Searching journal content for articles similar to Chen et al. 12 (7): 1106.

Displaying results 1-10 of 676

For checked items

view abstracts
download to citation manager

Select this article
Mini-Review: Evolution of genome-wide methylation profiling technologies
- Carolina Montano and
- Winston Timp
Genome Res. April 2025 35: 572-582; doi:10.1101/gr.278407.123
..., Bruhm DC, Jensen SØ, Medina JE, Hruban C, White JR, et al. 2019. Genome-wide cell-free DNA fragmentation in patients with cancer. Nature 570: 385–389. doi:10.1038/s41586-019-1272-6 ↵De Coster W, Weissensteiner MH, Sedlazeck FJ. 2021. Towards population-scale long-read sequencing. Nat Rev Genet 22: 572...
OPEN ACCESS ARTICLE
Select this article
Resource: The ggRibo single-gene viewer reveals insights into translatome and other nucleotide-resolution omics data
- Hsin-Yen Larry Wu,
- Isaiah D. Kaufman,
- and Polly Yingshan Hsu
Genome Res. September 2025 35: 2130-2142; Published in Advance July 22, 2025, doi:10.1101/gr.280480.125
...with the DNA nucleotide and amino acid sequence tracks centered on the uORF (Fig. 4C). The Ribo-seq reads for this minimal uORF are predominantly mapped to the first two nucleotides, A (frame 0, red) and U (frame 1, blue) (Fig. 4C). This read distribution, which is uniquely associated with minimal u...
OPEN ACCESS ARTICLE
Select this article
Resource: Genome-wide identification of tandem repeats associated with splicing variation across 49 tissues in humans
- Kohei Hamanaka,
- Daisuke Yamauchi,
- Eriko Koshimizu,
- Kei Watase,
- Kaoru Mogushi,
- Kinya Ishikawa,
- Hidehiro Mizusawa,
- Naomi Tsuchida,
- Yuri Uchiyama,
- Atsushi Fujita,
- Kazuharu Misawa,
- Takeshi Mizuguchi,
- Satoko Miyatake,
- and Naomichi Matsumoto
Genome Res. March 2023 33: 435-447; Published in Advance March 27, 2023, doi:10.1101/gr.277335.122
...map spl-TRs in a -wide manner across tissues throughout the whole body by using the Genotype-Tissue expression (GTEx) v8 data set, a population-scale resource of whole- sequencing (WGS) and RNA sequencing (RNA-seq).ResultsGenome-wide identification of spl-TRs across 49 tissuesWe discovered cis spl...
Select this article
Research: Genome-wide evaluation of the effect of short tandem repeat variation on local DNA methylation
- Alejandro Martin-Trujillo,
- Paras Garg,
- Nihir Patel,
- Bharati Jadhav,
- and Andrew J. Sharp
Genome Res. February 2023 33: 184-196; Published in Advance December 28, 2022, doi:10.1101/gr.277057.122
...these questions, we first analyzed two independent data sets comprising PCR-free whole- sequencing (WGS) and -wide DNA methylation levels derived from whole-blood samples in 245 (discovery cohort) and 484 individuals (replication cohort). Using genotypes for 131,635 polymorphic STRs derived from WGS using Hip...
Select this article
Research: A novel quantitative trait locus implicates Msh3 in the propensity for genome-wide short tandem repeat expansions in mice
- Mikhail O. Maksimov,
- Cynthia Wu,
- David G. Ashbrook,
- Flavia Villani,
- Vincenza Colonna,
- Nima Mousavi,
- Nichole Ma,
- Lu Lu,
- Jonathan K. Pritchard,
- Alon Goren,
- Robert W. Williams,
- Abraham A. Palmer,
- and Melissa Gymrek
Genome Res. May 2023 33: 689-702; Published in Advance May 1, 2023, doi:10.1101/gr.277576.122
.... Corresponding author: mgymrek@ucsd.eduAbstractShort tandem repeats (STRs) are a class of rapidly mutating genetic elements typically characterized by repeated units of 1–6 bp. We leveraged whole- sequencing data for 152 recombinant inbred (RI) strains from the BXD family of mice to map loci that modulate -wide...
OPEN ACCESS ARTICLE
Select this article
Research: Genome-wide transcript and protein analysis highlights the role of protein homeostasis in the aging mouse heart
- Isabela Gerdes Gyuricza,
- Joel M. Chick,
- Gregory R. Keele,
- Andrew G. Deighan,
- Steven C. Munger,
- Ron Korstanje,
- Steven P. Gygi,
- and Gary A. Churchill
Genome Res. May 2022 32: 838-852; Published in Advance March 11, 2022, doi:10.1101/gr.275672.121
...-related change that occur across different genetic backgrounds and can associate heterogeneity in aging traits to genetic loci. We analyze transcriptome data from RNA sequencing (RNA-seq) and proteome data from mass spectrometry of heart tissues collected from healthy DO mice at ages 6, 12, and 18 mo. At 6 mo...
OPEN ACCESS ARTICLE
Select this article
Research: Genome-wide analysis of plant miRNA action clarifies levels of regulatory dynamics across developmental contexts
- Xiaoli Ma,
- Tom Denyer,
- Marie Javelle,
- Antje Feller,
- and Marja C.P. Timmermans
Genome Res. May 2021 31: 811-822; Published in Advance April 16, 2021, doi:10.1101/gr.270918.120
...(Supplemental Table S1). Although the miRNAs are broadly conserved across land plant evolution, the individual families themselves continue to diverge. The number of precursor genes per family varies relative to other plant species (Baldrich et al. 2018), and single-nucleotide polymorphisms at the level...
OPEN ACCESS ARTICLE
Select this article
Method: Reference-informed prediction of alternative splicing and splicing-altering mutations from sequences
- Chencheng Xu,
- Suying Bao,
- Ye Wang,
- Wenxing Li,
- Hao Chen,
- Yufeng Shen,
- Tao Jiang,
- and Chaolin Zhang
Genome Res. July 2024 34: 1052-1065; Published in Advance July 26, 2024, doi:10.1101/gr.279044.124
...of in silico mutations in each nucleotide position in the region on the two splice sites is shown in the heatmaps at the bottom. The nucleotide base in each position of the human gene sequence is indicated by “x.”Prediction of lineage-specific splicing changesGiven the imperfect accuracy of all compared...
OPEN ACCESS ARTICLE
Select this article
Research: Genome-wide analysis of differential RNA editing in epilepsy
- Prashant Kumar Srivastava,
- Marta Bagnati,
- Andree Delahaye-Duriez,
- Jeong-Hun Ko,
- Maxime Rotival,
- Sarah R. Langley,
- Kirill Shkura,
- Manuela Mazzuferi,
- Bénédicte Danis,
- Jonathan van Eyll,
- Patrik Foerch,
- Jacques Behmoaras,
- Rafal M. Kaminski,
- Enrico Petretto,
- and Michael R. Johnson
Genome Res. March 2017 27: 440-450; doi:10.1101/gr.210740.116
...the likelihood of identifying true RE events, we carried out -wide prediction of RE events using RNA sequencing data from all 200 mice hippocampi. After removal of known single nucleotide variants (SNVs) and using stringent filters for base (quality score > 25) and mapping quality (quality score > 20) (see...
OPEN ACCESS ARTICLE
Select this article
Research: A genome-wide long noncoding RNA CRISPRi screen identifies PRANCR as a novel regulator of epidermal homeostasis
- Pengfei Cai,
- Auke B.C. Otten,
- Binbin Cheng,
- Mitsuhiro A. Ishii,
- Wen Zhang,
- Beibei Huang,
- Kun Qu,
- and Bryan K. Sun
Genome Res. January 2020 30: 22-34; Published in Advance December 4, 2019, doi:10.1101/gr.251561.119
...of California–San Diego, La Jolla, California 92109, USA; 3CAS Center for Excellence in Molecular Cell Sciences, University of Science and Technology of China, Hefei, 230027, China ↵4 These authors contributed equally to this work. Corresponding authors: bryansun@ucsd.edu, qukun@ustc.edu.cnAbstractGenome-wide...

For checked items

view abstracts
download to citation manager

Searching journal content for articles similar to Chen et al. 12 (7): 1106.

Search Results

Modify Results

This search

Preprint Server

Current Issue

In This Issue

Citation format:
Results / page:
Results order: