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Items: 1 to 50 of 65

1.

Creating Artificial Images for Radiology Applications Using Generative Adversarial Networks (GANs) - A Systematic Review.

Sorin V, Barash Y, Konen E, Klang E.

Acad Radiol. 2020 Feb 5. pii: S1076-6332(20)30021-0. doi: 10.1016/j.acra.2019.12.024. [Epub ahead of print] Review.

PMID:
32035758
2.

Automated quantitative assessment of oncological disease progression using deep learning.

Barash Y, Klang E.

Ann Transl Med. 2019 Dec;7(Suppl 8):S379. doi: 10.21037/atm.2019.12.101. No abstract available.

3.

Deep Learning for Natural Language Processing in Radiology-Fundamentals and a Systematic Review.

Sorin V, Barash Y, Konen E, Klang E.

J Am Coll Radiol. 2020 Jan 28. pii: S1546-1440(20)30003-X. doi: 10.1016/j.jacr.2019.12.026. [Epub ahead of print]

PMID:
32004480
4.

Integrative analysis reveals RNA G-quadruplexes in UTRs are selectively constrained and enriched for functional associations.

Lee DSM, Ghanem LR, Barash Y.

Nat Commun. 2020 Jan 27;11(1):527. doi: 10.1038/s41467-020-14404-y.

5.

Normal-range emergency department serum phosphorus levels and all-cause mortality.

Barash Y, Klang E, Soffer S, Zimlichman E, Leibowitz A, Grossman E, Shlomai G.

Postgrad Med J. 2020 Jan 13. pii: postgradmedj-2019-137159. doi: 10.1136/postgradmedj-2019-137159. [Epub ahead of print]

PMID:
31932356
6.

Post hemorrhoidectomy complications: CT imaging findings.

Klang E, Sobeh T, Amitai MM, Apter S, Barash Y, Tau N.

Clin Imaging. 2019 Dec 28;60(2):216-221. doi: 10.1016/j.clinimag.2019.12.015. [Epub ahead of print]

PMID:
31927497
7.

Genomic profiling of human vascular cells identifies TWIST1 as a causal gene for common vascular diseases.

Nurnberg ST, Guerraty MA, Wirka RC, Rao HS, Pjanic M, Norton S, Serrano F, Perisic L, Elwyn S, Pluta J, Zhao W, Testa S, Park Y, Nguyen T, Ko YA, Wang T, Hedin U, Sinha S, Barash Y, Brown CD, Quertermous T, Rader DJ.

PLoS Genet. 2020 Jan 9;16(1):e1008538. doi: 10.1371/journal.pgen.1008538. eCollection 2020 Jan.

8.

Efficient optical pumping of alkaline atoms for evanescent fields at dielectric-vapor interfaces.

Talker E, Arora P, Barash Y, Wilkowski D, Levy U.

Opt Express. 2019 Nov 11;27(23):33445-33458. doi: 10.1364/OE.27.033445.

PMID:
31878414
9.

Deep learning algorithms for automated detection of Crohn's disease ulcers by video capsule endoscopy.

Klang E, Barash Y, Margalit RY, Soffer S, Shimon O, Albshesh A, Ben-Horin S, Amitai MM, Eliakim R, Kopylov U.

Gastrointest Endosc. 2019 Nov 16. pii: S0016-5107(19)32428-9. doi: 10.1016/j.gie.2019.11.012. [Epub ahead of print]

PMID:
31743689
10.

Association of normal systolic blood pressure in the emergency department with higher in-hospital mortality among hypertensive patients.

Klang E, Soffer S, Shimon Shahar M, Barash Y, Apter S, Konen E, Zimlichman E, Grossman E.

J Clin Hypertens (Greenwich). 2019 Dec;21(12):1841-1848. doi: 10.1111/jch.13727. Epub 2019 Nov 19.

11.

A Gradient Boosting Machine Learning Model for Predicting Early Mortality in the Emergency Department Triage: Devising a Nine-Point Triage Score.

Klug M, Barash Y, Bechler S, Resheff YS, Tron T, Ironi A, Soffer S, Zimlichman E, Klang E.

J Gen Intern Med. 2020 Jan;35(1):220-227. doi: 10.1007/s11606-019-05512-7. Epub 2019 Nov 1.

PMID:
31677104
12.

Promoting head CT exams in the emergency department triage using a machine learning model.

Klang E, Barash Y, Soffer S, Bechler S, Resheff YS, Granot T, Shahar M, Klug M, Guralnik G, Zimlichman E, Konen E.

Neuroradiology. 2020 Feb;62(2):153-160. doi: 10.1007/s00234-019-02293-y. Epub 2019 Oct 10.

PMID:
31598737
13.

Retention of CD19 intron 2 contributes to CART-19 resistance in leukemias with subclonal frameshift mutations in CD19.

Asnani M, Hayer KE, Naqvi AS, Zheng S, Yang SY, Oldridge D, Ibrahim F, Maragkakis M, Gazzara MR, Black KL, Bagashev A, Taylor D, Mourelatos Z, Grupp SA, Barrett D, Maris JM, Sotillo E, Barash Y, Thomas-Tikhonenko A.

Leukemia. 2019 Oct 7. doi: 10.1038/s41375-019-0580-z. [Epub ahead of print] No abstract available.

PMID:
31591467
14.

Missense Mutations in NKAP Cause a Disorder of Transcriptional Regulation Characterized by Marfanoid Habitus and Cognitive Impairment.

Fiordaliso SK, Iwata-Otsubo A, Ritter AL, Quesnel-Vallières M, Fujiki K, Nishi E, Hancarova M, Miyake N, Morton JEV, Lee S, Hackmann K, Bando M, Masuda K, Nakato R, Arakawa M, Bhoj E, Li D, Hakonarson H, Takeda R, Harr M, Keena B, Zackai EH, Okamoto N, Mizuno S, Ko JM, Valachova A, Prchalova D, Vlckova M, Pippucci T, Seiler C, Choi M, Matsumoto N, Di Donato N, Barash Y, Sedlacek Z, Shirahige K, Izumi K.

Am J Hum Genet. 2019 Nov 7;105(5):987-995. doi: 10.1016/j.ajhg.2019.09.009. Epub 2019 Oct 3.

PMID:
31587868
15.

Generation of coherent mid-IR light by parametric four-wave mixing in alkali vapor.

Sebbag Y, Barash Y, Levy U.

Opt Lett. 2019 Feb 15;44(4):971-974. doi: 10.1364/OL.44.000971.

PMID:
30768033
16.

An ancient germ cell-specific RNA-binding protein protects the germline from cryptic splice site poisoning.

Ehrmann I, Crichton JH, Gazzara MR, James K, Liu Y, Grellscheid SN, Curk T, de Rooij D, Steyn JS, Cockell S, Adams IR, Barash Y, Elliott DJ.

Elife. 2019 Jan 24;8. pii: e39304. doi: 10.7554/eLife.39304.

17.

Aberrant splicing in B-cell acute lymphoblastic leukemia.

Black KL, Naqvi AS, Asnani M, Hayer KE, Yang SY, Gillespie E, Bagashev A, Pillai V, Tasian SK, Gazzara MR, Carroll M, Taylor D, Lynch KW, Barash Y, Thomas-Tikhonenko A.

Nucleic Acids Res. 2019 Jan 25;47(2):1043. doi: 10.1093/nar/gky1231. No abstract available.

18.

Aberrant splicing in B-cell acute lymphoblastic leukemia.

Black KL, Naqvi AS, Asnani M, Hayer KE, Yang SY, Gillespie E, Bagashev A, Pillai V, Tasian SK, Gazzara MR, Carroll M, Taylor D, Lynch KW, Barash Y, Thomas-Tikhonenko A.

Nucleic Acids Res. 2018 Nov 30;46(21):11357-11369. doi: 10.1093/nar/gky946. Erratum in: Nucleic Acids Res. 2019 Jan 25;47(2):1043.

19.

Poly(C)-Binding Protein Pcbp2 Enables Differentiation of Definitive Erythropoiesis by Directing Functional Splicing of the Runx1 Transcript.

Ghanem LR, Kromer A, Silverman IM, Ji X, Gazzara M, Nguyen N, Aguilar G, Martinelli M, Barash Y, Liebhaber SA.

Mol Cell Biol. 2018 Jul 30;38(16). pii: e00175-18. doi: 10.1128/MCB.00175-18. Print 2018 Aug 15.

20.

Outlier detection for improved differential splicing quantification from RNA-Seq experiments with replicates.

Norton SS, Vaquero-Garcia J, Lahens NF, Grant GR, Barash Y.

Bioinformatics. 2018 May 1;34(9):1488-1497. doi: 10.1093/bioinformatics/btx790.

21.

ESRP1 Mutations Cause Hearing Loss due to Defects in Alternative Splicing that Disrupt Cochlear Development.

Rohacek AM, Bebee TW, Tilton RK, Radens CM, McDermott-Roe C, Peart N, Kaur M, Zaykaner M, Cieply B, Musunuru K, Barash Y, Germiller JA, Krantz ID, Carstens RP, Epstein DJ.

Dev Cell. 2017 Nov 6;43(3):318-331.e5. doi: 10.1016/j.devcel.2017.09.026. Epub 2017 Oct 26.

22.

MAJIQ-SPEL: web-tool to interrogate classical and complex splicing variations from RNA-Seq data.

Green CJ, Gazzara MR, Barash Y.

Bioinformatics. 2018 Jan 15;34(2):300-302. doi: 10.1093/bioinformatics/btx565.

PMID:
28968636
23.

Transcriptome analysis of hypoxic cancer cells uncovers intron retention in EIF2B5 as a mechanism to inhibit translation.

Brady LK, Wang H, Radens CM, Bi Y, Radovich M, Maity A, Ivan C, Ivan M, Barash Y, Koumenis C.

PLoS Biol. 2017 Sep 29;15(9):e2002623. doi: 10.1371/journal.pbio.2002623. eCollection 2017 Sep.

24.

Phosphoproteomics reveals that glycogen synthase kinase-3 phosphorylates multiple splicing factors and is associated with alternative splicing.

Shinde MY, Sidoli S, Kulej K, Mallory MJ, Radens CM, Reicherter AL, Myers RL, Barash Y, Lynch KW, Garcia BA, Klein PS.

J Biol Chem. 2017 Nov 3;292(44):18240-18255. doi: 10.1074/jbc.M117.813527. Epub 2017 Sep 15.

25.

Integrative deep models for alternative splicing.

Jha A, Gazzara MR, Barash Y.

Bioinformatics. 2017 Jul 15;33(14):i274-i282. doi: 10.1093/bioinformatics/btx268.

26.

PRiMeUM: A Model for Predicting Risk of Metastasis in Uveal Melanoma.

Vaquero-Garcia J, Lalonde E, Ewens KG, Ebrahimzadeh J, Richard-Yutz J, Shields CL, Barrera A, Green CJ, Barash Y, Ganguly A.

Invest Ophthalmol Vis Sci. 2017 Aug 1;58(10):4096-4105. doi: 10.1167/iovs.17-22255.

27.

Ancient antagonism between CELF and RBFOX families tunes mRNA splicing outcomes.

Gazzara MR, Mallory MJ, Roytenberg R, Lindberg JP, Jha A, Lynch KW, Barash Y.

Genome Res. 2017 Aug;27(8):1360-1370. doi: 10.1101/gr.220517.117. Epub 2017 May 16.

28.

A SLM2 Feedback Pathway Controls Cortical Network Activity and Mouse Behavior.

Ehrmann I, Gazzara MR, Pagliarini V, Dalgliesh C, Kheirollahi-Chadegani M, Xu Y, Cesari E, Danilenko M, Maclennan M, Lowdon K, Vogel T, Keskivali-Bond P, Wells S, Cater H, Fort P, Santibanez-Koref M, Middei S, Sette C, Clowry GJ, Barash Y, Cunningham MO, Elliott DJ.

Cell Rep. 2016 Dec 20;17(12):3269-3280. doi: 10.1016/j.celrep.2016.12.002.

29.

A new view of transcriptome complexity and regulation through the lens of local splicing variations.

Vaquero-Garcia J, Barrera A, Gazzara MR, González-Vallinas J, Lahens NF, Hogenesch JB, Lynch KW, Barash Y.

Elife. 2016 Feb 1;5:e11752. doi: 10.7554/eLife.11752.

30.

Convergence of Acquired Mutations and Alternative Splicing of CD19 Enables Resistance to CART-19 Immunotherapy.

Sotillo E, Barrett DM, Black KL, Bagashev A, Oldridge D, Wu G, Sussman R, Lanauze C, Ruella M, Gazzara MR, Martinez NM, Harrington CT, Chung EY, Perazzelli J, Hofmann TJ, Maude SL, Raman P, Barrera A, Gill S, Lacey SF, Melenhorst JJ, Allman D, Jacoby E, Fry T, Mackall C, Barash Y, Lynch KW, Maris JM, Grupp SA, Thomas-Tikhonenko A.

Cancer Discov. 2015 Dec;5(12):1282-95. doi: 10.1158/2159-8290.CD-15-1020. Epub 2015 Oct 29.

31.

Widespread JNK-dependent alternative splicing induces a positive feedback loop through CELF2-mediated regulation of MKK7 during T-cell activation.

Martinez NM, Agosto L, Qiu J, Mallory MJ, Gazzara MR, Barash Y, Fu XD, Lynch KW.

Genes Dev. 2015 Oct 1;29(19):2054-66. doi: 10.1101/gad.267245.115.

32.

RNA splicing. The human splicing code reveals new insights into the genetic determinants of disease.

Xiong HY, Alipanahi B, Lee LJ, Bretschneider H, Merico D, Yuen RK, Hua Y, Gueroussov S, Najafabadi HS, Hughes TR, Morris Q, Barash Y, Krainer AR, Jojic N, Scherer SW, Blencowe BJ, Frey BJ.

Science. 2015 Jan 9;347(6218):1254806. doi: 10.1126/science.1254806. Epub 2014 Dec 18.

33.

Splicing code modeling.

Barash Y, Vaquero-Garcia J.

Adv Exp Med Biol. 2014;825:451-66. doi: 10.1007/978-1-4939-1221-6_13. Review.

PMID:
25201114
34.

Predicting alternative splicing.

Barash Y, Garcia JV.

Methods Mol Biol. 2014;1126:411-23. doi: 10.1007/978-1-62703-980-2_28.

PMID:
24549679
35.

The magnetic penetration depth influenced by the proximity to the surface.

Barash YS.

J Phys Condens Matter. 2014 Jan 29;26(4):045702. doi: 10.1088/0953-8984/26/4/045702. Epub 2014 Jan 6.

PMID:
24390056
36.

In silico to in vivo splicing analysis using splicing code models.

Gazzara MR, Vaquero-Garcia J, Lynch KW, Barash Y.

Methods. 2014 May 1;67(1):3-12. doi: 10.1016/j.ymeth.2013.11.006. Epub 2013 Dec 7.

37.

AVISPA: a web tool for the prediction and analysis of alternative splicing.

Barash Y, Vaquero-Garcia J, González-Vallinas J, Xiong HY, Gao W, Lee LJ, Frey BJ.

Genome Biol. 2013;14(10):R114.

38.

Determination of molecular markers for BRCA1 and BRCA2 heterozygosity using gene expression profiling.

Salmon AY, Salmon-Divon M, Zahavi T, Barash Y, Levy-Drummer RS, Jacob-Hirsch J, Peretz T.

Cancer Prev Res (Phila). 2013 Feb;6(2):82-90. doi: 10.1158/1940-6207.CAPR-12-0105. Epub 2013 Jan 22.

39.

Bayesian prediction of tissue-regulated splicing using RNA sequence and cellular context.

Xiong HY, Barash Y, Frey BJ.

Bioinformatics. 2011 Sep 15;27(18):2554-62. doi: 10.1093/bioinformatics/btr444. Epub 2011 Jul 29.

PMID:
21803804
40.

An illuminated view of molecular biology.

Barash Y, Wang X.

Genome Biol. 2010;11(8):307. doi: 10.1186/gb-2010-11-8-307. Epub 2010 Aug 26.

41.

Model-based detection of alternative splicing signals.

Barash Y, Blencowe BJ, Frey BJ.

Bioinformatics. 2010 Jun 15;26(12):i325-33. doi: 10.1093/bioinformatics/btq200.

42.

Deciphering the splicing code.

Barash Y, Calarco JA, Gao W, Pan Q, Wang X, Shai O, Blencowe BJ, Frey BJ.

Nature. 2010 May 6;465(7294):53-9. doi: 10.1038/nature09000.

PMID:
20445623
43.

Electric field stimulation integrated into perfusion bioreactor for cardiac tissue engineering.

Barash Y, Dvir T, Tandeitnik P, Ruvinov E, Guterman H, Cohen S.

Tissue Eng Part C Methods. 2010 Dec;16(6):1417-26. doi: 10.1089/ten.TEC.2010.0068. Epub 2010 May 10.

PMID:
20367291
44.

Low-energy subgap states and the magnetic flux periodicity in d-wave superconducting rings.

Barash YS.

Phys Rev Lett. 2008 May 2;100(17):177003. Epub 2008 May 1.

PMID:
18518325
45.

A systematic analysis of intronic sequences downstream of 5' splice sites reveals a widespread role for U-rich motifs and TIA1/TIAL1 proteins in alternative splicing regulation.

Aznarez I, Barash Y, Shai O, He D, Zielenski J, Tsui LC, Parkinson J, Frey BJ, Rommens JM, Blencowe BJ.

Genome Res. 2008 Aug;18(8):1247-58. doi: 10.1101/gr.073155.107. Epub 2008 May 2.

46.

Epitaxial integration of the highly spin-polarized ferromagnetic semiconductor EuO with silicon and GaN.

Schmehl A, Vaithyanathan V, Herrnberger A, Thiel S, Richter C, Liberati M, Heeg T, Röckerath M, Kourkoutis LF, Mühlbauer S, Böni P, Muller DA, Barash Y, Schubert J, Idzerda Y, Mannhart J, Schlom DG.

Nat Mater. 2007 Nov;6(11):882-7. Epub 2007 Sep 16.

PMID:
17873862
47.

Functional coordination of alternative splicing in the mammalian central nervous system.

Fagnani M, Barash Y, Ip JY, Misquitta C, Pan Q, Saltzman AL, Shai O, Lee L, Rozenhek A, Mohammad N, Willaime-Morawek S, Babak T, Zhang W, Hughes TR, van der Kooy D, Frey BJ, Blencowe BJ.

Genome Biol. 2007;8(6):R108.

48.

0-pi transitions in Josephson junctions with antiferromagnetic interlayers.

Andersen BM, Bobkova IV, Hirschfeld PJ, Barash YS.

Phys Rev Lett. 2006 Mar 24;96(11):117005. Epub 2006 Mar 24.

PMID:
16605855
49.

Thalassomonas loyana sp. nov., a causative agent of the white plague-like disease of corals on the Eilat coral reef.

Thompson FL, Barash Y, Sawabe T, Sharon G, Swings J, Rosenberg E.

Int J Syst Evol Microbiol. 2006 Feb;56(Pt 2):365-8.

PMID:
16449441
50.

Spin-dependent quasiparticle reflection and bound States at interfaces with itinerant antiferromagnets.

Bobkova IV, Hirschfeld PJ, Barash YS.

Phys Rev Lett. 2005 Jan 28;94(3):037005. Epub 2005 Jan 26.

PMID:
15698311

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