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Transcriptome-based molecular staging of human stem cell-derived retinal organoids uncovers accelerated photoreceptor differentiation by 9-cis retinal.

Kaya KD, Chen HY, Brooks MJ, Kelley RA, Shimada H, Nagashima K, de Val N, Drinnan CT, Gieser L, Kruczek K, Erceg S, Li T, Lukovic D, Adlakha YK, Welby E, Swaroop A.

Mol Vis. 2019 Nov 11;25:663-678. eCollection 2019.


Retinal disease in ciliopathies: Recent advances with a focus on stem cell-based therapies.

Chen HY, Welby E, Li T, Swaroop A.

Transl Sci Rare Dis. 2019 Jul 4;4(1-2):97-115. doi: 10.3233/TRD-190038.


SSBP1 faux pas in mitonuclear tango causes optic neuropathy.

Zelinger L, Swaroop A.

J Clin Invest. 2019 Nov 18. pii: 132532. doi: 10.1172/JCI132532. [Epub ahead of print]


Improved Retinal Organoid Differentiation by Modulating Signaling Pathways Revealed by Comparative Transcriptome Analyses with Development In Vivo.

Brooks MJ, Chen HY, Kelley RA, Mondal AK, Nagashima K, De Val N, Li T, Chaitankar V, Swaroop A.

Stem Cell Reports. 2019 Nov 12;13(5):891-905. doi: 10.1016/j.stemcr.2019.09.009. Epub 2019 Oct 17.


No CFH or ARMS2 Interaction with Omega-3 Fatty Acids, Low versus High Zinc, or β-Carotene versus Lutein and Zeaxanthin on Progression of Age-Related Macular Degeneration in the Age-Related Eye Disease Study 2: Age-Related Eye Disease Study 2 Report No. 18.

van Asten F, Chiu CY, Agrón E, Clemons TE, Ratnapriya R, Swaroop A, Klein ML, Fan R, Chew EY; Age-Related Eye Disease Study 2 Research Group.

Ophthalmology. 2019 Nov;126(11):1541-1548. doi: 10.1016/j.ophtha.2019.06.004. Epub 2019 Jun 12.


Assessment of Novel Genome-Wide Significant Gene Loci and Lesion Growth in Geographic Atrophy Secondary to Age-Related Macular Degeneration.

Grassmann F, Harsch S, Brandl C, Kiel C, Nürnberg P, Toliat MR, Fleckenstein M, Pfau M, Schmitz-Valckenberg S, Holz FG, Chew EY, Swaroop A, Ratnapriya R, Klein ML, Mulyukov Z, Zamiri P, Weber BHF.

JAMA Ophthalmol. 2019 May 23. doi: 10.1001/jamaophthalmol.2019.1318. [Epub ahead of print]


Author Correction: Retinal transcriptome and eQTL analyses identify genes associated with age-related macular degeneration.

Ratnapriya R, Sosina OA, Starostik MR, Kwicklis M, Kapphahn RJ, Fritsche LG, Walton A, Arvanitis M, Gieser L, Pietraszkiewicz A, Montezuma SR, Chew EY, Battle A, Abecasis GR, Ferrington DA, Chatterjee N, Swaroop A.

Nat Genet. 2019 Jun;51(6):1067. doi: 10.1038/s41588-019-0430-y.


Age-related changes of the retinal microvasculature.

Orlov NV, Coletta C, van Asten F, Qian Y, Ding J, AlGhatrif M, Lakatta E, Chew E, Wong W, Swaroop A, Fiorillo E, Delitala A, Marongiu M, Goldberg IG, Schlessinger D.

PLoS One. 2019 May 2;14(5):e0215916. doi: 10.1371/journal.pone.0215916. eCollection 2019.


Knowledge and Perception of Farmers Regarding Pesticide Usage in a Rural Farming Village, Southern India.

Satya Sai MV, Revati GD, Ramya R, Swaroop AM, Maheswari E, Kumar MM.

Indian J Occup Environ Med. 2019 Jan-Apr;23(1):32-36. doi: 10.4103/ijoem.IJOEM_121_18.


The combination of whole-exome sequencing and clinical analysis allows better diagnosis of rare syndromic retinal dystrophies.

Abu Diab A, AlTalbishi A, Rosin B, Kanaan M, Kamal L, Swaroop A, Chowers I, Banin E, Sharon D, Khateb S.

Acta Ophthalmol. 2019 Sep;97(6):e877-e886. doi: 10.1111/aos.14095. Epub 2019 Mar 29.


Association of age-related macular degeneration with complement activation products, smoking, and single nucleotide polymorphisms in South Carolinians of European and African descent.

Rohrer B, Frazer-Abel A, Leonard A, Ratnapriya R, Ward T, Pietraszkiewicz A, O'Quinn E, Adams K, Swaroop A, Wolf BJ.

Mol Vis. 2019 Feb 8;25:79-92. eCollection 2019.


Retinal transcriptome and eQTL analyses identify genes associated with age-related macular degeneration.

Ratnapriya R, Sosina OA, Starostik MR, Kwicklis M, Kapphahn RJ, Fritsche LG, Walton A, Arvanitis M, Gieser L, Pietraszkiewicz A, Montezuma SR, Chew EY, Battle A, Abecasis GR, Ferrington DA, Chatterjee N, Swaroop A.

Nat Genet. 2019 Apr;51(4):606-610. doi: 10.1038/s41588-019-0351-9. Epub 2019 Feb 11. Erratum in: Nat Genet. 2019 Jun;51(6):1067.


Correction: A 32 kb Critical Region Excluding Y402H in CFH Mediates Risk for Age-Related Macular Degeneration.

Sivakumaran TA, Igo RP Jr, Kidd JM, Itsara A, Kopplin LJ, Chen W, Hagstrom SA, Peachey NS, Francis PJ, Klein ML, Chew EY, Ramprasad VL, Tay WT, Mitchell P, Seielstad M, Stambolian DE, Edwards AO, Lee KE, Leontiev DV, Jun G, Wang Y, Tian L, Qiu F, Henning AK, LaFramboise T, Sen P, Aarthi M, George R, Raman R, Das MK, Vijaya L, Kumaramanickavel G, Wong TY, Swaroop A, Abecasis GR, Klein R, Klein BEK, Nickerson DA, Eichler EE, Iyengar SK.

PLoS One. 2018 Dec 20;13(12):e0209943. doi: 10.1371/journal.pone.0209943. eCollection 2018.


Mitochondrial Respiration in Outer Retina Contributes to Light-Evoked Increase in Hydration In Vivo.

Berkowitz BA, Podolsky RH, Qian H, Li Y, Jiang K, Nellissery J, Swaroop A, Roberts R.

Invest Ophthalmol Vis Sci. 2018 Dec 3;59(15):5957-5964. doi: 10.1167/iovs.18-25682.


Mini and customized low-cost bioreactors for optimized high-throughput generation of tissue organoids.

Phelan MA, Lelkes PI, Swaroop A.

Stem Cell Investig. 2018 Oct 10;5:33. doi: 10.21037/sci.2018.09.06. eCollection 2018. No abstract available.


Targeted deletion of an NRL- and CRX-regulated alternative promoter specifically silences FERM and PDZ domain containing 1 (Frmpd1) in rod photoreceptors.

Campla CK, Mast H, Dong L, Lei J, Halford S, Sekaran S, Swaroop A.

Hum Mol Genet. 2019 Mar 1;28(5):804-817. doi: 10.1093/hmg/ddy388.


Novel Adverse Events of Iloperidone: A Disproportionality Analysis in US Food and Drug Administration Adverse Event Reporting System (FAERS) Database.

Subeesh V, Maheswari E, Singh H, Beulah TE, Swaroop AM.

Curr Drug Saf. 2019;14(1):21-26. doi: 10.2174/1574886313666181026100000.


A CEP290 C-Terminal Domain Complements the Mutant CEP290 of Rd16 Mice In Trans and Rescues Retinal Degeneration.

Mookherjee S, Chen HY, Isgrig K, Yu W, Hiriyanna S, Levron R, Li T, Colosi P, Chien W, Swaroop A, Wu Z.

Cell Rep. 2018 Oct 16;25(3):611-623.e6. doi: 10.1016/j.celrep.2018.09.043.


Variegated yet non-random rod and cone photoreceptor disease patterns in RPGR-ORF15-associated retinal degeneration.

Charng J, Cideciyan AV, Jacobson SG, Sumaroka A, Schwartz SB, Swider M, Roman AJ, Sheplock R, Anand M, Peden MC, Khanna H, Heon E, Wright AF, Swaroop A.

Hum Mol Genet. 2019 Jan 1;28(1):175. doi: 10.1093/hmg/ddy342. No abstract available.


Molecular dissection of cone photoreceptor-enriched genes encoding transmembrane and secretory proteins.

Papal S, Monti CE, Tennison ME, Swaroop A.

J Neurosci Res. 2019 Jan;97(1):16-28. doi: 10.1002/jnr.24329. Epub 2018 Sep 27. Review.


An activating mutation of the NSD2 histone methyltransferase drives oncogenic reprogramming in acute lymphocytic leukemia.

Swaroop A, Oyer JA, Will CM, Huang X, Yu W, Troche C, Bulic M, Durham BH, Wen QJ, Crispino JD, MacKerell AD Jr, Bennett RL, Kelleher NL, Licht JD.

Oncogene. 2019 Jan;38(5):671-686. doi: 10.1038/s41388-018-0474-y. Epub 2018 Aug 31.


Energy Efficient Management of Pipelines in Buildings Using Linear Wireless Sensor Networks.

Varshney S, Kumar C, Swaroop A, Khanna A, Gupta D, Rodrigues JJPC, Pinheiro PR, de Albuquerque VHC.

Sensors (Basel). 2018 Aug 10;18(8). pii: E2618. doi: 10.3390/s18082618.


Cone-rod homeobox CRX controls presynaptic active zone formation in photoreceptors of mammalian retina.

Assawachananont J, Kim SY, Kaya KD, Fariss R, Roger JE, Swaroop A.

Hum Mol Genet. 2018 Oct 15;27(20):3555-3567. doi: 10.1093/hmg/ddy272.


Progression of Geographic Atrophy in Age-related Macular Degeneration: AREDS2 Report Number 16.

Keenan TD, Agrón E, Domalpally A, Clemons TE, van Asten F, Wong WT, Danis RG, Sadda S, Rosenfeld PJ, Klein ML, Ratnapriya R, Swaroop A, Ferris FL 3rd, Chew EY; AREDS2 Research Group.

Ophthalmology. 2018 Dec;125(12):1913-1928. doi: 10.1016/j.ophtha.2018.05.028. Epub 2018 Jul 27.


Patient iPSC-derived neural stem cells exhibit phenotypes in concordance with the clinical severity of mucopolysaccharidosis I.

Swaroop M, Brooks MJ, Gieser L, Swaroop A, Zheng W.

Hum Mol Genet. 2018 Oct 15;27(20):3612-3626. doi: 10.1093/hmg/ddy259.


Examining the Relationship Between Nonalcoholic Fatty Liver Disease and the Metabolic Syndrome in Nondiabetic Subjects.

Preuss HG, Kaats GR, Mrvichin N, Swaroop A, Bagchi D, Clouatre D, Preuss JM.

J Am Coll Nutr. 2018 Aug;37(6):457-465. doi: 10.1080/07315724.2018.1443292. Epub 2018 Apr 13.


Determination of Mitochondrial Oxygen Consumption in the Retina Ex Vivo: Applications for Retinal Disease.

Adlakha YK, Swaroop A.

Methods Mol Biol. 2018;1753:167-177. doi: 10.1007/978-1-4939-7720-8_11.


Epigenetic control of gene regulation during development and disease: A view from the retina.

Corso-Díaz X, Jaeger C, Chaitankar V, Swaroop A.

Prog Retin Eye Res. 2018 Jul;65:1-27. doi: 10.1016/j.preteyeres.2018.03.002. Epub 2018 Mar 12. Review.


Longitudinal Examination of Links Between Risk Factors for the Metabolic Syndrome and Both Age and Fasting Glucose Levels in Nondiabetic Subjects.

Preuss HG, Kaats GR, Mrvichin N, Bagchi D, Swaroop A.

J Am Coll Nutr. 2018 May-Jun;37(4):336-341. doi: 10.1080/07315724.2017.1413962. Epub 2018 Mar 13.


RNA Biology in Retinal Development and Disease.

Zelinger L, Swaroop A.

Trends Genet. 2018 May;34(5):341-351. doi: 10.1016/j.tig.2018.01.002. Epub 2018 Jan 31. Review.


Genome-wide analysis of disease progression in age-related macular degeneration.

Yan Q, Ding Y, Liu Y, Sun T, Fritsche LG, Clemons T, Ratnapriya R, Klein ML, Cook RJ, Liu Y, Fan R, Wei L, Abecasis GR, Swaroop A, Chew EY; AREDS2 Research Group, Weeks DE, Chen W.

