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Items: 1 to 50 of 531

1.

2018 ISCB Overton Prize awarded to Cole Trapnell.

Fogg CN, Kovats DE, Shamir R.

PLoS Comput Biol. 2018 Jun 7;14(6):e1006163. doi: 10.1371/journal.pcbi.1006163. eCollection 2018 Jun. No abstract available.

2.

2018 ISCB Innovator Award recognizes M. Madan Babu.

Fogg CN, Kovats DE, Shamir R.

PLoS Comput Biol. 2018 Jun 7;14(6):e1006164. doi: 10.1371/journal.pcbi.1006164. eCollection 2018 Jun. No abstract available.

3.

2018 ISCB Overton Prize awarded to Cole Trapnell.

Fogg CN, Kovats DE, Shamir R.

Bioinformatics. 2018 Jun 2. doi: 10.1093/bioinformatics/bty360. [Epub ahead of print] No abstract available.

PMID:
29868884
4.

Message from the ISCB: 2018 Outstanding Contributions to ISCB Award: Russ Altman.

Fogg CN, Kovats DE, Shamir R.

Bioinformatics. 2018 Jun 2. doi: 10.1093/bioinformatics/bty308. [Epub ahead of print] No abstract available.

PMID:
29868819
5.

Message from the ISCB: 2018 ISCB Accomplishments by a Senior Scientist Award.

Fogg CN, Kovats DE, Shamir R.

Bioinformatics. 2018 Jun 2. doi: 10.1093/bioinformatics/bty284. [Epub ahead of print] No abstract available.

PMID:
29868787
6.

2018 ISCB Innovator Award recognizes M. Madan Babu.

Fogg CN, Kovats DE, Shamir R.

Bioinformatics. 2018 Jun 2. doi: 10.1093/bioinformatics/bty328. [Epub ahead of print] No abstract available.

PMID:
29868709
7.

Microelectrode Recordings Validate the Clinical Visualization of Subthalamic-Nucleus Based on 7T Magnetic Resonance Imaging and Machine Learning for Deep Brain Stimulation Surgery.

Shamir RR, Duchin Y, Kim J, Patriat R, Marmor O, Bergman H, Vitek JL, Sapiro G, Bick A, Eliahou R, Eitan R, Israel Z, Harel N.

Neurosurgery. 2018 May 24. doi: 10.1093/neuros/nyy212. [Epub ahead of print]

PMID:
29800386
8.

2018 ISCB accomplishments by a senior scientist award.

Fogg CN, Kovats DE, Shamir R.

PLoS Comput Biol. 2018 May 17;14(5):e1006138. doi: 10.1371/journal.pcbi.1006138. eCollection 2018 May. No abstract available.

9.

2018 outstanding contributions to ISCB award: Russ Altman.

Fogg CN, Kovats DE, Shamir R.

PLoS Comput Biol. 2018 May 17;14(5):e1006140. doi: 10.1371/journal.pcbi.1006140. eCollection 2018 May. No abstract available.

10.

Sorting cancer karyotypes using double-cut-and-joins, duplications and deletions.

Zeira R, Shamir R.

Bioinformatics. 2018 May 3. doi: 10.1093/bioinformatics/bty381. [Epub ahead of print]

PMID:
29726899
11.

FOCS: a novel method for analyzing enhancer and gene activity patterns infers an extensive enhancer-promoter map.

Hait TA, Amar D, Shamir R, Elkon R.

Genome Biol. 2018 May 1;19(1):56. doi: 10.1186/s13059-018-1432-2.

12.

Opinions and practices of healthcare professionals on assessment of disease associated malnutrition in children: Results from an international survey.

Huysentruyt K, Hulst J, Bian F, Shamir R, White M, Galera-Martinez R, Morais-Lopez A, Kansu A, Gerasimidis K.

Clin Nutr. 2018 Apr 5. pii: S0261-5614(18)30127-4. doi: 10.1016/j.clnu.2018.03.015. [Epub ahead of print]

PMID:
29653864
13.

Birth Month as a Risk Factor for the Diagnosis of Celiac Disease Later in Life: A Population-based Study.

Assa A, Waisbourd-Zinman O, Daher S, Shamir R.

J Pediatr Gastroenterol Nutr. 2018 Apr 10. doi: 10.1097/MPG.0000000000002001. [Epub ahead of print]

PMID:
29642117
14.

MorphDB: Prioritizing Genes for Specialized Metabolism Pathways and Gene Ontology Categories in Plants.

Zwaenepoel A, Diels T, Amar D, Van Parys T, Shamir R, Van de Peer Y, Tzfadia O.

Front Plant Sci. 2018 Mar 19;9:352. doi: 10.3389/fpls.2018.00352. eCollection 2018.

15.

Leptin stimulates aromatase in the growth plate: limiting catch-up growth efficiency.

Masarwi M, Shamir R, Phillip M, Gat-Yablonski G.

J Endocrinol. 2018 Jun;237(3):229-242. doi: 10.1530/JOE-18-0028. Epub 2018 Apr 3.

PMID:
29615477
16.

Chapter 8. 50 Years of the European Society for Paediatric Gastroenterology, Hepatology and Nutrition (ESPGHAN): Captivating Witness Reports of a Success Story.

Auricchio S, Cadranel S, Guandalini S, Kelly D, Koletzko B, Lentze MJ, McNeish AS, Milla PJ, Rey J, Schmitz J, Shamir R, Strandvik B, Troncone R, Visakorpi J.

J Pediatr Gastroenterol Nutr. 2018 Apr;66 Suppl 1:S154-S171. doi: 10.1097/MPG.0000000000001919.

PMID:
29596189
17.

Chapter 3. The European Society for Paediatric Gastroenterology, Hepatology and Nutrition in Recent Years.

Koletzko B, Shamir R, Broekaert I, Troncone R.

J Pediatr Gastroenterol Nutr. 2018 Apr;66 Suppl 1:S29-S43. doi: 10.1097/MPG.0000000000001913.

PMID:
29596163
18.

Nutrition in Pediatric Inflammatory Bowel Disease: A Position Paper on Behalf of the Porto Inflammatory Bowel Disease Group of the European Society of Pediatric Gastroenterology, Hepatology and Nutrition.

Miele E, Shamir R, Aloi M, Assa A, Braegger C, Bronsky J, de Ridder L, Escher JC, Hojsak I, Kolaček S, Koletzko S, Levine A, Lionetti P, Martinelli M, Ruemmele F, Russell RK, Boneh RS, van Limbergen J, Veereman G, Staiano A.

J Pediatr Gastroenterol Nutr. 2018 Apr;66(4):687-708. doi: 10.1097/MPG.0000000000001896.

PMID:
29570147
19.

Practice Differences in the Diagnosis and Management of Eosinophilic Esophagitis among Adult and Pediatric Gastroenterologists in Israel.

Zifman E, Banai H, Shamir R, Ringel-Kulka T, Zevit N.

J Pediatr Gastroenterol Nutr. 2018 Feb 1. doi: 10.1097/MPG.0000000000001909. [Epub ahead of print]

PMID:
29394215
20.

Nutrition and Growth in Chronic Disease.

Hartman C, Shamir R.

World Rev Nutr Diet. 2018;117:84-110. doi: 10.1159/000484501. Epub 2018 Jan 29. No abstract available.

PMID:
29393115
21.

Nutrition in Paediatric Inflammatory Bowel Disease: A Position Paper on Behalf of The Porto IBD Group of ESPGHAN.

Miele E, Shamir R, Aloi M, Assa A, Braegger C, Bronsky J, de Ridder L, Escher JC, Hojsak I, Kolaček S, Koletzko S, Levine A, Lionetti P, Martinelli M, Ruemmele F, Russell RK, Boneh RS, van Limbergen J, Veereman G, Staiano A.

J Pediatr Gastroenterol Nutr. 2018 Jan 29. doi: 10.1097/MPG.0000000000001896. [Epub ahead of print]

PMID:
29384890
22.

Probiotics for Preterm Infants: a strain specific systematic review and network meta-analysis.

van den Akker CHP, van Goudoever JB, Szajewska H, Embleton ND, Hojsak I, Reid D, Shamir R; ESPGHAN Working Group for Probiotics, Prebiotics & Committee on Nutrition.

J Pediatr Gastroenterol Nutr. 2018 Jan 30. doi: 10.1097/MPG.0000000000001897. [Epub ahead of print]

PMID:
29384838
23.

Histopathological evaluation of duodenal biopsy in the PreventCD project. An observational interobserver agreement study.

Villanacci V, Lorenzi L, Donato F, Auricchio R, Dziechciarz P, Gyimesi J, Koletzko S, Mišak Z, Laguna VM, Polanco I, Ramos D, Shamir R, Troncone R, Vriezinga SL, Mearin ML.

APMIS. 2018 Mar;126(3):208-214. doi: 10.1111/apm.12812. Epub 2018 Jan 26.

PMID:
29372596
24.

ADEPTUS: a discovery tool for disease prediction, enrichment and network analysis based on profiles from many diseases.

Amar D, Vizel A, Levy C, Shamir R.

Bioinformatics. 2018 Jun 1;34(11):1959-1961. doi: 10.1093/bioinformatics/bty027.

PMID:
29360930
25.

Tracing the Neural Carryover Effects of Interpersonal Anger on Resting-State fMRI in Men and Their Relation to Traumatic Stress Symptoms in a Subsample of Soldiers.

Gilam G, Maron-Katz A, Kliper E, Lin T, Fruchter E, Shamir R, Hendler T.

Front Behav Neurosci. 2017 Dec 20;11:252. doi: 10.3389/fnbeh.2017.00252. eCollection 2017.

26.

The global impact of the DRACMA guidelines cow's milk allergy clinical practice.

Fiocchi A, Schunemann H, Ansotegui I, Assa'ad A, Bahna S, Canani RB, Bozzola M, Dahdah L, Dupont C, Ebisawa M, Galli E, Li H, Kamenwa R, Lack G, Martelli A, Pawankar R, Said M, Sánchez-Borges M, Sampson H, Shamir R, Spergel J, Terracciano L, Vandenplas Y, Venter C, Waserman S, Wong G, Brozek J.

World Allergy Organ J. 2018 Jan 4;11(1):2. doi: 10.1186/s40413-017-0179-7. eCollection 2018. Review.

27.

Randomised study found that improved nutritional intake was associated with better sleep patterns in prepubertal children who were both short and lean.

Yackobovitch-Gavan M, Machtei A, Lazar L, Shamir R, Phillip M, Lebenthal Y.

Acta Paediatr. 2018 Apr;107(4):666-671. doi: 10.1111/apa.14205. Epub 2018 Jan 17.

PMID:
29280191
28.

Long-Term Outcomes After Primary Bowel Resection in Pediatric-Onset Crohn's Disease.

Rinawi F, Zevit N, Eliakim R, Niv Y, Shamir R, Assa A.

Inflamm Bowel Dis. 2017 Dec 19;24(1):149-158. doi: 10.1093/ibd/izx030.

PMID:
29272491
29.

Reconstructing cancer karyotypes from short read data: the half empty and half full glass.

Eitan R, Shamir R.

BMC Bioinformatics. 2017 Nov 15;18(1):488. doi: 10.1186/s12859-017-1929-9.

30.

Prevalence of Functional Gastrointestinal Disorders in Children and Adolescents in the Mediterranean Region of Europe.

Scarpato E, Kolacek S, Jojkic-Pavkov D, Konjik V, Živković N, Roman E, Kostovski A, Zdraveska N, Altamimi E, Papadopoulou A, Karagiozoglou-Lampoudi T, Shamir R, Bar Lev MR, Koleilat A, Mneimneh S, Bruzzese D, Leis R, Staiano A; MEAP Group.

Clin Gastroenterol Hepatol. 2018 Jun;16(6):870-876. doi: 10.1016/j.cgh.2017.11.005. Epub 2017 Nov 9.

PMID:
29129667
31.

Intestinal anti-transglutaminase 2 immunoglobulin A deposits in children at risk for coeliac disease (CD): data from the PreventCD study.

Borrelli M, Maglio M, Korponay-Szabó IR, Vass V, Mearin ML, Meijer C, Niv-Drori H, Ribes-Koninckx C, Roca M, Shamir R, Troncone R, Auricchio R.

Clin Exp Immunol. 2018 Mar;191(3):311-317. doi: 10.1111/cei.13078. Epub 2017 Dec 1.

PMID:
29114847
32.

Food restriction followed by refeeding with a casein- or whey-based diet differentially affects the gut microbiota of pre-pubertal male rats.

Masarwi M, Solnik HI, Phillip M, Yaron S, Shamir R, Pasmanic-Chor M, Gat-Yablonski G.

J Nutr Biochem. 2018 Jan;51:27-39. doi: 10.1016/j.jnutbio.2017.08.014. Epub 2017 Sep 14.

PMID:
29091812
33.

Faucet: streaming de novo assembly graph construction.

Rozov R, Goldshlager G, Halperin E, Shamir R.

Bioinformatics. 2018 Jan 1;34(1):147-154. doi: 10.1093/bioinformatics/btx471.

34.

Designing small universal k-mer hitting sets for improved analysis of high-throughput sequencing.

Orenstein Y, Pellow D, Marçais G, Shamir R, Kingsford C.

PLoS Comput Biol. 2017 Oct 2;13(10):e1005777. doi: 10.1371/journal.pcbi.1005777. eCollection 2017 Oct.

35.

The Long-Term Predictive Properties of the Paris Classification in Paediatric Inflammatory Bowel Disease Patients.

Assa A, Rinawi F, Shamir R.

J Crohns Colitis. 2018 Jan 5;12(1):39-47. doi: 10.1093/ecco-jcc/jjx125.

PMID:
28961726
36.

Analysis of blood-based gene expression in idiopathic Parkinson disease.

Shamir R, Klein C, Amar D, Vollstedt EJ, Bonin M, Usenovic M, Wong YC, Maver A, Poths S, Safer H, Corvol JC, Lesage S, Lavi O, Deuschl G, Kuhlenbaeumer G, Pawlack H, Ulitsky I, Kasten M, Riess O, Brice A, Peterlin B, Krainc D.

Neurology. 2017 Oct 17;89(16):1676-1683. doi: 10.1212/WNL.0000000000004516. Epub 2017 Sep 15.

PMID:
28916538
37.

Improving the performance of minimizers and winnowing schemes.

Marçais G, Pellow D, Bork D, Orenstein Y, Shamir R, Kingsford C.

Bioinformatics. 2017 Jul 15;33(14):i110-i117. doi: 10.1093/bioinformatics/btx235.

38.

Phenotypic Features and Longterm Outcomes of Pediatric Inflammatory Bowel Disease Patients with Arthritis and Arthralgia.

Nir O, Rinawi F, Amarilyo G, Harel L, Shamir R, Assa A.

J Rheumatol. 2017 Nov;44(11):1636-1643. doi: 10.3899/jrheum.170168. Epub 2017 Sep 1.

PMID:
28864649
39.

A Linear-Time Algorithm for the Copy Number Transformation Problem.

Zeira R, Zehavi M, Shamir R.

J Comput Biol. 2017 Dec;24(12):1179-1194. doi: 10.1089/cmb.2017.0060. Epub 2017 Aug 24.

PMID:
28837352
40.

Extracting replicable associations across multiple studies: Empirical Bayes algorithms for controlling the false discovery rate.

Amar D, Shamir R, Yekutieli D.

PLoS Comput Biol. 2017 Aug 18;13(8):e1005700. doi: 10.1371/journal.pcbi.1005700. eCollection 2017 Aug.

41.

ESPGHAN Distinguished Service Award 2017 to Professor Olivier Goulet.

Shamir R.

J Pediatr Gastroenterol Nutr. 2017 Nov;65(5):487-488. doi: 10.1097/MPG.0000000000001710. No abstract available.

PMID:
28800026
42.

Exclusive enteral nutrition for inducing remission in inflammatory bowel disease in paediatric patients.

Assa A, Shamir R.

Curr Opin Clin Nutr Metab Care. 2017 Sep;20(5):384-389. doi: 10.1097/MCO.0000000000000402. Review.

PMID:
28768295
43.

Beta Palmitate Improves Bone Length and Quality during Catch-Up Growth in Young Rats.

