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Items: 37

1.

Guided genetic screen to identify genes essential in the regeneration of hair cells and other tissues.

Pei W, Xu L, Huang SC, Pettie K, Idol J, Rissone A, Jimenez E, Sinclair JW, Slevin C, Varshney GK, Jones M, Carrington B, Bishop K, Huang H, Sood R, Lin S, Burgess SM.

NPJ Regen Med. 2018 Jun 4;3:11. doi: 10.1038/s41536-018-0050-7. eCollection 2018.

2.

Effect of Curcumin Addition on the Adsorption and Transport of a Cationic Dye across DPPG-POPG Liposomes Probed by Second Harmonic Spectroscopy.

Varshney GK, Kintali SR, Das K.

Langmuir. 2017 Aug 22;33(33):8302-8310. doi: 10.1021/acs.langmuir.7b01783. Epub 2017 Aug 8.

PMID:
28742369
3.

Highly Efficient Cpf1-Mediated Gene Targeting in Mice Following High Concentration Pronuclear Injection.

Watkins-Chow DE, Varshney GK, Garrett LJ, Chen Z, Jimenez EA, Rivas C, Bishop KS, Sood R, Harper UL, Pavan WJ, Burgess SM.

G3 (Bethesda). 2017 Feb 9;7(2):719-722. doi: 10.1534/g3.116.038091.

4.

A high-throughput functional genomics workflow based on CRISPR/Cas9-mediated targeted mutagenesis in zebrafish.

Varshney GK, Carrington B, Pei W, Bishop K, Chen Z, Fan C, Xu L, Jones M, LaFave MC, Ledin J, Sood R, Burgess SM.

Nat Protoc. 2016 Dec;11(12):2357-2375. doi: 10.1038/nprot.2016.141. Epub 2016 Oct 27.

5.

DNA-guided genome editing using structure-guided endonucleases.

Varshney GK, Burgess SM.

Genome Biol. 2016 Sep 15;17(1):187. doi: 10.1186/s13059-016-1055-4. Review.

6.

Effect of Bilayer Partitioning of Curcumin on the Adsorption and Transport of a Cationic Dye Across POPG Liposomes Probed by Second-Harmonic Spectroscopy.

Varshney GK, Kintali SR, Gupta PK, Das K.

Langmuir. 2016 Oct 11;32(40):10415-10421. Epub 2016 Sep 28.

PMID:
27636651
7.

A comparative study on the effect of Curcumin and Chlorin-p6 on the transport of the LDS cation across a negatively charged POPG bilayer: Effect of pH.

Varshney GK, Kintali SR, Gupta PK, Das K.

Spectrochim Acta A Mol Biomol Spectrosc. 2017 Feb 15;173:132-138. doi: 10.1016/j.saa.2016.09.001. Epub 2016 Sep 3.

PMID:
27619975
8.

Additive reductions in zebrafish PRPS1 activity result in a spectrum of deficiencies modeling several human PRPS1-associated diseases.

Pei W, Xu L, Varshney GK, Carrington B, Bishop K, Jones M, Huang SC, Idol J, Pretorius PR, Beirl A, Schimmenti LA, Kindt KS, Sood R, Burgess SM.

Sci Rep. 2016 Jul 18;6:29946. doi: 10.1038/srep29946.

9.

Genotoxicity in Mice Following AAV Gene Delivery: A Safety Concern for Human Gene Therapy?

Chandler RJ, LaFave MC, Varshney GK, Burgess SM, Venditti CP.

Mol Ther. 2016 Feb;24(2):198-201. doi: 10.1038/mt.2016.17. No abstract available.

10.

Genome-Wide Analysis of Transposon and Retroviral Insertions Reveals Preferential Integrations in Regions of DNA Flexibility.

Vrljicak P, Tao S, Varshney GK, Quach HN, Joshi A, LaFave MC, Burgess SM, Sampath K.

G3 (Bethesda). 2016 Apr 7;6(4):805-17. doi: 10.1534/g3.115.026849.

11.

Extracellular HSP60 triggers tissue regeneration and wound healing by regulating inflammation and cell proliferation.

Pei W, Tanaka K, Huang SC, Xu L, Liu B, Sinclair J, Idol J, Varshney GK, Huang H, Lin S, Nussenblatt RB, Mori R, Burgess SM.

NPJ Regen Med. 2016;1. pii: 16013. doi: 10.1038/npjregenmed.2016.13. Epub 2016 Oct 27.

12.

Understanding and Editing the Zebrafish Genome.

Varshney GK, Sood R, Burgess SM.

Adv Genet. 2015;92:1-52. doi: 10.1016/bs.adgen.2015.09.002. Epub 2015 Nov 12. Review.

PMID:
26639914
13.

A 3D Searchable Database of Transgenic Zebrafish Gal4 and Cre Lines for Functional Neuroanatomy Studies.

Marquart GD, Tabor KM, Brown M, Strykowski JL, Varshney GK, LaFave MC, Mueller T, Burgess SM, Higashijima S, Burgess HA.

Front Neural Circuits. 2015 Nov 24;9:78. doi: 10.3389/fncir.2015.00078. eCollection 2015.

14.

CRISPRz: a database of zebrafish validated sgRNAs.

Varshney GK, Zhang S, Pei W, Adomako-Ankomah A, Fohtung J, Schaffer K, Carrington B, Maskeri A, Slevin C, Wolfsberg T, Ledin J, Sood R, Burgess SM.

Nucleic Acids Res. 2016 Jan 4;44(D1):D822-6. doi: 10.1093/nar/gkv998. Epub 2015 Oct 4.

15.

CRISPR-STAT: an easy and reliable PCR-based method to evaluate target-specific sgRNA activity.

Carrington B, Varshney GK, Burgess SM, Sood R.

Nucleic Acids Res. 2015 Dec 15;43(22):e157. doi: 10.1093/nar/gkv802. Epub 2015 Aug 7.

16.

Mutagenesis Screen Identifies agtpbp1 and eps15L1 as Essential for T lymphocyte Development in Zebrafish.

Seiler C, Gebhart N, Zhang Y, Shinton SA, Li YS, Ross NL, Liu X, Li Q, Bilbee AN, Varshney GK, LaFave MC, Burgess SM, Balciuniene J, Balciunas D, Hardy RR, Kappes DJ, Wiest DL, Rhodes J.

PLoS One. 2015 Jul 10;10(7):e0131908. doi: 10.1371/journal.pone.0131908. eCollection 2015.

17.

GeIST: a pipeline for mapping integrated DNA elements.

LaFave MC, Varshney GK, Burgess SM.

Bioinformatics. 2015 Oct 1;31(19):3219-21. doi: 10.1093/bioinformatics/btv350. Epub 2015 Jun 6.

18.

High-throughput gene targeting and phenotyping in zebrafish using CRISPR/Cas9.

Varshney GK, Pei W, LaFave MC, Idol J, Xu L, Gallardo V, Carrington B, Bishop K, Jones M, Li M, Harper U, Huang SC, Prakash A, Chen W, Sood R, Ledin J, Burgess SM.

Genome Res. 2015 Jul;25(7):1030-42. doi: 10.1101/gr.186379.114. Epub 2015 Jun 5.

19.

Multiplex Conditional Mutagenesis Using Transgenic Expression of Cas9 and sgRNAs.

Yin L, Maddison LA, Li M, Kara N, LaFave MC, Varshney GK, Burgess SM, Patton JG, Chen W.

Genetics. 2015 Jun;200(2):431-41. doi: 10.1534/genetics.115.176917. Epub 2015 Apr 8.

20.

A Multifunctional Mutagenesis System for Analysis of Gene Function in Zebrafish.

Quach HN, Tao S, Vrljicak P, Joshi A, Ruan H, Sukumaran R, Varshney GK, LaFave MC; Ds Screen Team, Burgess SM, Winkler C, Emelyanov A, Parinov S, Sampath K.

G3 (Bethesda). 2015 Apr 2;5(6):1283-99. doi: 10.1534/g3.114.015842.

21.

Phenotype-driven chemical screening in zebrafish for compounds that inhibit collective cell migration identifies multiple pathways potentially involved in metastatic invasion.

Gallardo VE, Varshney GK, Lee M, Bupp S, Xu L, Shinn P, Crawford NP, Inglese J, Burgess SM.

Dis Model Mech. 2015 Jun;8(6):565-76. doi: 10.1242/dmm.018689. Epub 2015 Mar 25.

22.

Vector design influences hepatic genotoxicity after adeno-associated virus gene therapy.

Chandler RJ, LaFave MC, Varshney GK, Trivedi NS, Carrillo-Carrasco N, Senac JS, Wu W, Hoffmann V, Elkahloun AG, Burgess SM, Venditti CP.

J Clin Invest. 2015 Feb;125(2):870-80. doi: 10.1172/JCI79213. Epub 2015 Jan 20.

23.

Long-term correction of Sandhoff disease following intravenous delivery of rAAV9 to mouse neonates.

Walia JS, Altaleb N, Bello A, Kruck C, LaFave MC, Varshney GK, Burgess SM, Chowdhury B, Hurlbut D, Hemming R, Kobinger GP, Triggs-Raine B.

Mol Ther. 2015 Mar;23(3):414-22. doi: 10.1038/mt.2014.240. Epub 2014 Dec 17.

24.

A defined zebrafish line for high-throughput genetics and genomics: NHGRI-1.

LaFave MC, Varshney GK, Vemulapalli M, Mullikin JC, Burgess SM.

Genetics. 2014 Sep;198(1):167-70. doi: 10.1534/genetics.114.166769. Epub 2014 Jul 9.

25.

Hyper-Rayleigh scattering from gold nanoparticles: effect of size and shape.

Das K, Uppal A, Saini RK, Varshney GK, Mondal P, Gupta PK.

Spectrochim Acta A Mol Biomol Spectrosc. 2014 Jul 15;128:398-402. doi: 10.1016/j.saa.2014.02.152. Epub 2014 Mar 12.

PMID:
24682054
26.

MLV integration site selection is driven by strong enhancers and active promoters.

LaFave MC, Varshney GK, Gildea DE, Wolfsberg TG, Baxevanis AD, Burgess SM.

Nucleic Acids Res. 2014 Apr;42(7):4257-69. doi: 10.1093/nar/gkt1399. Epub 2014 Jan 23.

27.

Mutagenesis and phenotyping resources in zebrafish for studying development and human disease.

Varshney GK, Burgess SM.

Brief Funct Genomics. 2014 Mar;13(2):82-94. doi: 10.1093/bfgp/elt042. Epub 2013 Oct 26. Review.

28.

Transposon activation mutagenesis as a screening tool for identifying resistance to cancer therapeutics.

Chen L, Stuart L, Ohsumi TK, Burgess S, Varshney GK, Dastur A, Borowsky M, Benes C, Lacy-Hulbert A, Schmidt EV.

BMC Cancer. 2013 Feb 27;13:93. doi: 10.1186/1471-2407-13-93.

29.

Effect of curcumin on the diffusion kinetics of a hemicyanine dye, LDS-698, across a lipid bilayer probed by second harmonic spectroscopy.

Varshney GK, Saini RK, Gupta PK, Das K.

Langmuir. 2013 Mar 5;29(9):2912-8. doi: 10.1021/la304778d. Epub 2013 Feb 20.

PMID:
23391287
30.

A large-scale zebrafish gene knockout resource for the genome-wide study of gene function.

Varshney GK, Lu J, Gildea DE, Huang H, Pei W, Yang Z, Huang SC, Schoenfeld D, Pho NH, Casero D, Hirase T, Mosbrook-Davis D, Zhang S, Jao LE, Zhang B, Woods IG, Zimmerman S, Schier AF, Wolfsberg TG, Pellegrini M, Burgess SM, Lin S.

Genome Res. 2013 Apr;23(4):727-35. doi: 10.1101/gr.151464.112. Epub 2013 Feb 4.

31.

Goliath family E3 ligases regulate the recycling endosome pathway via VAMP3 ubiquitylation.

Yamazaki Y, Schönherr C, Varshney GK, Dogru M, Hallberg B, Palmer RH.

EMBO J. 2013 Feb 20;32(4):524-37. doi: 10.1038/emboj.2013.1. Epub 2013 Jan 25.

32.

The Zebrafish Insertion Collection (ZInC): a web based, searchable collection of zebrafish mutations generated by DNA insertion.

Varshney GK, Huang H, Zhang S, Lu J, Gildea DE, Yang Z, Wolfsberg TG, Lin S, Burgess SM.

Nucleic Acids Res. 2013 Jan;41(Database issue):D861-4. doi: 10.1093/nar/gks946. Epub 2012 Nov 24.

33.

Retroviral-mediated Insertional Mutagenesis in Zebrafish.

Amsterdam A, Varshney GK, Burgess SM.

Methods Cell Biol. 2011;104:59-82. doi: 10.1016/B978-0-12-374814-0.00004-5.

34.

The bHLH transcription factor Hand is regulated by Alk in the Drosophila embryonic gut.

Varshney GK, Palmer RH.

Biochem Biophys Res Commun. 2006 Dec 29;351(4):839-46. Epub 2006 Oct 30.

PMID:
17094947
35.

Immuno-pathotyping of Karnal bunt (Tilletia indica) isolates of wheat using anti-mycelial antibodies.

Varshney GK, Singh US, Mishra DP, Kumar A.

Indian J Exp Biol. 2003 Mar;41(3):255-61.

PMID:
15267157
36.

Jeb signals through the Alk receptor tyrosine kinase to drive visceral muscle fusion.

Englund C, Lorén CE, Grabbe C, Varshney GK, Deleuil F, Hallberg B, Palmer RH.

Nature. 2003 Oct 2;425(6957):512-6.

37.

Congenital posterior angulation of the tibia.

Sadiq SA, Varshney GK.

Int Surg. 1977 Jan;62(1):48-9. No abstract available.

PMID:
832955

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