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Items: 1 to 50 of 404

1.

Epicardial Left Atrial Appendage Exclusion Reduces Blood Pressure in Patients With Atrial Fibrillation and Hypertension.

Turagam MK, Vuddanda V, Verberkmoes N, Ohtsuka T, Akca F, Atkins D, Bommana S, Emmert MY, Gopinathannair R, Dunnington G, Rasekh A, Cheng J, Salzberg S, Natale A, Cox J, Lakkireddy DR.

J Am Coll Cardiol. 2018 Sep 18;72(12):1346-1353. doi: 10.1016/j.jacc.2018.06.066.

PMID:
30213326
2.

Open questions: How many genes do we have?

Salzberg SL.

BMC Biol. 2018 Aug 20;16(1):94. doi: 10.1186/s12915-018-0564-x.

3.

Postoperative rehabilitation of simultaneous rupture of anterior cruciate ligament and patellar ligament: A case report.

Pérez J, Novoa GA, Pierobon A, Soliño S, Calvo Delfino M, Sajfar ME, Carmody C, Vuoto T, Dorado JH, Salzberg S.

Physiother Res Int. 2018 Jul 29:e1735. doi: 10.1002/pri.1735. [Epub ahead of print]

PMID:
30058203
4.

The Terabase Search Engine: a large-scale relational database of short-read sequences.

Wilton R, Wheelan SJ, Szalay AS, Salzberg SL.

Bioinformatics. 2018 Jul 23. doi: 10.1093/bioinformatics/bty657. [Epub ahead of print]

PMID:
30052772
5.

Development and Optimization of Metagenomic Next-Generation Sequencing Methods for Cerebrospinal Fluid Diagnostics.

Simner PJ, Miller HB, Breitwieser FP, Pinilla Monsalve G, Pardo CA, Salzberg SL, Sears CL, Thomas DL, Eberhart CG, Carroll KC.

J Clin Microbiol. 2018 Aug 27;56(9). pii: e00472-18. doi: 10.1128/JCM.00472-18. Print 2018 Sep.

PMID:
29976594
6.

Removing contaminants from databases of draft genomes.

Lu J, Salzberg SL.

PLoS Comput Biol. 2018 Jun 25;14(6):e1006277. doi: 10.1371/journal.pcbi.1006277. eCollection 2018 Jun.

7.

Genomic Variation Among and Within Six Juglans Species.

Stevens KA, Woeste K, Chakraborty S, Crepeau MW, Leslie CA, Martínez-García PJ, Puiu D, Romero-Severson J, Coggeshall M, Dandekar AM, Kluepfel D, Neale DB, Salzberg SL, Langley CH.

G3 (Bethesda). 2018 Jul 2;8(7):2153-2165. doi: 10.1534/g3.118.200030.

8.

Closure of Large Percutaneous Femoral Venous Access Using a Modified "Figure-of-Eight" Suture.

Wyss CA, Anliker O, Gämperli O, Sürder D, Biaggi P, Buhler I, Salzberg SP, Grünenfelder J, Corti R.

Innovations (Phila). 2018 Mar/Apr;13(2):147-151. doi: 10.1097/IMI.0000000000000488.

PMID:
29688942
9.

Surgical epicardial left atrial appendage closure:A true alternative.

Salzberg S, Emmert M.

J Atr Fibrillation. 2017 Dec 31;10(4):1655. doi: 10.4022/jafib.1655. eCollection 2017 Dec.

10.

Surgical device-enabled epicardial LAA closure to achieve safe, complete, and durable LAA occlusion.

Caliskan E, Cox JL, Falk V, Salzberg SP, Emmert MY.

Nat Rev Cardiol. 2018 Feb 13;15(3):191. doi: 10.1038/nrcardio.2018.8. No abstract available.

PMID:
29434359
11.

MUMmer4: A fast and versatile genome alignment system.

Marçais G, Delcher AL, Phillippy AM, Coston R, Salzberg SL, Zimin A.

