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Items: 21

1.

Coordinating Tissue Regeneration Through Transforming Growth Factor-β Activated Kinase 1 Inactivation and Reactivation.

Hsieh HHS, Agarwal S, Cholok DJ, Loder SJ, Kaneko K, Huber A, Chung MT, Ranganathan K, Habbouche J, Li J, Butts J, Reimer J, Kaura A, Drake J, Breuler C, Priest CR, Nguyen J, Brownley C, Peterson J, Ozgurel SU, Niknafs YS, Li S, Inagaki M, Scott G, Krebsbach PH, Longaker MT, Westover K, Gray N, Ninomiya-Tsuji J, Mishina Y, Levi B.

Stem Cells. 2019 Jun;37(6):766-778. doi: 10.1002/stem.2991. Epub 2019 Mar 14.

PMID:
30786091
2.

The DEK Oncoprotein Functions in Ovarian Cancer Growth and Survival.

Hacker KE, Bolland DE, Tan L, Saha AK, Niknafs YS, Markovitz DM, McLean K.

Neoplasia. 2018 Dec;20(12):1209-1218. doi: 10.1016/j.neo.2018.10.005. Epub 2018 Nov 6.

3.

MiPanda: A Resource for Analyzing and Visualizing Next-Generation Sequencing Transcriptomics Data.

Niknafs YS, Pandian B, Gajjar T, Gaudette Z, Wheelock K, Maz MP, Achar RK, Song M, Massaro C, Cao X, Chinnaiyan AM.

Neoplasia. 2018 Nov;20(11):1144-1149. doi: 10.1016/j.neo.2018.09.001. Epub 2018 Sep 27.

4.

Analysis of the androgen receptor-regulated lncRNA landscape identifies a role for ARLNC1 in prostate cancer progression.

Zhang Y, Pitchiaya S, Cieślik M, Niknafs YS, Tien JC, Hosono Y, Iyer MK, Yazdani S, Subramaniam S, Shukla SK, Jiang X, Wang L, Liu TY, Uhl M, Gawronski AR, Qiao Y, Xiao L, Dhanasekaran SM, Juckette KM, Kunju LP, Cao X, Patel U, Batish M, Shukla GC, Paulsen MT, Ljungman M, Jiang H, Mehra R, Backofen R, Sahinalp CS, Freier SM, Watt AT, Guo S, Wei JT, Feng FY, Malik R, Chinnaiyan AM.

Nat Genet. 2018 Jun;50(6):814-824. doi: 10.1038/s41588-018-0120-1. Epub 2018 May 28.

5.

MechRNA: prediction of lncRNA mechanisms from RNA-RNA and RNA-protein interactions.

Gawronski AR, Uhl M, Zhang Y, Lin YY, Niknafs YS, Ramnarine VR, Malik R, Feng F, Chinnaiyan AM, Collins CC, Sahinalp SC, Backofen R.

Bioinformatics. 2018 Sep 15;34(18):3101-3110. doi: 10.1093/bioinformatics/bty208.

6.

Multigene Profiling of CTCs in mCRPC Identifies a Clinically Relevant Prognostic Signature.

Singhal U, Wang Y, Henderson J, Niknafs YS, Qiao Y, Gursky A, Zaslavsky A, Chung JS, Smith DC, Karnes RJ, Chang SL, Feng FY, Palapattu GS, Taichman RS, Chinnaiyan AM, Tomlins SA, Morgan TM.

Mol Cancer Res. 2018 Apr;16(4):643-654. doi: 10.1158/1541-7786.MCR-17-0539. Epub 2018 Feb 16.

7.

Oncogenic Role of THOR, a Conserved Cancer/Testis Long Non-coding RNA.

Hosono Y, Niknafs YS, Prensner JR, Iyer MK, Dhanasekaran SM, Mehra R, Pitchiaya S, Tien J, Escara-Wilke J, Poliakov A, Chu SC, Saleh S, Sankar K, Su F, Guo S, Qiao Y, Freier SM, Bui HH, Cao X, Malik R, Johnson TM, Beer DG, Feng FY, Zhou W, Chinnaiyan AM.

Cell. 2017 Dec 14;171(7):1559-1572.e20. doi: 10.1016/j.cell.2017.11.040.

8.

Rapid Intraoperative Diagnosis of Pediatric Brain Tumors Using Stimulated Raman Histology.

Hollon TC, Lewis S, Pandian B, Niknafs YS, Garrard MR, Garton H, Maher CO, McFadden K, Snuderl M, Lieberman AP, Muraszko K, Camelo-Piragua S, Orringer DA.

Cancer Res. 2018 Jan 1;78(1):278-289. doi: 10.1158/0008-5472.CAN-17-1974. Epub 2017 Nov 1.

9.

Rapid intraoperative histology of unprocessed surgical specimens via fibre-laser-based stimulated Raman scattering microscopy.

Orringer DA, Pandian B, Niknafs YS, Hollon TC, Boyle J, Lewis S, Garrard M, Hervey-Jumper SL, Garton HJL, Maher CO, Heth JA, Sagher O, Wilkinson DA, Snuderl M, Venneti S, Ramkissoon SH, McFadden KA, Fisher-Hubbard A, Lieberman AP, Johnson TD, Xie XS, Trautman JK, Freudiger CW, Camelo-Piragua S.

Nat Biomed Eng. 2017;1. pii: 0027. doi: 10.1038/s41551-016-0027. Epub 2017 Feb 6.

10.

Strategic Targeting of Multiple BMP Receptors Prevents Trauma-Induced Heterotopic Ossification.

Agarwal S, Loder SJ, Breuler C, Li J, Cholok D, Brownley C, Peterson J, Hsieh HH, Drake J, Ranganathan K, Niknafs YS, Xiao W, Li S, Kumar R, Tompkins R, Longaker MT, Davis TA, Yu PB, Mishina Y, Levi B.

Mol Ther. 2017 Aug 2;25(8):1974-1987. doi: 10.1016/j.ymthe.2017.01.008. Epub 2017 Jul 15.

11.

A Critical Analysis of the Role of SNARE Protein SEC22B in Antigen Cross-Presentation.

Wu SJ, Niknafs YS, Kim SH, Oravecz-Wilson K, Zajac C, Toubai T, Sun Y, Prasad J, Peltier D, Fujiwara H, Hedig I, Mathewson ND, Khoriaty R, Ginsburg D, Reddy P.

Cell Rep. 2017 Jun 27;19(13):2645-2656. doi: 10.1016/j.celrep.2017.06.013.

12.

TACO produces robust multisample transcriptome assemblies from RNA-seq.

Niknafs YS, Pandian B, Iyer HK, Chinnaiyan AM, Iyer MK.

Nat Methods. 2017 Jan;14(1):68-70. doi: 10.1038/nmeth.4078. Epub 2016 Nov 21.

13.

EGFL6 Regulates the Asymmetric Division, Maintenance, and Metastasis of ALDH+ Ovarian Cancer Cells.

Bai S, Ingram P, Chen YC, Deng N, Pearson A, Niknafs YS, O'Hayer P, Wang Y, Zhang ZY, Boscolo E, Bischoff J, Yoon E, Buckanovich RJ.

Cancer Res. 2016 Nov 1;76(21):6396-6409. Erratum in: Cancer Res. 2017 Apr 15;77(8):2175.

14.

The lncRNA landscape of breast cancer reveals a role for DSCAM-AS1 in breast cancer progression.

Niknafs YS, Han S, Ma T, Speers C, Zhang C, Wilder-Romans K, Iyer MK, Pitchiaya S, Malik R, Hosono Y, Prensner JR, Poliakov A, Singhal U, Xiao L, Kregel S, Siebenaler RF, Zhao SG, Uhl M, Gawronski A, Hayes DF, Pierce LJ, Cao X, Collins C, Backofen R, Sahinalp CS, Rae JM, Chinnaiyan AM, Feng FY.

Nat Commun. 2016 Sep 26;7:12791. doi: 10.1038/ncomms12791.

15.

Identification and Validation of PCAT14 as Prognostic Biomarker in Prostate Cancer.

Shukla S, Zhang X, Niknafs YS, Xiao L, Mehra R, Cieślik M, Ross A, Schaeffer E, Malik B, Guo S, Freier SM, Bui HH, Siddiqui J, Jing X, Cao X, Dhanasekaran SM, Feng FY, Chinnaiyan AM, Malik R.

Neoplasia. 2016 Aug;18(8):489-99. doi: 10.1016/j.neo.2016.07.001.

16.

High-throughput transcriptomic analysis nominates proteasomal genes as age-specific biomarkers and therapeutic targets in prostate cancer.

Zhao SG, Jackson WC, Kothari V, Schipper MJ, Erho N, Evans JR, Speers C, Hamstra DA, Niknafs YS, Nguyen PL, Schaeffer EM, Ross AE, Den RB, Klein EA, Jenkins RB, Davicioni E, Feng FY.

Prostate Cancer Prostatic Dis. 2015 Sep;18(3):229-36. doi: 10.1038/pcan.2015.22. Epub 2015 May 19.

17.

Targeting the MLL complex in castration-resistant prostate cancer.

Malik R, Khan AP, Asangani IA, Cieślik M, Prensner JR, Wang X, Iyer MK, Jiang X, Borkin D, Escara-Wilke J, Stender R, Wu YM, Niknafs YS, Jing X, Qiao Y, Palanisamy N, Kunju LP, Krishnamurthy PM, Yocum AK, Mellacheruvu D, Nesvizhskii AI, Cao X, Dhanasekaran SM, Feng FY, Grembecka J, Cierpicki T, Chinnaiyan AM.

Nat Med. 2015 Apr;21(4):344-52. doi: 10.1038/nm.3830. Epub 2015 Mar 30.

18.

The landscape of long noncoding RNAs in the human transcriptome.

Iyer MK, Niknafs YS, Malik R, Singhal U, Sahu A, Hosono Y, Barrette TR, Prensner JR, Evans JR, Zhao S, Poliakov A, Cao X, Dhanasekaran SM, Wu YM, Robinson DR, Beer DG, Feng FY, Iyer HK, Chinnaiyan AM.

Nat Genet. 2015 Mar;47(3):199-208. doi: 10.1038/ng.3192. Epub 2015 Jan 19.

19.

The lncRNA PCAT29 inhibits oncogenic phenotypes in prostate cancer.

Malik R, Patel L, Prensner JR, Shi Y, Iyer MK, Subramaniyan S, Carley A, Niknafs YS, Sahu A, Han S, Ma T, Liu M, Asangani IA, Jing X, Cao X, Dhanasekaran SM, Robinson DR, Feng FY, Chinnaiyan AM.

Mol Cancer Res. 2014 Aug;12(8):1081-7. doi: 10.1158/1541-7786.MCR-14-0257. Epub 2014 Jul 16.

20.

RNA identity crisis: hepatitis B walks the LINE.

Niknafs YS, Chinnaiyan AM.

Cancer Cell. 2014 Mar 17;25(3):259-60. doi: 10.1016/j.ccr.2014.02.011.

21.

Hemorrhagic vestibular schwannoma: review of the literature.

Niknafs YS, Wang AC, Than KD, Etame AB, Thompson BG, Sullivan SE.

World Neurosurg. 2014 Nov;82(5):751-6. doi: 10.1016/j.wneu.2013.02.069. Epub 2013 Feb 27. Review.

PMID:
23454397

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