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Items: 1 to 50 of 113

1.

The conserved histone chaperone LIN-53 is required for normal lifespan and maintenance of muscle integrity in Caenorhabditis elegans.

Müthel S, Uyar B, He M, Krause A, Vitrinel B, Bulut S, Vasiljevic D, Marchal I, Kempa S, Akalin A, Tursun B.

Aging Cell. 2019 Aug 9:e13012. doi: 10.1111/acel.13012. [Epub ahead of print]

2.

Insulin Receptor Substrate-1 (IRS-1) and IRS-2 expression levels are associated with prognosis in non-small cell lung cancer (NSCLC).

Piper AJ, Clark JL, Mercado-Matos J, Matthew-Onabanjo AN, Hsieh CC, Akalin A, Shaw LM.

PLoS One. 2019 Aug 8;14(8):e0220567. doi: 10.1371/journal.pone.0220567. eCollection 2019.

3.

Evaluation of exercise capacity using two field tests in patients with metabolic syndrome.

Bozdemir Ozel C, Arikan H, Demirtas RN, Saglam M, Calik-Kutukcu E, Vardar-Yagli N, Inal-Ince D, Akalin A, Celer O, Sonbahar-Ulu H, Cakmak A.

Disabil Rehabil. 2019 Aug 8:1-7. doi: 10.1080/09638288.2019.1648569. [Epub ahead of print]

PMID:
31393177
4.

Keratin 17 identifies the most lethal molecular subtype of pancreatic cancer.

Roa-Peña L, Leiton CV, Babu S, Pan CH, Vanner EA, Akalin A, Bandovic J, Moffitt RA, Shroyer KR, Escobar-Hoyos LF.

Sci Rep. 2019 Aug 2;9(1):11239. doi: 10.1038/s41598-019-47519-4.

5.

Psychiatric symptom rate of patients with Diabetes Mellitus: A case control study.

Dogan B, Oner C, Akalin AA, Ilhan B, Caklili OT, Oguz A.

Diabetes Metab Syndr. 2019 Mar - Apr;13(2):1059-1063. doi: 10.1016/j.dsx.2019.01.045. Epub 2019 Jan 23.

PMID:
31336444
6.

HOT or not: examining the basis of high-occupancy target regions.

Wreczycka K, Franke V, Uyar B, Wurmus R, Bulut S, Tursun B, Akalin A.

Nucleic Acids Res. 2019 Jun 20;47(11):5735-5745. doi: 10.1093/nar/gkz460.

7.

Global identification of functional microRNA-mRNA interactions in Drosophila.

Wessels HH, Lebedeva S, Hirsekorn A, Wurmus R, Akalin A, Mukherjee N, Ohler U.

Nat Commun. 2019 Apr 9;10(1):1626. doi: 10.1038/s41467-019-09586-z.

8.

A 54-Year-Old Man Presenting With Progressive Dyspnea and Interstitial Lung Abnormalities.

Huang L, Touray S, Akalin A, Ahmad S.

Chest. 2019 Mar;155(3):e69-e74. doi: 10.1016/j.chest.2018.07.039.

9.

Autocrine LTA signaling drives NF-κB and JAK-STAT activity and myeloid gene expression in Hodgkin lymphoma.

von Hoff L, Kärgel E, Franke V, McShane E, Schulz-Beiss KW, Patone G, Schleussner N, Kolesnichenko M, Hübner N, Daumke O, Selbach M, Akalin A, Mathas S, Scheidereit C.

Blood. 2019 Mar 28;133(13):1489-1494. doi: 10.1182/blood-2018-08-871293. Epub 2019 Jan 29.

PMID:
30696620
10.

Long non-coding RNAs defining major subtypes of B cell precursor acute lymphoblastic leukemia.

James AR, Schroeder MP, Neumann M, Bastian L, Eckert C, Gökbuget N, Tanchez JO, Schlee C, Isaakidis K, Schwartz S, Burmeister T, von Stackelberg A, Rieger MA, Göllner S, Horstman M, Schrappe M, Kirschner-Schwabe R, Brüggemann M, Müller-Tidow C, Serve H, Akalin A, Baldus CD.

