Searching journal content for articles similar to Collins et al. 11 (6): 1034.

Displaying results 1-10 of 107

For checked items

view abstracts
download to citation manager

Select this article
Perspective: Unraveling the hidden complexity of cancer through long-read sequencing
- Qiuhui Li,
- Ayse G. Keskus,
- Justin Wagner,
- Michal B. Izydorczyk,
- Winston Timp,
- Fritz J. Sedlazeck,
- Alison P. Klein,
- Justin M. Zook,
- Mikhail Kolmogorov,
- and Michael C. Schatz
Genome Res. April 2025 35: 599-620; Published in Advance March 20, 2025, doi:10.1101/gr.280041.124
...-Y with the CHM13 reference, along with population variation, clinical variants, and functional genomics data, has created a comprehensive reference for all 24 human chromosomes. The use of the T2T-CHM13 as a reference broadly improves our ability to detect variation in human s. Specifically, T2T-CHM13 improves...
OPEN ACCESS ARTICLE
Select this article
Review: Leveraging the power of long reads for targeted sequencing
- Shruti V. Iyer,
- Sara Goodwin,
- and William Richard McCombie
Genome Res. November 2024 34: 1701-1718; doi:10.1101/gr.279168.124
...reads long enough to span and resolve complex or repetitive regions of the . Several groups have shown the power of long reads in detecting thousands of genomic and epigenomic features that were previously missed by short-read sequencing approaches. While these studies demonstrate how long reads can...
OPEN ACCESS ARTICLE
Select this article
Method: Simultaneous assessment of human genome and methylome data in a single experiment using limited deamination of methylated cytosine
- Bo Yan,
- Duan Wang,
- and Laurence Ettwiller
Genome Res. June 2024 34: 904-913; Published in Advance June 10, 2024, doi:10.1101/gr.278294.123
...DNA extracted from frozen/tumor breast tissue. Finally, to ensure reproducibility and compatibility with DNA-seq, we performed technical replicates on the target captures and included a control DNA-seq using the same source of starting material, respectively.For WGS, ∼150 ng of NA12878 genomic DNA...
OPEN ACCESS ARTICLE
Select this article
Research: Comprehensive analysis of structural variants in breast cancer genomes using single-molecule sequencing
- Sergey Aganezov,
- Sara Goodwin,
- Rachel M. Sherman,
- Fritz J. Sedlazeck,
- Gayatri Arun,
- Sonam Bhatia,
- Isac Lee,
- Melanie Kirsche,
- Robert Wappel,
- Melissa Kramer,
- Karen Kostroff,
- David L. Spector,
- Winston Timp,
- W. Richard McCombie,
- and Michael C. Schatz
Genome Res. September 2020 30: 1258-1273; Published in Advance September 4, 2020, doi:10.1101/gr.260497.119
...Comprehensive analysis of structural variants in breast cancer s using single-molecule sequencing Sergey Aganezov1, Sara Goodwin2, Rachel M. Sherman1, Fritz J. Sedlazeck3, Gayatri Arun2, Sonam Bhatia2, Isac Lee4, Melanie Kirsche1, Robert Wappel2, Melissa Kramer2, Karen Kostroff5, David L. Spector2...
Select this article
Method: Integrating SNVs and CNAs on a phylogenetic tree from single-cell DNA sequencing data
- Liting Zhang,
- Hank W. Bass,
- Jerome Irianto,
- and Xian Mallory
Genome Res. November 2023 33: 2002-2017; Published in Advance November 22, 2023, doi:10.1101/gr.277249.122
..., Tallahassee, Florida 32306, USA Corresponding author: xfan2@fsu.eduAbstractSingle-cell DNA sequencing enables the construction of evolutionary trees that can reveal how tumors gain mutations and grow. Different whole- amplification procedures render genomic materials of different characteristics, often...
Select this article
Research: Genetic inhibitors of APOBEC3B-induced mutagenesis
- Tony M. Mertz,
- Elizabeth Rice-Reynolds,
- Ly Nguyen,
- Anna Wood,
- Cameron Cordero,
- Nicholas Bray,
- Victoria Harcy,
- Rudri K. Vyas,
- Debra Mitchell,
- Kirill Lobachev,
- and Steven A. Roberts
Genome Res. September 2023 33: 1568-1581; Published in Advance August 2, 2023, doi:10.1101/gr.277430.122
...) Position of germline mutations in BRCA1 and BRCA2 present in 560 breast cancers sequences as part of the International Cancer Genome Consortium. (B) Median estimated number of COSMIC SBS2, SBS13, and SBS2 + SBS13 mutations in breast cancers from BRCA-proficient and BRCA-mutant patients. (C) Replication...
OPEN ACCESS ARTICLE
Select this article
Research: Single-cell transcriptome and metagenome profiling reveals the genetic basis of rumen functions and convergent developmental patterns in ruminants
- Juan Deng,
- Ya-Jing Liu,
- Wen-Tian Wei,
- Qi-Xuan Huang,
- Li-Ping Zhao,
- Ling-Yun Luo,
- Qi Zhu,
- Lin Zhang,
- Yuan Chen,
- Yan-Ling Ren,
- Shan-Gang Jia,
- Yu-Luan Lin,
- Ji Yang,
- Feng-Hua Lv,
- Hong-Ping Zhang,
- Feng-E Li,
- Li Li,
- and Meng-Hua Li
Genome Res. October 2023 33: 1690-1707; Published in Advance October 26, 2023, doi:10.1101/gr.278239.123
...of about 308,000 cells from the rumen tissues of sheep and goats at 17 time points. We built comprehensive transcriptome and meta atlases from early embryonic to rumination stages, and recapitulated histomorphometric and transcriptional features of the rumen, revealing key transitional signatures...
OPEN ACCESS ARTICLE
Select this article
Method: Marker-free characterization of full-length transcriptomes of single live circulating tumor cells
- Sarita Poonia,
- Anurag Goel,
- Smriti Chawla,
- Namrata Bhattacharya,
- Priyadarshini Rai,
- Yi Fang Lee,
- Yoon Sim Yap,
- Jay West,
- Ali Asgar Bhagat,
- Juhi Tayal,
- Anurag Mehta,
- Gaurav Ahuja,
- Angshul Majumdar,
- Naveen Ramalingam,
- and Debarka Sengupta
Genome Res. January 2023 33: 80-95; Published in Advance November 22, 2022, doi:10.1101/gr.276600.122
...clinical outcomes (Ragnarsson et al. 1999; Bhosale et al. 2017). Previous studies have reported the presence of CTC-like genomic gains on Chromosome 19 at a low frequency in primary breast cancer (Kanwar et al. 2015). Furthermore, several studies have suggested that gains on Chromosome 19 may have a role...
Select this article
Research: Comprehensive analysis of indels in whole-genome microsatellite regions and microsatellite instability across 21 cancer types
- Akihiro Fujimoto,
- Masashi Fujita,
- Takanori Hasegawa,
- Jing Hao Wong,
- Kazuhiro Maejima,
- Aya Oku-Sasaki,
- Kaoru Nakano,
- Yuichi Shiraishi,
- Satoru Miyano,
- Go Yamamoto,
- Kiwamu Akagi,
- Seiya Imoto,
- and Hidewaki Nakagawa
Genome Res. March 2020 30: 334-346; Published in Advance March 24, 2020, doi:10.1101/gr.255026.119
...Comprehensive analysis of indels in whole- microsatellite regions and microsatellite instability across 21 cancer types Akihiro Fujimoto1,2,3, Masashi Fujita1, Takanori Hasegawa4, Jing Hao Wong2,3, Kazuhiro Maejima1, Aya Oku-Sasaki1, Kaoru Nakano1, Yuichi Shiraishi5,6, Satoru Miyano4,6, Go Yamamoto...
OPEN ACCESS ARTICLE
Select this article
Research: Systems consequences of amplicon formation in human breast cancer
- Koichiro Inaki,
- Francesca Menghi,
- Xing Yi Woo,
- Joel P. Wagner,
- Pierre-Étienne Jacques,
- Yi Fang Lee,
- Phung Trang Shreckengast,
- Wendy WeiJia Soon,
- Ankit Malhotra,
- Audrey S.M. Teo,
- Axel M. Hillmer,
- Alexis Jiaying Khng,
- Xiaoan Ruan,
- Swee Hoe Ong,
- Denis Bertrand,
- Niranjan Nagarajan,
- R. Krishna Murthy Karuturi,
- Alfredo Hidalgo Miranda,
- and Edison T. Liu
Genome Res. October 2014 24: 1559-1571; Published in Advance September 3, 2014, doi:10.1101/gr.164871.113
....3 amplicons while simultaneously deleting the intervening BRCA1 tumor suppressor locus. This series of events appeared to be unusually common when examined in larger genomic data sets of breast cancers albeit using approaches with lesser resolution. Using siRNAs in breast cancer cell lines, we showed...
OPEN ACCESS ARTICLE

For checked items

view abstracts
download to citation manager

Searching journal content for articles similar to Collins et al. 11 (6): 1034.

Search Results

Modify Results

This search

Preprint Server

Current Issue

In This Issue

Citation format:
Results / page:
Results order: