Searching journal content for articles similar to Bansal et al. 17 (2): 000.

Displaying results 1-10 of 92

For checked items

view abstracts
download to citation manager

Select this article
Research: Genetic effects on chromatin accessibility uncover mechanisms of liver gene regulation and quantitative traits
- Kevin W. Currin,
- Hannah J. Perrin,
- Gautam K. Pandey,
- Abdalla A. Alkhawaja,
- Swarooparani Vadlamudi,
- Annie E. Musser,
- Amy S. Etheridge,
- K. Alaine Broadaway,
- Jonathan D. Rosen,
- Arushi Varshney,
- Amarjit S. Chaudhry,
- Paul J. Gallins,
- Fred A. Wright,
- Yi-hui Zhou,
- Stephen C.J. Parker,
- Laura M. Raffield,
- Erin G. Schuetz,
- Federico Innocenti,
- and Karen L. Mohlke
Genome Res. July 2025 35: 1485-1502; Published in Advance May 20, 2025, doi:10.1101/gr.279741.124
.... We used this expanded set of caQTLs to identify coordinated regulatory elements that share the same genetic signal and to investigate their driver elements. Finally, we integrated caQTLs with external genomic data sets and functional assays to predict and validate mechanisms at GWAS signals...
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
...system for describing genetic alterations across populations (International HapMap et al. 2007; Sudmant et al. 2015; The 1000 Genomes Project Consortium 2015; Audano et al. 2019; Abel et al. 2020; Collins et al. 2020; Karczewski et al. 2020; Beyter et al. 2021; Ebert et al. 2021) and diseases (Turner et...
OPEN ACCESS ARTICLE
Select this article
Method: Proxy panels enable privacy-aware outsourcing of genotype imputation
- Degui Zhi,
- Xiaoqian Jiang,
- and Arif Harmanci
Genome Res. February 2025 35: 326-339; Published in Advance January 10, 2025, doi:10.1101/gr.278934.124
...such as The HapMap Consortium (International HapMap Consortium 2005; Locke et al. 2006), The 1000 Genomes Project (The 1000 Genomes Project Consortium 2015), and the population-scale projects such as UK Biobank, Genomics England, Trans-omics for Precision Medicine (TOPMed) (Kowalski et al. 2019), and All of Us...
OPEN ACCESS ARTICLE
Select this article
Resource: High-coverage nanopore sequencing of samples from the 1000 Genomes Project to build a comprehensive catalog of human genetic variation
- Jonas A. Gustafson,
- Sophia B. Gibson,
- Nikhita Damaraju,
- Miranda P.G. Zalusky,
- Kendra Hoekzema,
- David Twesigomwe,
- Lei Yang,
- Anthony A. Snead,
- Phillip A. Richmond,
- Wouter De Coster,
- Nathan D. Olson,
- Andrea Guarracino,
- Qiuhui Li,
- Angela L. Miller,
- Joy Goffena,
- Zachary B. Anderson,
- Sophie H.R. Storz,
- Sydney A. Ward,
- Maisha Sinha,
- Claudia Gonzaga-Jauregui,
- Wayne E. Clarke,
- Anna O. Basile,
- André Corvelo,
- Catherine Reeves,
- Adrienne Helland,
- Rajeeva Lochan Musunuri,
- Mahler Revsine,
- Karynne E. Patterson,
- Cate R. Paschal,
- Christina Zakarian,
- Sara Goodwin,
- Tanner D. Jensen,
- Esther Robb,
- The 1000 Genomes ONT Sequencing Consortium,
- University of Washington Center for Rare Disease Research (UW-CRDR),
- Genomics Research to Elucidate the Genetics of Rare Diseases (GREGoR) Consortium,
- William Richard McCombie,
- Fritz J. Sedlazeck,
- Justin M. Zook,
- Stephen B. Montgomery,
- Erik Garrison,
- Mikhail Kolmogorov,
- Michael C. Schatz,
- Richard N. McLaughlin, Jr.,
- Harriet Dashnow,
- Michael C. Zody,
- Matt Loose,
- Miten Jain,
- Evan E. Eichler,
- and Danny E. Miller
Genome Res. November 2024 34: 2061-2073; Published in Advance October 2, 2024, doi:10.1101/gr.279273.124
...sequencing-based map of normal patterns of human genetic variation for filtering and prioritizing candidate disease-causing variants (International HapMap Consortium 2005; The 1000 Genomes Project Consortium 2015; Byrska-Bishop et al. 2022). The impact of 1KGP on our understanding of human genetic diversity...
OPEN ACCESS ARTICLE
Select this article
Method: Phased nanopore assembly with Shasta and modular graph phasing with GFAse
- Ryan Lorig-Roach,
- Melissa Meredith,
- Jean Monlong,
- Miten Jain,
- Hugh E. Olsen,
- Brandy McNulty,
- David Porubsky,
- Tessa G. Montague,
- Julian K. Lucas,
- Chris Condon,
- Jordan M. Eizenga,
- Sissel Juul,
- Sean K. McKenzie,
- Sara E. Simmonds,
- Jimin Park,
- Mobin Asri,
- Sergey Koren,
- Evan E. Eichler,
- Richard Axel,
- Bruce Martin,
- Paolo Carnevali,
- Karen H. Miga,
- and Benedict Paten
Genome Res. March 2024 34: 454-468; Published in Advance April 16, 2024, doi:10.1101/gr.278268.123
...9,10, Richard Axel4,5, Bruce Martin7, Paolo Carnevali7, Karen H. Miga1 and Benedict Paten1 1UC Santa Cruz Genomics Institute, University of California, Santa Cruz, Santa Cruz, California 95060, USA; 2Department of Bioengineering, Department of Physics, Northeastern University, Boston, Massachusetts...
Select this article
Method: Fast and accurate out-of-core PCA framework for large scale biobank data
- Zilong Li,
- Jonas Meisner,
- and Anders Albrechtsen
Genome Res. September 2023 33: 1599-1608; Published in Advance August 24, 2023, doi:10.1101/gr.277525.122
...-scale genetic variation data. PLoS Genet 16: e1008773. doi:10.1371/journal.pgen.1008773 ↵Bansal V, Bashir A, Bafna V. 2007. Evidence for large inversion polymorphisms in the human from HapMap data. Genome Res 17: 219–230. doi:10.1101/gr.5774507 ↵Beleza S, Santos AM, McEvoy B, Alves I, Martinho C, Cameron E...
Select this article
Research: Large haplotypes highlight a complex age structure within the maize pan-genome
- Jianing Liu and
- R. Kelly Dawe
Genome Res. March 2023 33: 359-370; Published in Advance February 28, 2023, doi:10.1101/gr.276705.122
...447955), TIL10 (SRA; SRR447825–SRR447826), TIL11 (SRA; SRR5976511), TIL12 (SRA; SRR447997), TIL14 (SRA; SRR447780–SRR447782), TIL15 (SRA; SRR447859–SRR447860), and TIL17 (SRA;SRR447896–SRR447898), were from HapMap II SRA accession number SRP011907. Paired-end reads of two mexicana lines, TIL08 (SRA; SRR...
Select this article
Resource: Long-read assembly and comparative evidence-based reanalysis of Cryptosporidium genome sequences reveal expanded transporter repertoire and duplication of entire chromosome ends including subtelomeric regions
- Rodrigo P. Baptista,
- Yiran Li,
- Adam Sateriale,
- Mandy J. Sanders,
- Karen L. Brooks,
- Alan Tracey,
- Brendan R.E. Ansell,
- Aaron R. Jex,
- Garrett W. Cooper,
- Ethan D. Smith,
- Rui Xiao,
- Jennifer E. Dumaine,
- Peter Georgeson,
- Bernard J. Pope,
- Matthew Berriman,
- Boris Striepen,
- James A. Cotton,
- and Jessica C. Kissinger
Genome Res. January 2022 32: 203-213; Published in Advance November 11, 2021, doi:10.1101/gr.275325.121
...share the Chr 4 and Chr 5 inversions. Examination of the inverted region boundaries in CpIRef revealed regions of ambiguous nucleotide bases or physical gaps (Fig. 1A). To further investigate, PCR primers were designed to test each possible inversion arrangement in genomic DNA from C. parvum KSU-1...
OPEN ACCESS ARTICLE
Select this article
Research: Conserved noncoding sequences provide insights into regulatory sequence and loss of gene expression in maize
- Baoxing Song,
- Edward S. Buckler,
- Hai Wang,
- Yaoyao Wu,
- Evan Rees,
- Elizabeth A. Kellogg,
- Daniel J. Gates,
- Merritt Khaipho-Burch,
- Peter J. Bradbury,
- Jeffrey Ross-Ibarra,
- Matthew B. Hufford,
- and M. Cinta Romay
Genome Res. July 2021 31: 1245-1257; Published in Advance May 27, 2021, doi:10.1101/gr.266528.120
...-value) with the expression of its target gene. The pan-And-CNS regions harbored a larger proportion of maize HapMap3 variants (Bukowski et al. 2018) with low minor allele frequency (MAF) when compared to intergenic regions (Fig. 5A). This result suggests that variants in the CNS regions are under stronger purifying...
Select this article
Resource: Inversion variants in human and primate genomes
- Claudia Rita Catacchio,
- Flavia Angela Maria Maggiolini,
- Pietro D'Addabbo,
- Miriana Bitonto,
- Oronzo Capozzi,
- Martina Lepore Signorile,
- Mattia Miroballo,
- Nicoletta Archidiacono,
- Evan E. Eichler,
- Mario Ventura,
- and Francesca Antonacci
Genome Res. May 18, 2018 ; Published in Advance May 18, 2018, doi:10.1101/gr.234831.118
...). These correspond to the large known inversions shown by the green arrows in the chromosome ideograms in Figure 1A and Supplemental Figure S1 and that were also reidentified in the current study. Then,we tested 30 inversions using fluorescence in situ hybridization (FISH) in multiple human HapMap cell lines...

For checked items

view abstracts
download to citation manager

Searching journal content for articles similar to Bansal et al. 17 (2): 000.

Search Results

Modify Results

This search

Preprint Server

Current Issue

In This Issue

Citation format:
Results / page:
Results order: