176 related articles for article (PubMed ID: 36040167)
1. Tangent normalization for somatic copy-number inference in cancer genome analysis.
Gao GF; Oh C; Saksena G; Deng D; Westlake LC; Hill BA; Reich M; Schumacher SE; Berger AC; Carter SL; Cherniack AD; Meyerson M; Tabak B; Beroukhim R; Getz G
Bioinformatics; 2022 Oct; 38(20):4677-4686. PubMed ID: 36040167
[TBL] [Abstract][Full Text] [Related]
2. Accurity: accurate tumor purity and ploidy inference from tumor-normal WGS data by jointly modelling somatic copy number alterations and heterozygous germline single-nucleotide-variants.
Luo Z; Fan X; Su Y; Huang YS
Bioinformatics; 2018 Jun; 34(12):2004-2011. PubMed ID: 29385401
[TBL] [Abstract][Full Text] [Related]
3. Sequenza: allele-specific copy number and mutation profiles from tumor sequencing data.
Favero F; Joshi T; Marquard AM; Birkbak NJ; Krzystanek M; Li Q; Szallasi Z; Eklund AC
Ann Oncol; 2015 Jan; 26(1):64-70. PubMed ID: 25319062
[TBL] [Abstract][Full Text] [Related]
4. SAAS-CNV: A Joint Segmentation Approach on Aggregated and Allele Specific Signals for the Identification of Somatic Copy Number Alterations with Next-Generation Sequencing Data.
Zhang Z; Hao K
PLoS Comput Biol; 2015 Nov; 11(11):e1004618. PubMed ID: 26583378
[TBL] [Abstract][Full Text] [Related]
5. DEFOR: depth- and frequency-based somatic copy number alteration detector.
Zhang H; Zhan X; Brugarolas J; Xie Y
Bioinformatics; 2019 Oct; 35(19):3824-3825. PubMed ID: 30860569
[TBL] [Abstract][Full Text] [Related]
6. Joint detection of germline and somatic copy number events in matched tumor-normal sample pairs.
Liu Y; Liu J; Wang Y
Bioinformatics; 2019 Dec; 35(23):4955-4961. PubMed ID: 31125057
[TBL] [Abstract][Full Text] [Related]
7. An evaluation of copy number variation detection tools for cancer using whole exome sequencing data.
Zare F; Dow M; Monteleone N; Hosny A; Nabavi S
BMC Bioinformatics; 2017 May; 18(1):286. PubMed ID: 28569140
[TBL] [Abstract][Full Text] [Related]
8. Evaluation of somatic copy number estimation tools for whole-exome sequencing data.
Nam JY; Kim NK; Kim SC; Joung JG; Xi R; Lee S; Park PJ; Park WY
Brief Bioinform; 2016 Mar; 17(2):185-92. PubMed ID: 26210357
[TBL] [Abstract][Full Text] [Related]
9. Using SAAS-CNV to Detect and Characterize Somatic Copy Number Alterations in Cancer Genomes from Next Generation Sequencing and SNP Array Data.
Zhang Z; Hao K
Methods Mol Biol; 2018; 1833():29-47. PubMed ID: 30039361
[TBL] [Abstract][Full Text] [Related]
10. AbsCN-seq: a statistical method to estimate tumor purity, ploidy and absolute copy numbers from next-generation sequencing data.
Bao L; Pu M; Messer K
Bioinformatics; 2014 Apr; 30(8):1056-1063. PubMed ID: 24389661
[TBL] [Abstract][Full Text] [Related]
11. WaveCNV: allele-specific copy number alterations in primary tumors and xenograft models from next-generation sequencing.
Holt C; Losic B; Pai D; Zhao Z; Trinh Q; Syam S; Arshadi N; Jang GH; Ali J; Beck T; McPherson J; Muthuswamy LB
Bioinformatics; 2014 Mar; 30(6):768-74. PubMed ID: 24192544
[TBL] [Abstract][Full Text] [Related]
12. Integrative DNA copy number detection and genotyping from sequencing and array-based platforms.
Zhou Z; Wang W; Wang LS; Zhang NR
Bioinformatics; 2018 Jul; 34(14):2349-2355. PubMed ID: 29992253
[TBL] [Abstract][Full Text] [Related]
13. Integrative pipeline for profiling DNA copy number and inferring tumor phylogeny.
Urrutia E; Chen H; Zhou Z; Zhang NR; Jiang Y
Bioinformatics; 2018 Jun; 34(12):2126-2128. PubMed ID: 29415173
[TBL] [Abstract][Full Text] [Related]
14. SCONCE: a method for profiling copy number alterations in cancer evolution using single-cell whole genome sequencing.
Hui S; Nielsen R
Bioinformatics; 2022 Mar; 38(7):1801-1808. PubMed ID: 35080614
[TBL] [Abstract][Full Text] [Related]
15. Comparative analysis of methods for identifying somatic copy number alterations from deep sequencing data.
Alkodsi A; Louhimo R; Hautaniemi S
Brief Bioinform; 2015 Mar; 16(2):242-54. PubMed ID: 24599115
[TBL] [Abstract][Full Text] [Related]
16. Low-cost and clinically applicable copy number profiling using repeat DNA.
Abujudeh S; Zeki SS; van Lanschot MCJ; Pusung M; Weaver JMJ; Li X; Noorani A; Metz AJ; Bornschein J; Bower L; Miremadi A; Fitzgerald RC; Morrissey ER; Lynch AG
BMC Genomics; 2022 Aug; 23(1):599. PubMed ID: 35978291
[TBL] [Abstract][Full Text] [Related]
17. Reliability of algorithmic somatic copy number alteration detection from targeted capture data.
Rieber N; Bohnert R; Ziehm U; Jansen G
Bioinformatics; 2017 Sep; 33(18):2791-2798. PubMed ID: 28472276
[TBL] [Abstract][Full Text] [Related]
18. CNValidator: validating somatic copy-number inference.
Smith LP; Yamato JA; Kuhner MK
Bioinformatics; 2019 Aug; 35(15):2660-2662. PubMed ID: 30541069
[TBL] [Abstract][Full Text] [Related]
19. Reliable Analysis of Clinical Tumor-Only Whole-Exome Sequencing Data.
Oh S; Geistlinger L; Ramos M; Morgan M; Waldron L; Riester M
JCO Clin Cancer Inform; 2020 Apr; 4():321-335. PubMed ID: 32282230
[TBL] [Abstract][Full Text] [Related]
20. TPES: tumor purity estimation from SNVs.
Locallo A; Prandi D; Fedrizzi T; Demichelis F
Bioinformatics; 2019 Nov; 35(21):4433-4435. PubMed ID: 31099386
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]
