. 2021...
Select this article
Article: Meiotic recombination generates rich diversity in NK cell receptor genes, alleles, and haplotypes
- Paul J. Norman,
- Laurent Abi-Rached,
- Ketevan Gendzekhadze,
- John A. Hammond,
- Achim K. Moesta,
- Deepti Sharma,
- Thorsten Graef,
- Karina L. McQueen,
- Lisbeth A. Guethlein,
- Christine V.F. Carrington,
- Dasdayanee Chandanayingyong,
- Yih-Hsin Chang,
- Catalina Crespí,
- Güher Saruhan-Direskeneli,
- Kamran Hameed,
- Giorgi Kamkamidze,
- Kwadwo A. Koram,
- Zulay Layrisse,
- Nuria Matamoros,
- Joan Milà,
- Myoung Hee Park,
- Ramasamy M. Pitchappan,
- D. Dan Ramdath,
- Ming-Yuh Shiau,
- Henry A.F. Stephens,
- Siske Struik,
- Dolly Tyan,
- David H. Verity,
- Robert W. Vaughan,
- Ronald W. Davis,
- Patricia A. Fraser,
- Eleanor M. Riley,
- Mostafa Ronaghi,
- and Peter Parham
Genome Res. May 2009 19: 757-769; doi:10.1101/gr.085738.108
...by other cells. For primate NK cells, the killer-cell immunoglobulin-like receptors (KIR) are a variable and rapidly evolving family of MHC Class I receptors. Studied here is KIR3DL1/S1, which encodes receptors for highly polymorphic human HLA-A and -B and comprises three ancient allelic lineages that have...
Select this article
Research: Small polymorphisms are a source of ancestral bias in structural variant breakpoint placement
- Peter A. Audano and
- Christine R. Beck
Genome Res. January 2024 34: 7-19; Published in Advance January 4, 2024, doi:10.1101/gr.278203.123
...are subject to systematic bias affecting variant representation. To understand why SV breakpoints are inconsistent across samples, we reanalyzed 64 phased haplotypes constructed from long-read assemblies released by the Human Genome Structural Variation Consortium (HGSVC). We identify 882 SV insertions...
OPEN ACCESS ARTICLE
Select this article
Method: Direct detection of natural selection in Bronze Age Britain
- Iain Mathieson and
- Jonathan Terhorst
Genome Res. November/December 2022 32: 2057-2067; Published in Advance October 31, 2022, doi:10.1101/gr.276862.122
...identified by a previous allele frequency-based selection scan using aDNA to detect selection in West Eurasia over the past 8000 yr (Fig. 4D; Mathieson et al. 2015). Only LCT and the HLA region show significant evidence of selection in a haplotype-based scan using present-day sequence data that aimed...

For checked items

view abstracts
download to citation manager

Searching journal content for articles similar to Raymond et al. 15 (9): 1250.

Search Results

Modify Results

This search

Preprint Server

Current Issue

In This Issue

Citation format:
Results / page:
Results order: