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Items: 1 to 50 of 104

1.

Peripheral blood mononuclear cell proteome profile in Behçet's syndrome.

Kirectepe Aydin A, Özgüler Y, Uçar D, Kasap M, Akpınar G, Seyahi E, Tahir Turanli E.

Rheumatol Int. 2019 Aug 14. doi: 10.1007/s00296-019-04417-2. [Epub ahead of print]

PMID:
31414226
2.

Multiomic Profiling Identifies cis-Regulatory Networks Underlying Human Pancreatic β Cell Identity and Function.

Lawlor N, Márquez EJ, Orchard P, Narisu N, Shamim MS, Thibodeau A, Varshney A, Kursawe R, Erdos MR, Kanke M, Gu H, Pak E, Dutra A, Russell S, Li X, Piecuch E, Luo O, Chines PS, Fuchbserger C; NIH Intramural Sequencing Center, Sethupathy P, Aiden AP, Ruan Y, Aiden EL, Collins FS, Ucar D, Parker SCJ, Stitzel ML.

Cell Rep. 2019 Jan 15;26(3):788-801.e6. doi: 10.1016/j.celrep.2018.12.083.

3.

Cell Specificity of Human Regulatory Annotations and Their Genetic Effects on Gene Expression.

Varshney A, VanRenterghem H, Orchard P, Boyle AP, Stitzel ML, Ucar D, Parker SCJ.

Genetics. 2019 Feb;211(2):549-562. doi: 10.1534/genetics.118.301525. Epub 2018 Dec 28.

PMID:
30593493
4.

Notch Signaling Regulates Mitochondrial Metabolism and NF-κB Activity in Triple-Negative Breast Cancer Cells via IKKα-Dependent Non-canonical Pathways.

Hossain F, Sorrentino C, Ucar DA, Peng Y, Matossian M, Wyczechowska D, Crabtree J, Zabaleta J, Morello S, Del Valle L, Burow M, Collins-Burow B, Pannuti A, Minter LM, Golde TE, Osborne BA, Miele L.

Front Oncol. 2018 Dec 4;8:575. doi: 10.3389/fonc.2018.00575. eCollection 2018.

5.

A CD4+ T cell population expanded in lupus blood provides B cell help through interleukin-10 and succinate.

Caielli S, Veiga DT, Balasubramanian P, Athale S, Domic B, Murat E, Banchereau R, Xu Z, Chandra M, Chung CH, Walters L, Baisch J, Wright T, Punaro M, Nassi L, Stewart K, Fuller J, Ucar D, Ueno H, Zhou J, Banchereau J, Pascual V.

Nat Med. 2019 Jan;25(1):75-81. doi: 10.1038/s41591-018-0254-9. Epub 2018 Nov 26.

6.

Detection of correlated hidden factors from single cell transcriptomes using Iteratively Adjusted-SVA (IA-SVA).

Lee D, Cheng A, Lawlor N, Bolisetty M, Ucar D.

Sci Rep. 2018 Nov 19;8(1):17040. doi: 10.1038/s41598-018-35365-9.

7.

BiFET: sequencing Bias-free transcription factor Footprint Enrichment Test.

Youn A, Marquez EJ, Lawlor N, Stitzel ML, Ucar D.

Nucleic Acids Res. 2019 Jan 25;47(2):e11. doi: 10.1093/nar/gky1117.

8.

A neural network based model effectively predicts enhancers from clinical ATAC-seq samples.

Thibodeau A, Uyar A, Khetan S, Stitzel ML, Ucar D.

Sci Rep. 2018 Oct 30;8(1):16048. doi: 10.1038/s41598-018-34420-9.

9.

Retinal Nerve Fiber Layer Thickness Alterations after Electroconvulsive Therapy in Patients with Mental Illness.

Ucar D, Yıldız N, Hepokur M, Baltu F, Guliyev E, Emul M, Sarıcı AM.

Semin Ophthalmol. 2018;33(7-8):852-857. doi: 10.1080/08820538.2018.1538419. Epub 2018 Oct 23.

PMID:
30351990
10.

Type 2 Diabetes-Associated Genetic Variants Regulate Chromatin Accessibility in Human Islets.

Khetan S, Kursawe R, Youn A, Lawlor N, Jillette A, Marquez EJ, Ucar D, Stitzel ML.

Diabetes. 2018 Nov;67(11):2466-2477. doi: 10.2337/db18-0393. Epub 2018 Sep 4.

11.

Notch Signaling in Myeloid Cells as a Regulator of Tumor Immune Responses.

Hossain F, Majumder S, Ucar DA, Rodriguez PC, Golde TE, Minter LM, Osborne BA, Miele L.

Front Immunol. 2018 Jun 4;9:1288. doi: 10.3389/fimmu.2018.01288. eCollection 2018. Review.

12.

A Common Type 2 Diabetes Risk Variant Potentiates Activity of an Evolutionarily Conserved Islet Stretch Enhancer and Increases C2CD4A and C2CD4B Expression.

Kycia I, Wolford BN, Huyghe JR, Fuchsberger C, Vadlamudi S, Kursawe R, Welch RP, Albanus RD, Uyar A, Khetan S, Lawlor N, Bolisetty M, Mathur A, Kuusisto J, Laakso M, Ucar D, Mohlke KL, Boehnke M, Collins FS, Parker SCJ, Stitzel ML.

Am J Hum Genet. 2018 Apr 5;102(4):620-635. doi: 10.1016/j.ajhg.2018.02.020.

13.

I-ATAC: interactive pipeline for the management and pre-processing of ATAC-seq samples.

Ahmed Z, Ucar D.

PeerJ. 2017 Nov 22;5:e4040. doi: 10.7717/peerj.4040. eCollection 2017.

14.

Infliximab for uveitis of Behçet's syndrome: a trend for earlier initiation.

Guzelant G, Ucar D, Esatoglu SN, Hatemi G, Ozyazgan Y, Yurdakul S, Seyahi E, Yazici H, Hamuryudan V.

Clin Exp Rheumatol. 2017 Nov-Dec;35 Suppl 108(6):86-89. Epub 2017 Oct 24.

15.

Chromatin interaction networks revealed unique connectivity patterns of broad H3K4me3 domains and super enhancers in 3D chromatin.

Thibodeau A, Márquez EJ, Shin DG, Vera-Licona P, Ucar D.

Sci Rep. 2017 Oct 31;7(1):14466. doi: 10.1038/s41598-017-14389-7.

16.

Alpha TC1 and Beta-TC-6 genomic profiling uncovers both shared and distinct transcriptional regulatory features with their primary islet counterparts.

Lawlor N, Youn A, Kursawe R, Ucar D, Stitzel ML.

Sci Rep. 2017 Sep 20;7(1):11959. doi: 10.1038/s41598-017-12335-1.

17.

The chromatin accessibility signature of human immune aging stems from CD8+ T cells.

Ucar D, Márquez EJ, Chung CH, Marches R, Rossi RJ, Uyar A, Wu TC, George J, Stitzel ML, Palucka AK, Kuchel GA, Banchereau J.

J Exp Med. 2017 Oct 2;214(10):3123-3144. doi: 10.1084/jem.20170416. Epub 2017 Sep 13.

18.

Behçet's syndrome: providing integrated care.

Esatoglu SN, Kutlubay Z, Ucar D, Hatemi I, Uygunoglu U, Siva A, Hatemi G.

J Multidiscip Healthc. 2017 Aug 14;10:309-319. doi: 10.2147/JMDH.S93681. eCollection 2017. Review.

19.

An Overview of Electron Acceptors in Microbial Fuel Cells.

Ucar D, Zhang Y, Angelidaki I.

Front Microbiol. 2017 Apr 19;8:643. doi: 10.3389/fmicb.2017.00643. eCollection 2017. Review.

20.

Genomics of Islet (Dys)function and Type 2 Diabetes.

Lawlor N, Khetan S, Ucar D, Stitzel ML.

Trends Genet. 2017 Apr;33(4):244-255. doi: 10.1016/j.tig.2017.01.010. Epub 2017 Feb 27. Review.

21.

Post operative pain management in shoulder surgery: Suprascapular and axillary nerve block by arthroscope assisted catheter placement.

Basat HÇ, Uçar DH, Armangil M, Güçlü B, Demirtaş M.

Indian J Orthop. 2016 Nov-Dec;50(6):584-589.

22.

The false-positive responses of analgesic drugs to the intradermal serotonin- and compound 48/80-induced scratches as an animal model of itch.

Ilkaya F, Yesilyurt O, Seyrek M, Gunduz O, Ide T, Akar A, Ulugol A, Guzel H, Dogrul A, Ucar D, Gunaydin C.

Acta Neurobiol Exp (Wars). 2016;76(3):234-43.

23.

Computational inference of a genomic pluripotency signature in human and mouse stem cells.

Kurum E, Benayoun BA, Malhotra A, George J, Ucar D.

Biol Direct. 2016 Sep 17;11:47. doi: 10.1186/s13062-016-0148-z.

24.

Leukaemia cell of origin identified by chromatin landscape of bulk tumour cells.

George J, Uyar A, Young K, Kuffler L, Waldron-Francis K, Marquez E, Ucar D, Trowbridge JJ.

Nat Commun. 2016 Jul 11;7:12166. doi: 10.1038/ncomms12166.

25.

QuIN: A Web Server for Querying and Visualizing Chromatin Interaction Networks.

Thibodeau A, Márquez EJ, Luo O, Ruan Y, Menghi F, Shin DG, Stitzel ML, Vera-Licona P, Ucar D.

PLoS Comput Biol. 2016 Jun 23;12(6):e1004809. doi: 10.1371/journal.pcbi.1004809. eCollection 2016 Jun.

26.

Ocular Inflammatory Disorders in Autoimmune Lymphoproliferative Syndrome (ALPS).

Ucar D, Kim JS, Bishop RJ, Nussenblatt RB, Rao VK, Sen HN.

Ocul Immunol Inflamm. 2017 Oct;25(5):703-709. doi: 10.1080/09273948.2016.1175637. Epub 2016 May 26.

27.

The tandem duplicator phenotype as a distinct genomic configuration in cancer.

Menghi F, Inaki K, Woo X, Kumar PA, Grzeda KR, Malhotra A, Yadav V, Kim H, Marquez EJ, Ucar D, Shreckengast PT, Wagner JP, MacIntyre G, Murthy Karuturi KR, Scully R, Keck J, Chuang JH, Liu ET.

Proc Natl Acad Sci U S A. 2016 Apr 26;113(17):E2373-82. doi: 10.1073/pnas.1520010113. Epub 2016 Apr 7.

28.

Computational inference of H3K4me3 and H3K27ac domain length.

Zubek J, Stitzel ML, Ucar D, Plewczynski DM.

PeerJ. 2016 Mar 14;4:e1750. doi: 10.7717/peerj.1750. eCollection 2016.

29.

A novel elemental sulfur-based mixotrophic denitrifying membrane bioreactor for simultaneous Cr(VI) and nitrate reduction.

Sahinkaya E, Yurtsever A, Ucar D.

J Hazard Mater. 2017 Feb 15;324(Pt A):15-21. doi: 10.1016/j.jhazmat.2016.02.032. Epub 2016 Feb 15.

PMID:
26906435
30.

Comparison of therapeutic duration of therapeutic ultrasound in patients with knee osteoarthritis.

Yıldırıım MA, Uçar D, Öneş K.

J Phys Ther Sci. 2015 Dec;27(12):3667-70. doi: 10.1589/jpts.27.3667. Epub 2015 Dec 28.

32.

H3K4me3 Breadth Is Linked to Cell Identity and Transcriptional Consistency.

Benayoun BA, Pollina EA, Ucar D, Mahmoudi S, Karra K, Wong ED, Devarajan K, Daugherty AC, Kundaje AB, Mancini E, Hitz BC, Gupta R, Rando TA, Baker JC, Snyder MP, Cherry JM, Brunet A.

Cell. 2015 Nov 19;163(5):1281-1286. doi: 10.1016/j.cell.2015.10.051. Epub 2015 Nov 19. No abstract available.

33.

Temperament and Character Traits in Patients with Behçet's Disease with/without Eye Involvement.

Ucar D, Yıldırım Y, Gultekin G, Ozyazgan Y, Emul M.

Semin Ophthalmol. 2017;32(2):210-215. doi: 10.3109/08820538.2015.1053624. Epub 2015 Aug 20.

PMID:
26291559
34.

Transcriptional Regulation of the Pancreatic Islet: Implications for Islet Function.

Stitzel ML, Kycia I, Kursawe R, Ucar D.

Curr Diab Rep. 2015 Sep;15(9):66. doi: 10.1007/s11892-015-0635-0. Review.

35.

Heterotrophic-autotrophic sequential system for reductive nitrate and perchlorate removal.

Ucar D, Cokgor EU, Sahinkaya E.

Environ Technol. 2016;37(2):183-91. doi: 10.1080/09593330.2015.1065009. Epub 2015 Jul 20. Erratum in: Environ Technol. 2016;37(2):292.

PMID:
26102288
36.

Performances of anaerobic and aerobic membrane bioreactors for the treatment of synthetic textile wastewater.

Yurtsever A, Sahinkaya E, Aktaş Ö, Uçar D, Çınar Ö, Wang Z.

Bioresour Technol. 2015 Sep;192:564-73. doi: 10.1016/j.biortech.2015.06.024. Epub 2015 Jun 10.

PMID:
26093251
37.

Treatment of hypertriglyceridemia-induced acute pancreatitis with insulin.

Coskun A, Erkan N, Yakan S, Yildirim M, Carti E, Ucar D, Oymaci E.

Prz Gastroenterol. 2015;10(1):18-22. doi: 10.5114/pg.2014.45412. Epub 2015 Jan 14.

38.

Retinal nerve fiber layer structure abnormalities in patients with Neuro-Behcet's disease.

Ucar D, Uygunoglu U, Dikkaya F, Yıldırım Y, Yuksel-Elgin C, Saip S, Siva A, Ozyazgan Y.

Graefes Arch Clin Exp Ophthalmol. 2015 Jul;253(7):1181-5. doi: 10.1007/s00417-015-3040-0. Epub 2015 May 9.

PMID:
25957000
39.

Cell-specific gene promoters are marked by broader spans of H3K4me3 and are associated with robust gene expression patterns.

Ucar D, Bayarsaihan D.

Epigenomics. 2015;7(2):129-31. doi: 10.2217/epi.14.87. No abstract available.

40.

Can empirical hypertonic saline or sodium bicarbonate treatment prevent the development of cardiotoxicity during serious amitriptyline poisoning? Experimental research.

Paksu MS, Zengin H, Ilkaya F, Paksu S, Guzel H, Ucar D, Uzun A, Alacam H, Duran L, Murat N, Guzel A.

Cardiovasc J Afr. 2015 May-Jun;26(3):134-9. doi: 10.5830/CVJA-2015-014. Epub 2015 May 5.

41.

A FAK scaffold inhibitor disrupts FAK and VEGFR-3 signaling and blocks melanoma growth by targeting both tumor and endothelial cells.

Kurenova E, Ucar D, Liao J, Yemma M, Gogate P, Bshara W, Sunar U, Seshadri M, Hochwald SN, Cance WG.

Cell Cycle. 2014;13(16):2542-53. doi: 10.4161/15384101.2015.941760.

42.

Serum relaxin levels in benign hypermobility syndrome.

Em S, Oktayoglu P, Bozkurt M, Caglayan M, Karakoc M, Ucar D, Verim S, Yildiz I, Sariyildiz MA, Evliyaoglu O, Nas K.

J Back Musculoskelet Rehabil. 2015;28(3):473-9. doi: 10.3233/BMR-140543.

PMID:
25322737
43.

Developmental enhancers are marked independently of zygotic Nodal signals in Xenopus.

Gupta R, Wills A, Ucar D, Baker J.

Dev Biol. 2014 Nov 1;395(1):38-49. doi: 10.1016/j.ydbio.2014.08.034. Epub 2014 Sep 6.

44.

H3K4me3 breadth is linked to cell identity and transcriptional consistency.

Benayoun BA, Pollina EA, Ucar D, Mahmoudi S, Karra K, Wong ED, Devarajan K, Daugherty AC, Kundaje AB, Mancini E, Hitz BC, Gupta R, Rando TA, Baker JC, Snyder MP, Cherry JM, Brunet A.

Cell. 2014 Jul 31;158(3):673-88. doi: 10.1016/j.cell.2014.06.027. Erratum in: Cell. 2015 Nov 19;163(5):1281-6.

45.

Gender disparities in ocular inflammatory disorders.

Sen HN, Davis J, Ucar D, Fox A, Chan CC, Goldstein DA.

Curr Eye Res. 2015 Feb;40(2):146-61. doi: 10.3109/02713683.2014.932388. Epub 2014 Jul 2. Review.

46.

Ocular Involvement of Behçet's Syndrome: a Comprehensive Review.

Ozyazgan Y, Ucar D, Hatemi G, Yazici Y.

Clin Rev Allergy Immunol. 2015 Dec;49(3):298-306. doi: 10.1007/s12016-014-8425-z. Review.

PMID:
24828904
47.

Serum prolidase enzyme activity and oxidative status in patients with fibromyalgia.

Bozkurt M, Caglayan M, Oktayoglu P, Em S, Batmaz I, Sariyildiz MA, Nas K, Ucar D, Yüksel H, Sarac AJ.

Redox Rep. 2014 Jul;19(4):148-53. doi: 10.1179/1351000213Y.0000000079. Epub 2014 Jan 3.

PMID:
24620938
48.

Serum prolidase activity in benign joint hypermobility syndrome.

Em S, Ucar D, Oktayoglu P, Bozkurt M, Caglayan M, Yıldız I, Evliyaoglu O, Nas K.

BMC Musculoskelet Disord. 2014 Mar 11;15:75. doi: 10.1186/1471-2474-15-75.

49.

Lokomat: a therapeutic chance for patients with chronic hemiplegia.

Uçar DE, Paker N, Buğdaycı D.

NeuroRehabilitation. 2014;34(3):447-53. doi: 10.3233/NRE-141054.

PMID:
24463231
50.

Sleep quality in rheumatoid arthritis: relationship between the disease severity, depression, functional status and the quality of life.

Sariyildiz MA, Batmaz I, Bozkurt M, Bez Y, Cetincakmak MG, Yazmalar L, Ucar D, Celepkolu T.

J Clin Med Res. 2014 Feb;6(1):44-52. doi: 10.4021/jocmr1648w. Epub 2013 Dec 13.

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