Searching journal content for articles similar to Jourdain et al. 33 (6): 957.

Displaying results 1-10 of 6160
For checked items
  1. Method: ScisTree2 enables large-scale inference of cell lineage trees and genotype calling using efficient local search
    • Haotian Zhang,
    • Yiming Zhang,
    • Teng Gao,
    • and Yufeng Wu
    Genome Res. December 2025 35: 2781-2791; Published in Advance September 3, 2025, doi:10.1101/gr.280542.125
    ...of our knowledge, ScisTree2 is the first model-based cell lineage tree inference and genotype calling approach that is capable of handling data sets from tens of thousands of cells or more.An adult human body contains about 30 trillion cells that perform various functions. These cells are interconnected...
    OPEN ACCESS ARTICLE
  2. Method: High-fidelity, large-scale targeted profiling of microsatellites
    • Caitlin A. Loh,
    • Danielle A. Shields,
    • Adam Schwing,
    • and Gilad D. Evrony
    Genome Res. July 2024 34: 1008-1026; Published in Advance July 16, 2024, doi:10.1101/gr.278785.123
    ...and calculated the cost per thousand fully genotyped loci (Methods) (Supplemental Fig. S14A,B; Supplemental Note). When analyzing only the loci from our large-scale panel, our method was significantly more cost effective than WGS at all coverage levels necessary to achieve detection of Mendelian discordant loci...
  3. Method: Secure discovery of genetic relatives across large-scale and distributed genomic data sets
    • Matthew M. Hong,
    • David Froelicher,
    • Ricky Magner,
    • Victoria Popic,
    • Bonnie Berger,
    • and Hyunghoon Cho
    Genome Res. September 2024 34: 1312-1323; Published in Advance August 7, 2024, doi:10.1101/gr.279057.124
    ...-Relate on the UK Biobank and All of Us data sets. On a data set of 200,000 individuals split between two parties, SF-Relate detects 97% of third-degree or closer relatives within 15 h of runtime. Our work enables secure identification of relatives across large-scale genomic data sets.Collaborative studies that aim...
    OPEN ACCESS ARTICLE
  4. Method: High-resolution genotype-free mapping of genetic variation with CRI-SPA-Map
    • Sheila Lutz,
    • Megan Lawler,
    • Samuel Amidon,
    • and Frank W Albert
    Genome Res. March 23, 2026 gr.281514.125; Published in Advance March 23, 2026, doi:10.1101/gr.281514.125
    ...differences is costly and challenging. Here, we introduce CRI-15 SPA-Map, a genetic mapping strategy combining CRISPR-Cas9 engineering, selective 16 ploidy ablation (SPA), and high-throughput phenotyping for precise genetic mapping with or 17 without genotyping in the yeast Saccharomyces cerevisiae. In CRI...
    OPEN ACCESS ARTICLEACCEPTED MANUSCRIPT
  5. Mini-Review: Large-scale genomic analysis of the domestic dog informs biological discovery
    • Reuben M. Buckley and
    • Elaine A. Ostrander
    Genome Res. June 2024 34: 811-821; Published in Advance July 2, 2024, doi:10.1101/gr.278569.123
    ..., morphology, and disease susceptibility. We explore the limitations of current data sets for variant interpretation, tradeoffs between sequencing strategies, and the burgeoning role of long-read s for capturing structural variants. In addition, we consider how large-scale collections of whole- sequence data...
    OPEN ACCESS ARTICLE
  6. Research: Large-scale investigation of species-specific orphan genes in the human gut microbiome elucidates their evolutionary origins
    • Nikolaos Vakirlis and
    • Anne Kupczok
    Genome Res. June 2024 34: 888-903; Published in Advance July 8, 2024, doi:10.1101/gr.278977.124
    ...prediction. We build on these data, implementing further filtering steps to remove families with homology with other species, to identify putative SSOGs in the gut microbiome and to study them systematically. By looking for patterns in large-scale comparisons, we attempt to disentangle the evolutionary...
  7. Research: Genotype imputation from low-coverage data for medical and population genetic analyses
    • Simone Andrea Biagini,
    • Sara Becelaere,
    • Mio Aerden,
    • Tatjana Jatsenko,
    • Laurens Hannes,
    • Philip Van Damme,
    • Jeroen Breckpot,
    • Koenraad Devriendt,
    • Bernard Thienpont,
    • Joris Robert Vermeesch,
    • Isabelle Cleynen,
    • and Toomas Kivisild
    Genome Res. September 2025 35: 1929-1941; Published in Advance July 22, 2025, doi:10.1101/gr.280175.124
    ...data sets, we introduce a filtering approach called GDI that combines genotype probability (GP), alternate allele dosage (DS), and INFO score filters. We demonstrate that the imputation tools QUILT and GLIMPSE2 achieve similar accuracy, which is high enough for broad-scale ancestry mapping...
    OPEN ACCESS ARTICLE
  8. Research: Epigenetic characterization of pseudogenes across human tissues
    • Yunzhe Jiang,
    • Beatrice Borsari,
    • and Mark Gerstein
    Genome Res. April 15, 2026 gr.280768.125; Published in Advance April 15, 2026, doi:10.1101/gr.280768.125
    ...elements such as long noncoding RNAs (lncRNAs), microRNAs (miRNAs), and pseudogenes. More recently, the advent of high-throughput sequencing technologies, together with the development of multi-omic approaches, has enabled large-scale annotation and quantification of noncoding transcripts, particularly lnc...
    OPEN ACCESS ARTICLEACCEPTED MANUSCRIPT
  9. Method: Interpretable phenotype decoding from multicondition sequencing data with ALPINE
    • Wei-Hao Lee,
    • Lechuan Li,
    • Ruth Dannenfelser,
    • and Vicky Yao
    Genome Res. December 2025 35: 2756-2769; Published in Advance October 22, 2025, doi:10.1101/gr.280566.125
    ...strategy to improve computational efficiency and enhance model generalizability (Methods). This approach leverages subsets of cells to update the cell embedding matrix, reducing memory usage and mitigating overfitting. This strategy is particularly valuable when processing large-scale scRNA-seq data sets...
  10. 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
    ...://creativecommons.org/licenses/by-nc/4.0/.References ↵Abraham G, Qiu Y, Inouye M. 2017. FlashPCA2: principal component analysis of biobank-scale genotype data sets. Bioinformatics 33: 2776–2778. doi:10.1093/bioinformatics/btx299 ↵Agrawal A, Chiu AM, Le M, Halperin E, Sankararaman S. 2020. Scalable probabilistic PCA for large-scale...
For checked items

Search Results

Next 10 » New Search

Modify Results

Citation format:
Results / page:
Results order:

This search

  • Alert me when new articles matching this search are published
  • Download all citations on this page to my citation manager

Preprint Server



Current Issue

  1. April 2026, 36 (4)
  1. Current Issue
  1. Alert me to new issues of Genome Research