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Items: 12

1.

Unique, dual-indexed sequencing adapters with UMIs effectively eliminate index cross-talk and significantly improve sensitivity of massively parallel sequencing.

MacConaill LE, Burns RT, Nag A, Coleman HA, Slevin MK, Giorda K, Light M, Lai K, Jarosz M, McNeill MS, Ducar MD, Meyerson M, Thorner AR.

BMC Genomics. 2018 Jan 8;19(1):30. doi: 10.1186/s12864-017-4428-5.

2.

Assessing the suitability of NGS panels for clinical sequencing.

Giorda K.

MLO Med Lab Obs. 2017 Apr;49(4):36-7. No abstract available.

PMID:
29979010
3.

Extensive sequencing of seven human genomes to characterize benchmark reference materials.

Zook JM, Catoe D, McDaniel J, Vang L, Spies N, Sidow A, Weng Z, Liu Y, Mason CE, Alexander N, Henaff E, McIntyre AB, Chandramohan D, Chen F, Jaeger E, Moshrefi A, Pham K, Stedman W, Liang T, Saghbini M, Dzakula Z, Hastie A, Cao H, Deikus G, Schadt E, Sebra R, Bashir A, Truty RM, Chang CC, Gulbahce N, Zhao K, Ghosh S, Hyland F, Fu Y, Chaisson M, Xiao C, Trow J, Sherry ST, Zaranek AW, Ball M, Bobe J, Estep P, Church GM, Marks P, Kyriazopoulou-Panagiotopoulou S, Zheng GX, Schnall-Levin M, Ordonez HS, Mudivarti PA, Giorda K, Sheng Y, Rypdal KB, Salit M.

Sci Data. 2016 Jun 7;3:160025. doi: 10.1038/sdata.2016.25.

4.

A hybrid approach for de novo human genome sequence assembly and phasing.

Mostovoy Y, Levy-Sakin M, Lam J, Lam ET, Hastie AR, Marks P, Lee J, Chu C, Lin C, Džakula Ž, Cao H, Schlebusch SA, Giorda K, Schnall-Levin M, Wall JD, Kwok PY.

Nat Methods. 2016 Jul;13(7):587-90. doi: 10.1038/nmeth.3865. Epub 2016 May 9.

5.

Health and population effects of rare gene knockouts in adult humans with related parents.

Narasimhan VM, Hunt KA, Mason D, Baker CL, Karczewski KJ, Barnes MR, Barnett AH, Bates C, Bellary S, Bockett NA, Giorda K, Griffiths CJ, Hemingway H, Jia Z, Kelly MA, Khawaja HA, Lek M, McCarthy S, McEachan R, O'Donnell-Luria A, Paigen K, Parisinos CA, Sheridan E, Southgate L, Tee L, Thomas M, Xue Y, Schnall-Levin M, Petkov PM, Tyler-Smith C, Maher ER, Trembath RC, MacArthur DG, Wright J, Durbin R, van Heel DA.

Science. 2016 Apr 22;352(6284):474-7. doi: 10.1126/science.aac8624. Epub 2016 Mar 3.

6.

Haplotyping germline and cancer genomes with high-throughput linked-read sequencing.

Zheng GX, Lau BT, Schnall-Levin M, Jarosz M, Bell JM, Hindson CM, Kyriazopoulou-Panagiotopoulou S, Masquelier DA, Merrill L, Terry JM, Mudivarti PA, Wyatt PW, Bharadwaj R, Makarewicz AJ, Li Y, Belgrader P, Price AD, Lowe AJ, Marks P, Vurens GM, Hardenbol P, Montesclaros L, Luo M, Greenfield L, Wong A, Birch DE, Short SW, Bjornson KP, Patel P, Hopmans ES, Wood C, Kaur S, Lockwood GK, Stafford D, Delaney JP, Wu I, Ordonez HS, Grimes SM, Greer S, Lee JY, Belhocine K, Giorda KM, Heaton WH, McDermott GP, Bent ZW, Meschi F, Kondov NO, Wilson R, Bernate JA, Gauby S, Kindwall A, Bermejo C, Fehr AN, Chan A, Saxonov S, Ness KD, Hindson BJ, Ji HP.

Nat Biotechnol. 2016 Mar;34(3):303-11. doi: 10.1038/nbt.3432. Epub 2016 Feb 1.

7.

TMTC1 and TMTC2 are novel endoplasmic reticulum tetratricopeptide repeat-containing adapter proteins involved in calcium homeostasis.

Sunryd JC, Cheon B, Graham JB, Giorda KM, Fissore RA, Hebert DN.

J Biol Chem. 2014 Jun 6;289(23):16085-99. doi: 10.1074/jbc.M114.554071. Epub 2014 Apr 24.

8.

Viroporins customize host cells for efficient viral propagation.

Giorda KM, Hebert DN.

DNA Cell Biol. 2013 Oct;32(10):557-64. doi: 10.1089/dna.2013.2159. Epub 2013 Aug 14. Review.

9.

SV40 late protein VP4 forms toroidal pores to disrupt membranes for viral release.

Raghava S, Giorda KM, Romano FB, Heuck AP, Hebert DN.

Biochemistry. 2013 Jun 4;52(22):3939-48. doi: 10.1021/bi400036z. Epub 2013 May 20.

10.

The viroporin activity of the minor structural proteins VP2 and VP3 is required for SV40 propagation.

Giorda KM, Raghava S, Zhang MW, Hebert DN.

J Biol Chem. 2013 Jan 25;288(4):2510-20. doi: 10.1074/jbc.M112.428425. Epub 2012 Dec 5.

11.

The Simian virus 40 late viral protein VP4 disrupts the nuclear envelope for viral release.

Giorda KM, Raghava S, Hebert DN.

J Virol. 2012 Mar;86(6):3180-92. doi: 10.1128/JVI.07047-11. Epub 2012 Jan 11.

12.

The SV40 late protein VP4 is a viroporin that forms pores to disrupt membranes for viral release.

Raghava S, Giorda KM, Romano FB, Heuck AP, Hebert DN.

PLoS Pathog. 2011 Jun;7(6):e1002116. doi: 10.1371/journal.ppat.1002116. Epub 2011 Jun 30.

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