Bar-Maisels M, Gabet Y, Shamir R, Hiram-Bab S, Pasmanik-Chor M, Phillip M, Bar-Yoseph F, Gat-Yablonski G.

Nutrients. 2017 Jul 18;9(7). pii: E764. doi: 10.3390/nu9070764.

44.

Perspective: Improving Nutritional Guidelines for Sustainable Health Policies: Current Status and Perspectives.

Magni P, Bier DM, Pecorelli S, Agostoni C, Astrup A, Brighenti F, Cook R, Folco E, Fontana L, Gibson RA, Guerra R, Guyatt GH, Ioannidis JP, Jackson AS, Klurfeld DM, Makrides M, Mathioudakis B, Monaco A, Patel CJ, Racagni G, Schünemann HJ, Shamir R, Zmora N, Peracino A.

Adv Nutr. 2017 Jul 14;8(4):532-545. doi: 10.3945/an.116.014738. Print 2017 Jul.

PMID:
28710141
45.

Distinct Lipoprotein Curves in Normal Weight, Overweight, and Obese Children and Adolescents.

Interator H, Lebenthal Y, Hoshen M, Safra I, Balicer R, Leshno M, Shamir R.

J Pediatr Gastroenterol Nutr. 2017 Dec;65(6):673-680. doi: 10.1097/MPG.0000000000001674.

PMID:
28691976
46.

Infant feeding and growth trajectory patterns in childhood and body composition in young adulthood.

Rzehak P, Oddy WH, Mearin ML, Grote V, Mori TA, Szajewska H, Shamir R, Koletzko S, Weber M, Beilin LJ, Huang RC, Koletzko B; WP10 working group of the Early Nutrition Project.

Am J Clin Nutr. 2017 Aug;106(2):568-580. doi: 10.3945/ajcn.116.140962. Epub 2017 Jun 28.

PMID:
28659295
47.

Commercial Probiotic Products: A Call for Improved Quality Control. A Position Paper by the ESPGHAN Working Group for Probiotics and Prebiotics.

Kolaček S, Hojsak I, Berni Canani R, Guarino A, Indrio F, Orel R, Pot B, Shamir R, Szajewska H, Vandenplas Y, van Goudoever J, Weizman Z; ESPGHAN Working Group for Probiotics and Prebiotics.

J Pediatr Gastroenterol Nutr. 2017 Jul;65(1):117-124. doi: 10.1097/MPG.0000000000001603.

PMID:
28644359
48.

Accuracy in Diagnosis of Celiac Disease Without Biopsies in Clinical Practice.

Werkstetter KJ, Korponay-Szabó IR, Popp A, Villanacci V, Salemme M, Heilig G, Lillevang ST, Mearin ML, Ribes-Koninckx C, Thomas A, Troncone R, Filipiak B, Mäki M, Gyimesi J, Najafi M, Dolinšek J, Dydensborg Sander S, Auricchio R, Papadopoulou A, Vécsei A, Szitanyi P, Donat E, Nenna R, Alliet P, Penagini F, Garnier-Lengliné H, Castillejo G, Kurppa K, Shamir R, Hauer AC, Smets F, Corujeira S, van Winckel M, Buderus S, Chong S, Husby S, Koletzko S; ProCeDE study group.

Gastroenterology. 2017 Oct;153(4):924-935. doi: 10.1053/j.gastro.2017.06.002. Epub 2017 Jun 15.

PMID:
28624578
49.

The Characteristics and Long-term Outcomes of Pediatric Crohn's Disease Patients with Perianal Disease.

Herman Y, Rinawi F, Rothschild B, Nir O, Shamir R, Assa A.

Inflamm Bowel Dis. 2017 Sep;23(9):1659-1665. doi: 10.1097/MIB.0000000000001171.

PMID:
28590344
50.

Probiotics for the Prevention of Nosocomial Diarrhea in Children.

Hojsak I, Szajewska H, Canani RB, Guarino A, Indrio F, Kolacek S, Orel R, Shamir R, Vandenplas Y, van Goudoever JB, Weizman Z; ESPGHAN Working Group for Probiotics/Prebiotics.

J Pediatr Gastroenterol Nutr. 2018 Jan;66(1):3-9. doi: 10.1097/MPG.0000000000001637.

PMID:
28574970

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