PLoS Comput Biol. 2018 Jan 26;14(1):e1005944. doi: 10.1371/journal.pcbi.1005944. eCollection 2018 Jan.

12.

Identifying Corneal Infections in Formalin-Fixed Specimens Using Next Generation Sequencing.

Li Z, Breitwieser FP, Lu J, Jun AS, Asnaghi L, Salzberg SL, Eberhart CG.

Invest Ophthalmol Vis Sci. 2018 Jan 1;59(1):280-288. doi: 10.1167/iovs.17-21617.

13.

Positive Emotion Correlates of Meditation Practice: A Comparison of Mindfulness Meditation and Loving-kindness Meditation.

Fredrickson BL, Boulton AJ, Firestine AM, Van Cappellen P, Algoe SB, Brantley MM, Kim SL, Brantley J, Salzberg S.

Mindfulness (N Y). 2017 Dec;8(6):1623-1633. doi: 10.1007/s12671-017-0735-9. Epub 2017 May 29.

PMID:
29201247
14.

Surgical techniques for left atrial appendage exclusion.

Salzberg SP, Emmert MY, Caliskan E.

Herzschrittmacherther Elektrophysiol. 2017 Dec;28(4):360-365. doi: 10.1007/s00399-017-0532-0. Epub 2017 Nov 17. Review.

PMID:
29150698
15.

Genome sequence of the progenitor of the wheat D genome Aegilops tauschii.

Luo MC, Gu YQ, Puiu D, Wang H, Twardziok SO, Deal KR, Huo N, Zhu T, Wang L, Wang Y, McGuire PE, Liu S, Long H, Ramasamy RK, Rodriguez JC, Van SL, Yuan L, Wang Z, Xia Z, Xiao L, Anderson OD, Ouyang S, Liang Y, Zimin AV, Pertea G, Qi P, Bennetzen JL, Dai X, Dawson MW, Müller HG, Kugler K, Rivarola-Duarte L, Spannagl M, Mayer KFX, Lu FH, Bevan MW, Leroy P, Li P, You FM, Sun Q, Liu Z, Lyons E, Wicker T, Salzberg SL, Devos KM, Dvořák J.

Nature. 2017 Nov 23;551(7681):498-502. doi: 10.1038/nature24486. Epub 2017 Nov 15.

PMID:
29143815
16.

Impact of Left Atrial Appendage Exclusion on Cardiovascular Outcomes in Patients With Atrial Fibrillation Undergoing Coronary Artery Bypass Grafting-The Surgeon's Comment.

Caliskan E, Salzberg SP, Emmert MY.

Am J Cardiol. 2018 Jan 1;121(1):142. doi: 10.1016/j.amjcard.2017.09.017. Epub 2017 Oct 12. No abstract available.

PMID:
29103602
17.

The first near-complete assembly of the hexaploid bread wheat genome, Triticum aestivum.

Zimin AV, Puiu D, Hall R, Kingan S, Clavijo BJ, Salzberg SL.

Gigascience. 2017 Nov 1;6(11):1-7. doi: 10.1093/gigascience/gix097.

18.

A review of methods and databases for metagenomic classification and assembly.

Breitwieser FP, Lu J, Salzberg SL.

Brief Bioinform. 2017 Sep 23. doi: 10.1093/bib/bbx120. [Epub ahead of print]

PMID:
29028872
19.

Erratum to: An improved assembly of the loblolly pine mega-genome using long-read single-molecule sequencing.

Zimin AV, Stevens KA, Crepeau MW, Puiu D, Wegrzyn JL, Yorke JA, Langley CH, Neale DB, Salzberg SL.

Gigascience. 2017 Oct 1;6(10):1. doi: 10.1093/gigascience/gix072.

20.

Epicardial left atrial appendage AtriClip occlusion reduces the incidence of stroke in patients with atrial fibrillation undergoing cardiac surgery.

Caliskan E, Sahin A, Yilmaz M, Seifert B, Hinzpeter R, Alkadhi H, Cox JL, Holubec T, Reser D, Falk V, Grünenfelder J, Genoni M, Maisano F, Salzberg SP, Emmert MY.

Europace. 2018 Jul 1;20(7):e105-e114. doi: 10.1093/europace/eux211.

PMID:
29016813
21.

First Draft Genome Sequence of the Pathogenic Fungus Lomentospora prolificans (Formerly Scedosporium prolificans).

Luo R, Zimin A, Workman R, Fan Y, Pertea G, Grossman N, Wear MP, Jia B, Miller H, Casadevall A, Timp W, Zhang SX, Salzberg SL.

G3 (Bethesda). 2017 Nov 6;7(11):3831-3836. doi: 10.1534/g3.117.300107.

22.

Genomic characterization of chromosome translocations in patients with T/myeloid mixed-phenotype acute leukemia.

Pallavajjala A, Kim D, Li T, Ghiaur G, Jones RJ, Burns KH, Salzberg SL, Ning Y.

Leuk Lymphoma. 2018 May;59(5):1231-1238. doi: 10.1080/10428194.2017.1372577. Epub 2017 Sep 7.

PMID:
28882084
23.

Interventional and surgical occlusion of the left atrial appendage.

Caliskan E, Cox JL, Holmes DR Jr, Meier B, Lakkireddy DR, Falk V, Salzberg SP, Emmert MY.

Nat Rev Cardiol. 2017 Dec;14(12):727-743. doi: 10.1038/nrcardio.2017.107. Epub 2017 Aug 10. Review.

PMID:
28795688
24.

The Douglas-Fir Genome Sequence Reveals Specialization of the Photosynthetic Apparatus in Pinaceae.

Neale DB, McGuire PE, Wheeler NC, Stevens KA, Crepeau MW, Cardeno C, Zimin AV, Puiu D, Pertea GM, Sezen UU, Casola C, Koralewski TE, Paul R, Gonzalez-Ibeas D, Zaman S, Cronn R, Yandell M, Holt C, Langley CH, Yorke JA, Salzberg SL, Wegrzyn JL.

G3 (Bethesda). 2017 Sep 7;7(9):3157-3167. doi: 10.1534/g3.117.300078.

25.

16GT: a fast and sensitive variant caller using a 16-genotype probabilistic model.

Luo R, Schatz MC, Salzberg SL.

Gigascience. 2017 Jul 1;6(7):1-4. doi: 10.1093/gigascience/gix045.

26.

Presence of Human Hepegivirus-1 in a Cohort of People Who Inject Drugs.

Kandathil AJ, Breitwieser FP, Sachithanandham J, Robinson M, Mehta SH, Timp W, Salzberg SL, Thomas DL, Balagopal A.

Ann Intern Med. 2017 Jul 4;167(1):1-7. doi: 10.7326/M17-0085. Epub 2017 Jun 6.

27.

Short Read Mapping: An Algorithmic Tour.

Canzar S, Salzberg SL.

Proc IEEE Inst Electr Electron Eng. 2017 Mar;105(3):436-458. doi: 10.1109/JPROC.2015.2455551. Epub 2015 Sep 7.

28.

Horizontal gene transfer is not a hallmark of the human genome.

Salzberg SL.

Genome Biol. 2017 May 8;18(1):85. doi: 10.1186/s13059-017-1214-2.

29.

An improved assembly of the loblolly pine mega-genome using long-read single-molecule sequencing.

Zimin AV, Stevens KA, Crepeau MW, Puiu D, Wegrzyn JL, Yorke JA, Langley CH, Neale DB, Salzberg SL.

Gigascience. 2017 Jan 1;6(1):1-4. doi: 10.1093/gigascience/giw016. Erratum in: Gigascience. 2017 Oct 1;6(10):1.

30.

Symptomatic, Inspiration-Induced Atrioventricular Block: Treated with Pacemaker Implant.

Hoffmann DA, Atamañuk AN, Ruiz GA, Chirife R, Tentori MC, Salzberg S.

Pacing Clin Electrophysiol. 2017 Jul;40(7):900-903. doi: 10.1111/pace.13035. Epub 2017 Mar 3.

PMID:
28155224
31.

Hybrid assembly of the large and highly repetitive genome of Aegilops tauschii, a progenitor of bread wheat, with the MaSuRCA mega-reads algorithm.

Zimin AV, Puiu D, Luo MC, Zhu T, Koren S, Marçais G, Yorke JA, Dvořák J, Salzberg SL.

Genome Res. 2017 May;27(5):787-792. doi: 10.1101/gr.213405.116. Epub 2017 Jan 27.

32.

The novel fusion transcript NR5A2-KLHL29FT is generated by an insertion at the KLHL29 locus.

Sun Z, Ke X, Salzberg SL, Kim D, Antonescu V, Cheng Y, Huang B, Song JH, Abraham JM, Ibrahim S, Tian H, Meltzer SJ.

Cancer. 2017 May 1;123(9):1507-1515. doi: 10.1002/cncr.30510. Epub 2017 Jan 12.

33.

Effective orifice area and hemodynamic performance of the transcatheter Edwards Sapien 3 prosthesis: short-term and 1-year follow-up.

Külling M, Külling J, Wyss C, Hürlimann D, Reho I, Salzberg S, Bühler I, Noll G, Grünenfelder J, Corti R, Biaggi P.

Eur Heart J Cardiovasc Imaging. 2018 Jan 1;19(1):23-30. doi: 10.1093/ehjci/jew301.

PMID:
28065915
34.

Centrifuge: rapid and sensitive classification of metagenomic sequences.

Kim D, Song L, Breitwieser FP, Salzberg SL.

Genome Res. 2016 Dec;26(12):1721-1729. Epub 2016 Oct 17.

35.

Sequence of the Sugar Pine Megagenome.

Stevens KA, Wegrzyn JL, Zimin A, Puiu D, Crepeau M, Cardeno C, Paul R, Gonzalez-Ibeas D, Koriabine M, Holtz-Morris AE, Martínez-García PJ, Sezen UU, Marçais G, Jermstad K, McGuire PE, Loopstra CA, Davis JM, Eckert A, de Jong P, Yorke JA, Salzberg SL, Neale DB, Langley CH.

Genetics. 2016 Dec;204(4):1613-1626. Epub 2016 Oct 28.

36.

[Cross-cultural adaptation and Argentine validation of the Lower Extremity Functional Scale Questionnaire].

Dell'Era S, Dimaro M, Gamboa A, Spath MB, Salzberg S, Hernández D.

Medicina (B Aires). 2016;76(5):279-285. Spanish.

37.

First Draft Assembly and Annotation of the Genome of a California Endemic Oak Quercus lobata Née (Fagaceae).

Sork VL, Fitz-Gibbon ST, Puiu D, Crepeau M, Gugger PF, Sherman R, Stevens K, Langley CH, Pellegrini M, Salzberg SL.

G3 (Bethesda). 2016 Nov 8;6(11):3485-3495. doi: 10.1534/g3.116.030411.

38.

Transcript-level expression analysis of RNA-seq experiments with HISAT, StringTie and Ballgown.

Pertea M, Kim D, Pertea GM, Leek JT, Salzberg SL.

Nat Protoc. 2016 Sep;11(9):1650-67. doi: 10.1038/nprot.2016.095. Epub 2016 Aug 11.

39.

To the Editor- Device enabled left atrial appendage ligation-A word of caution.

Verberkmoes N, Akca F, Van Putte B, Geuzebroek G, Salzberg S, Emmert M, Whitlock R.

Heart Rhythm. 2016 Oct;13(10):e293. doi: 10.1016/j.hrthm.2016.06.035. Epub 2016 Jun 30. No abstract available.

PMID:
27374311
40.

Next-generation sequencing in neuropathologic diagnosis of infections of the nervous system.

