Hach F - Search Results

1

Fast and accurate matching of cellular barcodes across short-reads and long-reads of single-cell RNA-seq experiments.

Ebrahimi G, Orabi B, Robinson M, Chauve C, Flannigan R, Hach F. Ebrahimi G, et al. Among authors: hach f. iScience. 2022 Jun 7;25(7):104530. doi: 10.1016/j.isci.2022.104530. eCollection 2022 Jul 15. iScience. 2022. PMID: 35747387 Free PMC article.

2

Comprehensive analysis of chromothripsis in 2,658 human cancers using whole-genome sequencing.

Cortés-Ciriano I, Lee JJ, Xi R, Jain D, Jung YL, Yang L, Gordenin D, Klimczak LJ, Zhang CZ, Pellman DS; PCAWG Structural Variation Working Group; Park PJ; PCAWG Consortium. Cortés-Ciriano I, et al. Nat Genet. 2020 Mar;52(3):331-341. doi: 10.1038/s41588-019-0576-7. Epub 2020 Feb 5. Nat Genet. 2020. PMID: 32025003 Free PMC article.

3

The landscape of viral associations in human cancers.

Zapatka M, Borozan I, Brewer DS, Iskar M, Grundhoff A, Alawi M, Desai N, Sültmann H, Moch H; PCAWG Pathogens; Cooper CS, Eils R, Ferretti V, Lichter P; PCAWG Consortium. Zapatka M, et al. Nat Genet. 2020 Mar;52(3):320-330. doi: 10.1038/s41588-019-0558-9. Epub 2020 Feb 5. Nat Genet. 2020. PMID: 32025001 Free PMC article.

4

Reconstructing evolutionary trajectories of mutation signature activities in cancer using TrackSig.

Rubanova Y, Shi R, Harrigan CF, Li R, Wintersinger J, Sahin N, Deshwar AG; PCAWG Evolution and Heterogeneity Working Group; Morris QD; PCAWG Consortium. Rubanova Y, et al. Nat Commun. 2020 Feb 5;11(1):731. doi: 10.1038/s41467-020-14352-7. Nat Commun. 2020. PMID: 32024834 Free PMC article.

5

CoLoRMap: Correcting Long Reads by Mapping short reads.

Haghshenas E, Hach F, Sahinalp SC, Chauve C. Haghshenas E, et al. Among authors: hach f. Bioinformatics. 2016 Sep 1;32(17):i545-i551. doi: 10.1093/bioinformatics/btw463. Bioinformatics. 2016. PMID: 27587673

6

Alignment-free clustering of UMI tagged DNA molecules.

Orabi B, Erhan E, McConeghy B, Volik SV, Le Bihan S, Bell R, Collins CC, Chauve C, Hach F. Orabi B, et al. Among authors: hach f. Bioinformatics. 2019 Jun 1;35(11):1829-1836. doi: 10.1093/bioinformatics/bty888. Bioinformatics. 2019. PMID: 30351359

7

Structural variation and fusion detection using targeted sequencing data from circulating cell free DNA.

Gawroński AR, Lin YY, McConeghy B, LeBihan S, Asghari H, Koçkan C, Orabi B, Adra N, Pili R, Collins CC, Sahinalp SC, Hach F. Gawroński AR, et al. Among authors: hach f. Nucleic Acids Res. 2019 Apr 23;47(7):e38. doi: 10.1093/nar/gkz067. Nucleic Acids Res. 2019. PMID: 30759232 Free PMC article.

8

HASLR: Fast Hybrid Assembly of Long Reads.

Haghshenas E, Asghari H, Stoye J, Chauve C, Hach F. Haghshenas E, et al. Among authors: hach f. iScience. 2020 Aug 21;23(8):101389. doi: 10.1016/j.isci.2020.101389. Epub 2020 Jul 25. iScience. 2020. PMID: 32781410 Free PMC article.

9

Genion, an accurate tool to detect gene fusion from long transcriptomics reads.

Karaoglanoglu F, Chauve C, Hach F. Karaoglanoglu F, et al. Among authors: hach f. BMC Genomics. 2022 Feb 14;23(1):129. doi: 10.1186/s12864-022-08339-5. BMC Genomics. 2022. PMID: 35164688 Free PMC article.

10

Freddie: annotation-independent detection and discovery of transcriptomic alternative splicing isoforms using long-read sequencing.

Orabi B, Xie N, McConeghy B, Dong X, Chauve C, Hach F. Orabi B, et al. Among authors: hach f. Nucleic Acids Res. 2023 Jan 25;51(2):e11. doi: 10.1093/nar/gkac1112. Nucleic Acids Res. 2023. PMID: 36478271 Free PMC article.

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