Hum Mol Genet. 2018 Mar 1;27(5):929-940. doi: 10.1093/hmg/ddy002.


Accelerated and Improved Differentiation of Retinal Organoids from Pluripotent Stem Cells in Rotating-Wall Vessel Bioreactors.

DiStefano T, Chen HY, Panebianco C, Kaya KD, Brooks MJ, Gieser L, Morgan NY, Pohida T, Swaroop A.

Stem Cell Reports. 2018 Jan 9;10(1):300-313. doi: 10.1016/j.stemcr.2017.11.001. Epub 2017 Dec 7.


Molecular Anatomy of the Developing Human Retina.

Hoshino A, Ratnapriya R, Brooks MJ, Chaitankar V, Wilken MS, Zhang C, Starostik MR, Gieser L, La Torre A, Nishio M, Bates O, Walton A, Bermingham-McDonogh O, Glass IA, Wong ROL, Swaroop A, Reh TA.

Dev Cell. 2017 Dec 18;43(6):763-779.e4. doi: 10.1016/j.devcel.2017.10.029. Epub 2017 Dec 7.


Association of Rare Predicted Loss-of-Function Variants in Cellular Pathways with Sub-Phenotypes in Age-Related Macular Degeneration.

Pietraszkiewicz A, van Asten F, Kwong A, Ratnapriya R, Abecasis G, Swaroop A, Chew EY.

Ophthalmology. 2018 Mar;125(3):398-406. doi: 10.1016/j.ophtha.2017.10.027. Epub 2017 Dec 8.


A Deep Phenotype Association Study Reveals Specific Phenotype Associations with Genetic Variants in Age-related Macular Degeneration: Age-Related Eye Disease Study 2 (AREDS2) Report No. 14.

van Asten F, Simmons M, Singhal A, Keenan TD, Ratnapriya R, Agrón E, Clemons TE, Swaroop A, Lu Z, Chew EY; Age-Related Eye Disease Study 2 Research Group.

Ophthalmology. 2018 Apr;125(4):559-568. doi: 10.1016/j.ophtha.2017.09.023. Epub 2017 Oct 31.


Blood Pressure Regulation: Reviewing Evidence for Interplay Between Common Dietary Sugars and Table Salt.

Preuss HG, Clouatre D, Swaroop A, Bagchi M, Bagchi D, Kaats GR.

J Am Coll Nutr. 2017 Nov-Dec;36(8):677-684. doi: 10.1080/07315724.2017.1345338. Epub 2017 Sep 29. Review.


General Lack of Correlations between Age and Signs of the Metabolic Syndrome in Subjects with Non-diabetic Fasting Glucose Values.

Preuss HG, Mrvichin N, Clouatre D, Bagchi D, Preuss JM, Perricone NV, Swaroop A, Kaats GR.

J Am Coll Nutr. 2017 Sep-Oct;36(7):556-564. doi: 10.1080/07315724.2017.1322545. Epub 2017 Sep 12.


Regulation of Noncoding Transcriptome in Developing Photoreceptors by Rod Differentiation Factor NRL.

Zelinger L, Karakülah G, Chaitankar V, Kim JW, Yang HJ, Brooks MJ, Swaroop A.

Invest Ophthalmol Vis Sci. 2017 Sep 1;58(11):4422-4435. doi: 10.1167/iovs.17-21805.


EYS Mutations Causing Autosomal Recessive Retinitis Pigmentosa: Changes of Retinal Structure and Function with Disease Progression.

McGuigan DB, Heon E, Cideciyan AV, Ratnapriya R, Lu M, Sumaroka A, Roman AJ, Batmanabane V, Garafalo AV, Stone EM, Swaroop A, Jacobson SG.

Genes (Basel). 2017 Jul 12;8(7). pii: E178. doi: 10.3390/genes8070178.


In Vitro Modeling Using Ciliopathy-Patient-Derived Cells Reveals Distinct Cilia Dysfunctions Caused by CEP290 Mutations.

Shimada H, Lu Q, Insinna-Kettenhofen C, Nagashima K, English MA, Semler EM, Mahgerefteh J, Cideciyan AV, Li T, Brooks BP, Gunay-Aygun M, Jacobson SG, Cogliati T, Westlake CJ, Swaroop A.

Cell Rep. 2017 Jul 11;20(2):384-396. doi: 10.1016/j.celrep.2017.06.045.


Pias3 is necessary for dorso-ventral patterning and visual response of retinal cones but is not required for rod photoreceptor differentiation.