J Hematol Oncol. 2019 Jan 14;12(1):8. doi: 10.1186/s13045-018-0692-3.

11.

Alternative 3' UTRs direct localization of functionally diverse protein isoforms in neuronal compartments.

Ciolli Mattioli C, Rom A, Franke V, Imami K, Arrey G, Terne M, Woehler A, Akalin A, Ulitsky I, Chekulaeva M.

Nucleic Acids Res. 2019 Mar 18;47(5):2560-2573. doi: 10.1093/nar/gky1270.

12.

Deciphering human ribonucleoprotein regulatory networks.

Mukherjee N, Wessels HH, Lebedeva S, Sajek M, Ghanbari M, Garzia A, Munteanu A, Yusuf D, Farazi T, Hoell JI, Akat KM, Akalin A, Tuschl T, Ohler U.

Nucleic Acids Res. 2019 Jan 25;47(2):570-581. doi: 10.1093/nar/gky1185.

13.

The IκB kinase complex is a regulator of mRNA stability.

Mikuda N, Kolesnichenko M, Beaudette P, Popp O, Uyar B, Sun W, Tufan AB, Perder B, Akalin A, Chen W, Mertins P, Dittmar G, Hinz M, Scheidereit C.

EMBO J. 2018 Dec 14;37(24). pii: e98658. doi: 10.15252/embj.201798658. Epub 2018 Nov 22.

PMID:
30467221
14.

PiGx: reproducible genomics analysis pipelines with GNU Guix.

Wurmus R, Uyar B, Osberg B, Franke V, Gosdschan A, Wreczycka K, Ronen J, Akalin A.

Gigascience. 2018 Dec 1;7(12). doi: 10.1093/gigascience/giy123.

15.

Mutations in Disordered Regions Can Cause Disease by Creating Dileucine Motifs.

Meyer K, Kirchner M, Uyar B, Cheng JY, Russo G, Hernandez-Miranda LR, Szymborska A, Zauber H, Rudolph IM, Willnow TE, Akalin A, Haucke V, Gerhardt H, Birchmeier C, Kühn R, Krauss M, Diecke S, Pascual JM, Selbach M.

Cell. 2018 Sep 20;175(1):239-253.e17. doi: 10.1016/j.cell.2018.08.019. Epub 2018 Sep 6.

16.

Resolving Interobserver Discrepancies in Lung Cancer Diagnoses by Spectral Histopathology.

Akalin A, Ergin A, Remiszewski S, Mu X, Raz D, Diem M.

Arch Pathol Lab Med. 2019 Feb;143(2):157-173. doi: 10.5858/arpa.2017-0476-SA. Epub 2018 Aug 24.

PMID:
30141697
17.

FACT Sets a Barrier for Cell Fate Reprogramming in Caenorhabditis elegans and Human Cells.

Kolundzic E, Ofenbauer A, Bulut SI, Uyar B, Baytek G, Sommermeier A, Seelk S, He M, Hirsekorn A, Vucicevic D, Akalin A, Diecke S, Lacadie SA, Tursun B.

Dev Cell. 2018 Sep 10;46(5):611-626.e12. doi: 10.1016/j.devcel.2018.07.006. Epub 2018 Aug 2.

18.

netSmooth: Network-smoothing based imputation for single cell RNA-seq.

Ronen J, Akalin A.

Version 3. F1000Res. 2018 Jan 3 [revised 2018 Jan 1];7:8. doi: 10.12688/f1000research.13511.3. eCollection 2018.

19.

Nuclear Organization in the Spinal Cord Depends on Motor Neuron Lamination Orchestrated by Catenin and Afadin Function.

Dewitz C, Pimpinella S, Hackel P, Akalin A, Jessell TM, Zampieri N.

Cell Rep. 2018 Feb 13;22(7):1681-1694. doi: 10.1016/j.celrep.2018.01.059.

20.

B7-H4 is Inversely Correlated With T-Cell Infiltration in Clear Cell but Not Serous or Endometrioid Ovarian Cancer.

Pagnotti GM, Atkinson RM, Romeiser J, Akalin A, Korman MB, Shroyer KR.

Appl Immunohistochem Mol Morphol. 2019 Aug;27(7):515-522. doi: 10.1097/PAI.0000000000000608.

PMID:
29189263
21.

Vaccination with Recombinant Cryptococcus Proteins in Glucan Particles Protects Mice against Cryptococcosis in a Manner Dependent upon Mouse Strain and Cryptococcal Species.

Specht CA, Lee CK, Huang H, Hester MM, Liu J, Luckie BA, Torres Santana MA, Mirza Z, Khoshkenar P, Abraham A, Shen ZT, Lodge JK, Akalin A, Homan J, Ostroff GR, Levitz SM.

MBio. 2017 Nov 28;8(6). pii: e01872-17. doi: 10.1128/mBio.01872-17.

22.

Enrichment of probiotic ice cream with different dietary fibers: Structural characteristics and culture viability.

Akalın AS, Kesenkas H, Dinkci N, Unal G, Ozer E, Kınık O.

J Dairy Sci. 2018 Jan;101(1):37-46. doi: 10.3168/jds.2017-13468. Epub 2017 Nov 2.

23.

Widespread activation of antisense transcription of the host genome during herpes simplex virus 1 infection.

Wyler E, Menegatti J, Franke V, Kocks C, Boltengagen A, Hennig T, Theil K, Rutkowski A, Ferrai C, Baer L, Kermas L, Friedel C, Rajewsky N, Akalin A, Dölken L, Grässer F, Landthaler M.

Genome Biol. 2017 Oct 31;18(1):209. doi: 10.1186/s13059-017-1329-5.

24.

RNA polymerase II primes Polycomb-repressed developmental genes throughout terminal neuronal differentiation.

Ferrai C, Torlai Triglia E, Risner-Janiczek JR, Rito T, Rackham OJ, de Santiago I, Kukalev A, Nicodemi M, Akalin A, Li M, Ungless MA, Pombo A.

Mol Syst Biol. 2017 Oct 16;13(10):946. doi: 10.15252/msb.20177754.

25.

RNA localization is a key determinant of neurite-enriched proteome.

Zappulo A, van den Bruck D, Ciolli Mattioli C, Franke V, Imami K, McShane E, Moreno-Estelles M, Calviello L, Filipchyk A, Peguero-Sanchez E, Müller T, Woehler A, Birchmeier C, Merino E, Rajewsky N, Ohler U, Mazzoni EO, Selbach M, Akalin A, Chekulaeva M.

Nat Commun. 2017 Sep 19;8(1):583. doi: 10.1038/s41467-017-00690-6.

26.

Strategies for analyzing bisulfite sequencing data.

Wreczycka K, Gosdschan A, Yusuf D, Grüning B, Assenov Y, Akalin A.

J Biotechnol. 2017 Nov 10;261:105-115. doi: 10.1016/j.jbiotec.2017.08.007. Epub 2017 Aug 16. Review.

27.

Keratin 17 Is a Prognostic Biomarker in Endocervical Glandular Neoplasia.

Mockler D, Escobar-Hoyos LF, Akalin A, Romeiser J, Shroyer AL, Shroyer KR.

Am J Clin Pathol. 2017 Sep 1;148(3):264-273. doi: 10.1093/ajcp/aqx077.

PMID:
28821199
28.

The RNA workbench: best practices for RNA and high-throughput sequencing bioinformatics in Galaxy.

Grüning BA, Fallmann J, Yusuf D, Will S, Erxleben A, Eggenhofer F, Houwaart T, Batut B, Videm P, Bagnacani A, Wolfien M, Lott SC, Hoogstrate Y, Hess WR, Wolkenhauer O, Hoffmann S, Akalin A, Ohler U, Stadler PF, Backofen R.

Nucleic Acids Res. 2017 Jul 3;45(W1):W560-W566. doi: 10.1093/nar/gkx409.

29.

RCAS: an RNA centric annotation system for transcriptome-wide regions of interest.

Uyar B, Yusuf D, Wurmus R, Rajewsky N, Ohler U, Akalin A.

Nucleic Acids Res. 2017 Jun 2;45(10):e91. doi: 10.1093/nar/gkx120.

30.

Central Role of IL-23 and IL-17 Producing Eosinophils as Immunomodulatory Effector Cells in Acute Pulmonary Aspergillosis and Allergic Asthma.

Guerra ES, Lee CK, Specht CA, Yadav B, Huang H, Akalin A, Huh JR, Mueller C, Levitz SM.

PLoS Pathog. 2017 Jan 17;13(1):e1006175. doi: 10.1371/journal.ppat.1006175. eCollection 2017 Jan.

31.

The Frequency of Unplanned Rehospitalization and Associated Factors in Gyneoncology Patients: A Retrospective Study.

Pinar G, Akalin A, Erbaba H, Acar GB, Avsar F, Pinar T.

Int J Gynecol Cancer. 2017 Jan;27(1):183-188. doi: 10.1097/IGC.0000000000000852.

PMID:
27870713
32.

The prevalence and risk factors for osteoporosis among 18- to 49-year-old Turkish women.

Pinar G, Kaplan S, Pinar T, Akalin A, Abay H, Akyol M, Sezer N, Akkus S, Sariyildiz S, Dinc S.

Women Health. 2017 Oct;57(9):1080-1097. doi: 10.1080/03630242.2016.1243604. Epub 2016 Oct 4.

PMID:
27700695
33.

Effect of teriparatide treatment on endothelial function, glucose metabolism and inflammation markers in patients with postmenopausal osteoporosis.

Celer O, Akalın A, Oztunali C.

Clin Endocrinol (Oxf). 2016 Oct;85(4):556-60. doi: 10.1111/cen.13139. Epub 2016 Jul 19.

PMID:
27321876
34.

Reference ranges of handgrip strength from 125,462 healthy adults in 21 countries: a prospective urban rural epidemiologic (PURE) study.

Leong DP, Teo KK, Rangarajan S, Kutty VR, Lanas F, Hui C, Quanyong X, Zhenzhen Q, Jinhua T, Noorhassim I, AlHabib KF, Moss SJ, Rosengren A, Akalin AA, Rahman O, Chifamba J, Orlandini A, Kumar R, Yeates K, Gupta R, Yusufali A, Dans A, Avezum Á, Lopez-Jaramillo P, Poirier P, Heidari H, Zatonska K, Iqbal R, Khatib R, Yusuf S.

J Cachexia Sarcopenia Muscle. 2016 Dec;7(5):535-546. Epub 2016 Apr 12.

35.

Infrared micro-spectroscopy of human tissue: principles and future promises.

Diem M, Ergin A, Remiszewski S, Mu X, Akalin A, Raz D.

Faraday Discuss. 2016 Jun 23;187:9-42. doi: 10.1039/c6fd00023a. Review.

PMID:
27075634
36.

Carotid intima-media thickness and ınsulin resistance changes in patients who underwent sleeve gastrectomy: A prospective study.

Yorulmaz G, Cilekar M, Bilge U, Akcan E, Akalin A.

Niger J Clin Pract. 2016 May-Jun;19(3):344-8. doi: 10.4103/1119-3077.179280.

37.

Multifocal Langerhans Cell Histiocytosis in an Adult.

Nielsen N, Akalin A, Sirkis HM, Most MJ.

Am J Orthop (Belle Mead NJ). 2015 Dec;44(12):563-8.

PMID:
26665244
38.

The Effect of Hyperparathyroid State on Platelet Functions and Bone Loss.

Yorulmaz G, Akalın A, Akay OM, Şahin G, Bal C.

Turk J Haematol. 2016 Dec 1;33(4):293-298. doi: 10.4274/tjh.2015.0087. Epub 2015 Aug 6.

39.

Development and validation of a semi-quantitative food frequency questionnaire to assess dietary intake in Turkish adults.

Gunes FE, Imeryuz N, Akalin A, Bekiroglu N, Alphan E, Oguz A, Dehghan M.

J Pak Med Assoc. 2015 Jul;65(7):756-63.

40.

Keratin-17 Promotes p27KIP1 Nuclear Export and Degradation and Offers Potential Prognostic Utility.

Escobar-Hoyos LF, Shah R, Roa-Peña L, Vanner EA, Najafian N, Banach A, Nielsen E, Al-Khalil R, Akalin A, Talmage D, Shroyer KR.