Salzberg SL, Breitwieser FP, Kumar A, Hao H, Burger P, Rodriguez FJ, Lim M, Quiñones-Hinojosa A, Gallia GL, Tornheim JA, Melia MT, Sears CL, Pardo CA.

Neurol Neuroimmunol Neuroinflamm. 2016 Jun 13;3(4):e251. doi: 10.1212/NXI.0000000000000251. eCollection 2016 Aug.

41.

Databases: Reminder to deposit DNA sequences.

Salzberg SL.

Nature. 2016 May 12;533(7602):179. doi: 10.1038/533179a. No abstract available.

PMID:
27172038
42.

Reminder to deposit DNA sequences.

Blaxter M, Danchin A, Savakis B, Fukami-Kobayashi K, Kurokawa K, Sugano S, Roberts RJ, Salzberg SL, Wu CI.

Science. 2016 May 13;352(6287):780. doi: 10.1126/science.aaf7672. Epub 2016 May 11. No abstract available.

PMID:
27169596
43.

Single molecule real-time sequencing of Xanthomonas oryzae genomes reveals a dynamic structure and complex TAL (transcription activator-like) effector gene relationships.

Booher NJ, Carpenter SC, Sebra RP, Wang L, Salzberg SL, Leach JE, Bogdanove AJ.

Microb Genom. 2015 Oct;1(4). doi: 10.1099/mgen.0.000032. Epub 2015 Oct 13.

44.

The walnut (Juglans regia) genome sequence reveals diversity in genes coding for the biosynthesis of non-structural polyphenols.

Martínez-García PJ, Crepeau MW, Puiu D, Gonzalez-Ibeas D, Whalen J, Stevens KA, Paul R, Butterfield TS, Britton MT, Reagan RL, Chakraborty S, Walawage SL, Vasquez-Gross HA, Cardeno C, Famula RA, Pratt K, Kuruganti S, Aradhya MK, Leslie CA, Dandekar AM, Salzberg SL, Wegrzyn JL, Langley CH, Neale DB.

Plant J. 2016 Sep;87(5):507-32. doi: 10.1111/tpj.13207. Epub 2016 Jul 18.

45.

Long-term results of simplified frozen elephant trunk technique in complicated acute type A aortic dissection: A case-control study.

Kobayashi M, Chaykovska L, van der Loo B, Nguyen TD, Puippe G, Salzberg S, Ueda H, Maisano F, Pecoraro F, Lachat M.

Vascular. 2016 Oct;24(5):523-30. doi: 10.1177/1708538115627728. Epub 2016 Jan 14.

PMID:
26767606
46.

Left Atrial Appendage Occlusion Device Societal Overview: The Surgeon's Comment.

Emmert MY, Salzberg SP.

J Am Coll Cardiol. 2016 Jan 5;67(1):124. doi: 10.1016/j.jacc.2015.09.101. No abstract available.

47.

Letter by Salzberg and Emmert Regarding Article, "Left Atrial Appendage Occlusion Debate Revisited".

Salzberg SP, Emmert MY.

Circulation. 2015 Nov 10;132(19):e229. doi: 10.1161/CIRCULATIONAHA.115.016476. No abstract available.

PMID:
26553717
48.

Use and mis-use of supplementary material in science publications.

Pop M, Salzberg SL.

BMC Bioinformatics. 2015 Nov 3;16:237. doi: 10.1186/s12859-015-0668-z.

49.

Re-analysis of metagenomic sequences from acute flaccid myelitis patients reveals alternatives to enterovirus D68 infection.

Breitwieser FP, Pardo CA, Salzberg SL.

Version 2. F1000Res. 2015 Jul 2 [revised 2015 Jan 1];4:180. doi: 10.12688/f1000research.6743.2. eCollection 2015.

50.

Genome-wide annotation of microRNA primary transcript structures reveals novel regulatory mechanisms.

Chang TC, Pertea M, Lee S, Salzberg SL, Mendell JT.

Genome Res. 2015 Sep;25(9):1401-9. doi: 10.1101/gr.193607.115.

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