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Results: 1 to 20 of 27

1.

Correction to High sensitivity detection and quantitation of DNA copy number and single nucleotide variants with single color droplet digital PCR.

Miotke L, Lau BT, Rumma RT, Ji HP.

Anal Chem. 2015 Mar 3;87(5):3114. doi: 10.1021/acs.analchem.5b00061. Epub 2015 Feb 12. No abstract available.

2.

Allele-specific copy number profiling by next-generation DNA sequencing.

Chen H, Bell JM, Zavala NA, Ji HP, Zhang NR.

Nucleic Acids Res. 2015 Feb 27;43(4):e23. doi: 10.1093/nar/gku1252. Epub 2014 Dec 3.

3.

Metastatic tumor evolution and organoid modeling implicate TGFBR2 as a cancer driver in diffuse gastric cancer.

Nadauld LD, Garcia S, Natsoulis G, Bell JM, Miotke L, Hopmans ES, Xu H, Pai RK, Palm C, Regan JF, Chen H, Flaherty P, Ootani A, Zhang NR, Ford JM, Kuo CJ, Ji HP.

Genome Biol. 2014 Aug 27;15(8):428. doi: 10.1186/s13059-014-0428-9.

4.

MendeLIMS: a web-based laboratory information management system for clinical genome sequencing.

Grimes SM, Ji HP.

BMC Bioinformatics. 2014 Aug 27;15:290. doi: 10.1186/1471-2105-15-290.

5.

Oncogenic transformation of diverse gastrointestinal tissues in primary organoid culture.

Li X, Nadauld L, Ootani A, Corney DC, Pai RK, Gevaert O, Cantrell MA, Rack PG, Neal JT, Chan CW, Yeung T, Gong X, Yuan J, Wilhelmy J, Robine S, Attardi LD, Plevritis SK, Hung KE, Chen CZ, Ji HP, Kuo CJ.

Nat Med. 2014 Jul;20(7):769-77. doi: 10.1038/nm.3585. Epub 2014 May 25.

6.

A programmable method for massively parallel targeted sequencing.

Hopmans ES, Natsoulis G, Bell JM, Grimes SM, Sieh W, Ji HP.

Nucleic Acids Res. 2014 Jun;42(10):e88. doi: 10.1093/nar/gku282. Epub 2014 Apr 29.

7.

Identification of Insertion Deletion Mutations from Deep Targeted Resequencing.

Natsoulis G, Zhang N, Welch K, Bell J, Ji HP.

J Data Mining Genomics Proteomics. 2013 Jul 2;4(3). pii: 1000132.

8.

High sensitivity detection and quantitation of DNA copy number and single nucleotide variants with single color droplet digital PCR.

Miotke L, Lau BT, Rumma RT, Ji HP.

Anal Chem. 2014 Mar 4;86(5):2618-24. doi: 10.1021/ac403843j. Epub 2014 Feb 12. Erratum in: Anal Chem. 2014 May 6;86(9):4635. Anal Chem. 2015 Mar 3;87(5):3114.

9.

Systematic genomic identification of colorectal cancer genes delineating advanced from early clinical stage and metastasis.

Lee H, Flaherty P, Ji HP.

BMC Med Genomics. 2013 Dec 5;6:54. doi: 10.1186/1755-8794-6-54.

10.

RVD: a command-line program for ultrasensitive rare single nucleotide variant detection using targeted next-generation DNA resequencing.

Cushing A, Flaherty P, Hopmans E, Bell JM, Ji HP.

BMC Res Notes. 2013 May 23;6:206. doi: 10.1186/1756-0500-6-206.

11.
12.

Improving bioinformatic pipelines for exome variant calling.

Ji HP.

Genome Med. 2012 Jan 30;4(1):7. doi: 10.1186/gm306.

13.

Quantitative and Sensitive Detection of Cancer Genome Amplifications from Formalin Fixed Paraffin Embedded Tumors with Droplet Digital PCR.

Nadauld L, Regan JF, Miotke L, Pai RK, Longacre TA, Kwok SS, Saxonov S, Ford JM, Ji HP.

Transl Med (Sunnyvale). 2012;2(2). pii: 1000107.

14.

Performance comparison of whole-genome sequencing platforms.

Lam HY, Clark MJ, Chen R, Chen R, Natsoulis G, O'Huallachain M, Dewey FE, Habegger L, Ashley EA, Gerstein MB, Butte AJ, Ji HP, Snyder M.

Nat Biotechnol. 2011 Dec 18;30(1):78-82. doi: 10.1038/nbt.2065. Erratum in: Nat Biotechnol. 2012 Jun;30(6):562.

15.

Targeted sequencing library preparation by genomic DNA circularization.

Myllykangas S, Natsoulis G, Bell JM, Ji HP.

BMC Biotechnol. 2011 Dec 14;11:122. doi: 10.1186/1472-6750-11-122.

16.

The Human OligoGenome Resource: a database of oligonucleotide capture probes for resequencing target regions across the human genome.

Newburger DE, Natsoulis G, Grimes S, Bell JM, Davis RW, Batzoglou S, Ji HP.

Nucleic Acids Res. 2012 Jan;40(Database issue):D1137-43. doi: 10.1093/nar/gkr973. Epub 2011 Nov 18.

17.

Efficient targeted resequencing of human germline and cancer genomes by oligonucleotide-selective sequencing.

Myllykangas S, Buenrostro JD, Natsoulis G, Bell JM, Ji HP.

Nat Biotechnol. 2011 Oct 23;29(11):1024-7. doi: 10.1038/nbt.1996.

18.

Ultrasensitive detection of rare mutations using next-generation targeted resequencing.

Flaherty P, Natsoulis G, Muralidharan O, Winters M, Buenrostro J, Bell J, Brown S, Holodniy M, Zhang N, Ji HP.

Nucleic Acids Res. 2012 Jan;40(1):e2. doi: 10.1093/nar/gkr861. Epub 2011 Oct 19.

19.

A flexible approach for highly multiplexed candidate gene targeted resequencing.

Natsoulis G, Bell JM, Xu H, Buenrostro JD, Ordonez H, Grimes S, Newburger D, Jensen M, Zahn JM, Zhang N, Ji HP.

PLoS One. 2011;6(6):e21088. doi: 10.1371/journal.pone.0021088. Epub 2011 Jun 30.

20.

Targeted deep resequencing of the human cancer genome using next-generation technologies.

Myllykangas S, Ji HP.

Biotechnol Genet Eng Rev. 2010;27:135-58. Review.

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