Campla CK, Breit H, Dong L, Gumerson JD, Roger JE, Swaroop A.

Biol Open. 2017 Jun 15;6(6):881-890. doi: 10.1242/bio.024679.


Whole-Exome Sequencing Identifies Biallelic IDH3A Variants as a Cause of Retinitis Pigmentosa Accompanied by Pseudocoloboma.

Pierrache LHM, Kimchi A, Ratnapriya R, Roberts L, Astuti GDN, Obolensky A, Beryozkin A, Tjon-Fo-Sang MJH, Schuil J, Klaver CCW, Bongers EMHF, Haer-Wigman L, Schalij N, Breuning MH, Fischer GM, Banin E, Ramesar RS, Swaroop A, van den Born LI, Sharon D, Cremers FPM.

Ophthalmology. 2017 Jul;124(7):992-1003. doi: 10.1016/j.ophtha.2017.03.010. Epub 2017 Apr 13.


REEP6 mediates trafficking of a subset of Clathrin-coated vesicles and is critical for rod photoreceptor function and survival.

Veleri S, Nellissery J, Mishra B, Manjunath SH, Brooks MJ, Dong L, Nagashima K, Qian H, Gao C, Sergeev YV, Huang XF, Qu J, Lu F, Cideciyan AV, Li T, Jin ZB, Fariss RN, Ratnapriya R, Jacobson SG, Swaroop A.

Hum Mol Genet. 2017 Jun 15;26(12):2218-2230. doi: 10.1093/hmg/ddx111.


Bivariate Analysis of Age-Related Macular Degeneration Progression Using Genetic Risk Scores.

Ding Y, Liu Y, Yan Q, Fritsche LG, Cook RJ, Clemons T, Ratnapriya R, Klein ML, Abecasis GR, Swaroop A, Chew EY, Weeks DE, Chen W; AREDS2 Research Group.

Genetics. 2017 May;206(1):119-133. doi: 10.1534/genetics.116.196998. Epub 2017 Mar 24.


Nrl knockdown by AAV-delivered CRISPR/Cas9 prevents retinal degeneration in mice.

Yu W, Mookherjee S, Chaitankar V, Hiriyanna S, Kim JW, Brooks M, Ataeijannati Y, Sun X, Dong L, Li T, Swaroop A, Wu Z.

Nat Commun. 2017 Mar 14;8:14716. doi: 10.1038/ncomms14716.


A small plant with big benefits: Fenugreek (Trigonella foenum-graecum Linn.) for disease prevention and health promotion.

Nagulapalli Venkata KC, Swaroop A, Bagchi D, Bishayee A.

Mol Nutr Food Res. 2017 Jun;61(6). doi: 10.1002/mnfr.201600950. Epub 2017 Apr 27. Review.


The Role of Nuclear Receptor-Binding SET Domain Family Histone Lysine Methyltransferases in Cancer.

Bennett RL, Swaroop A, Troche C, Licht JD.

Cold Spring Harb Perspect Med. 2017 Jun 1;7(6). pii: a026708. doi: 10.1101/cshperspect.a026708. Review.


Efficacy of FurosapTM, a novel Trigonella foenum-graecum seed extract, in Enhancing Testosterone Level and Improving Sperm Profile in Male Volunteers.

Maheshwari A, Verma N, Swaroop A, Bagchi M, Preuss HG, Tiwari K, Bagchi D.

Int J Med Sci. 2017 Jan 10;14(1):58-66. doi: 10.7150/ijms.17256. eCollection 2017.


Molecular Diagnosis of Inherited Retinal Diseases in Indigenous African Populations by Whole-Exome Sequencing.

Roberts L, Ratnapriya R, du Plessis M, Chaitankar V, Ramesar RS, Swaroop A.

Invest Ophthalmol Vis Sci. 2016 Nov 1;57(14):6374-6381. doi: 10.1167/iovs.16-19785.


NRL-Regulated Transcriptome Dynamics of Developing Rod Photoreceptors.

Kim JW, Yang HJ, Brooks MJ, Zelinger L, Karakülah G, Gotoh N, Boleda A, Gieser L, Giuste F, Whitaker DT, Walton A, Villasmil R, Barb JJ, Munson PJ, Kaya KD, Chaitankar V, Cogliati T, Swaroop A.

Cell Rep. 2016 Nov 22;17(9):2460-2473. doi: 10.1016/j.celrep.2016.10.074.

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