Cancer Res. 2015 Sep 1;75(17):3650-62. doi: 10.1158/0008-5472.CAN-15-0293. Epub 2015 Jun 24.

41.

The effects of atorvastatin on antioxidant/antiinflammatory properties of HDLs in hypercholesterolemics.

Akalin Çiftçi G, Ertorun İ, Akalin A, Alataş İÖ, Musmul A.

Turk J Med Sci. 2015;45(2):345-51.

PMID:
26084126
42.

Classification of malignant and benign tumors of the lung by infrared spectral histopathology (SHP).

Akalin A, Mu X, Kon MA, Ergin A, Remiszewski SH, Thompson CM, Raz DJ, Diem M.

Lab Invest. 2015 Jun;95(6):697. doi: 10.1038/labinvest.2015.55. No abstract available.

43.

Relationship between 1,25-dihydroxy Vitamin D levels and homeostatic model assessment insulin resistance values in obese subjects.

Bilge U, Ünalacak M, Ünlüoglu I, Ipek M, Çeler Ö, Akalin A.

Niger J Clin Pract. 2015 May-Jun;18(3):377-80. doi: 10.4103/1119-3077.151757.

44.

Statistical analysis of a lung cancer spectral histopathology (SHP) data set.

Mu X, Kon M, Ergin A, Remiszewski S, Akalin A, Thompson CM, Diem M.

Analyst. 2015 Apr 7;140(7):2449-64. doi: 10.1039/c4an01832j.

PMID:
25664623
45.

Classification of malignant and benign tumors of the lung by infrared spectral histopathology (SHP).

Akalin A, Mu X, Kon MA, Ergin A, Remiszewski SH, Thompson CM, Raz DJ, Diem M, Bird B, Miljković M.

Lab Invest. 2015 Apr;95(4):406-21. doi: 10.1038/labinvest.2015.1. Epub 2015 Feb 9. Erratum in: Lab Invest. 2015 Jun;95(6):697. Bird, Benjamin and Miljković, Miloš [Added].

46.

Genomic profiling of DNA methyltransferases reveals a role for DNMT3B in genic methylation.

Baubec T, Colombo DF, Wirbelauer C, Schmidt J, Burger L, Krebs AR, Akalin A, Schübeler D.

Nature. 2015 Apr 9;520(7546):243-7. doi: 10.1038/nature14176. Epub 2015 Jan 21.

PMID:
25607372
47.

Utility of liquid-based cytologic examination of distal esophageal brushings in the management of Barrett esophagus: a prospective study of 45 cases.

Walavalkar V, Patwardhan RV, Owens CL, Lithgow M, Wang X, Akalin A, Nompleggi DJ, Zivny J, Wassef W, Marshall C, Levey J, Walter O, Fischer AH.

J Am Soc Cytopathol. 2015 May - Jun;4(3):113-121. doi: 10.1016/j.jasc.2014.09.208. Epub 2014 Oct 2.

PMID:
31051691
48.

Genomation: a toolkit to summarize, annotate and visualize genomic intervals.

Akalin A, Franke V, Vlahoviček K, Mason CE, Schübeler D.

Bioinformatics. 2015 Apr 1;31(7):1127-9. doi: 10.1093/bioinformatics/btu775. Epub 2014 Nov 21.

PMID:
25417204
49.

DoRiNA 2.0--upgrading the doRiNA database of RNA interactions in post-transcriptional regulation.

Blin K, Dieterich C, Wurmus R, Rajewsky N, Landthaler M, Akalin A.

Nucleic Acids Res. 2015 Jan;43(Database issue):D160-7. doi: 10.1093/nar/gku1180. Epub 2014 Nov 21.

50.

Multifocal Rhizopus microsporus lung infection following brush clearing.

Tsyrkunou AV, Ellison RT 3rd, Akalin A, Wiederhold N, Sutton DA, Lindner J, Fan H, Levitz SM, Zivna I.

Med Mycol Case Rep. 2014 Aug 8;6:14-7. doi: 10.1016/j.mmcr.2014.08.001. eCollection 2014 Oct.

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