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Papers authored by Berger B

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Local optimization for global alignment of protein interaction networks.

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Chindelevitch L, Liao CS, and Berger B

Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing:123-32, 2010 - Who cited this? | PubMed ID: 19908365 | Fulltext

Patient-centered care: it's about time.

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Berger BA

American journal of pharmaceutical education 73(5):91, 2009 Aug 28 - Who cited this? | PubMed ID: 19777105 | Fulltext

Evidence-based radiation oncology: oesophagus.

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Berger B and Belka C

Radiotherapy and oncology : journal of the European Society for Therapeutic Radiology and Oncology 92(2):276-90, 2009 Aug - Who cited this? | PubMed ID: 19375187 | Fulltext

Label-free quantitative proteomics of two Bifidobacterium longum strains.

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Guillaume E, Berger B, Affolter M, and Kussmann M

Journal of proteomics 72(5):771-84, 2009 Jul 21 - Who cited this? | PubMed ID: 19328873 | Fulltext

RNAiCut: automated detection of significant genes from functional genomic screens.

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Kaplow IM, Singh R, Friedman A, Bakal C, Perrimon N, and Berger B

Nature methods 6(7):476-7, 2009 Jul - Who cited this? | PubMed ID: 19564846 | Fulltext

RNAmutants: a web server to explore the mutational landscape of RNA secondary structures.

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Waldispühl J, Devadas S, Berger B, and Clote P

Nucleic acids research 37(Web Server issue):W281-6, 2009 Jul 1 - Who cited this? | PubMed ID: 19531740 | Fulltext

The structure and function of platelet integrins.

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Bennett JS, Berger BW, and Billings PC

Journal of thrombosis and haemostasis : JTH 7 Suppl 1:200-5, 2009 Jul - Who cited this? | PubMed ID: 19630800 | Fulltext

IsoRankN: spectral methods for global alignment of multiple protein networks.

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Liao CS, Lu K, Baym M, Singh R, and Berger B

Bioinformatics (Oxford, England) 25(12):i253-8, 2009 Jun 15 - Who cited this? | PubMed ID: 19477996 | Fulltext

The effectiveness of colonoscopy in reducing mortality from colorectal cancer.

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Markowitz SD, Itzkowitz SH, and Berger BM

Annals of internal medicine 150(11):816-7; author reply 819-20, 2009 Jun 2 - Who cited this? | PubMed ID: 19487718 | Fulltext

Oral supplementation with probiotics in very-low-birth-weight preterm infants: a randomized, double-blind, placebo-controlled trial.

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Rougé C, Piloquet H, Butel MJ, Berger B, Rochat F, Ferraris L, Des Robert C, Legrand A, de la Cochetière MF, N'guyen JM, Vodovar M, Voyer M, Darmaun D, and Rozé JC

The American journal of clinical nutrition 89(6):1828-35, 2009 Jun - Who cited this? | PubMed ID: 19369375 | Fulltext

Effects of perfluorocarbon infusion in an anesthetized swine decompression model.

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Spiess BD, Zhu J, Pierce B, Weis R, Berger BE, Reses J, Smith CR, Ewbank B, and Ward KR

The Journal of surgical research 153(1):83-94, 2009 May 1 - Who cited this? | PubMed ID: 18541265 | Fulltext

Silencing the Hydroxyproline-Rich Glycopeptide Systemin Precursor in Two Accessions of Nicotiana attenuata Alters Flower Morphology and Rates of Self-Pollination.

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Berger B and Baldwin IT

Plant physiology 149(4):1690-700, 2009 Apr - Who cited this? | PubMed ID: 19211701 | Fulltext

Association of large serrated polyps with synchronous advanced colorectal neoplasia.

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Li D, Jin C, McCulloch C, Kakar S, Berger BM, Imperiale TF, and Terdiman JP

The American journal of gastroenterology 104(3):695-702, 2009 Mar - Who cited this? | PubMed ID: 19223889 | Fulltext

BETASCAN: Probable beta-amyloids Identified by Pairwise Probabilistic Analysis.

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Bryan AW, Menke M, Cowen LJ, Lindquist SL, and Berger B

PLoS computational biology 5(3):e1000333, 2009 Mar - Who cited this? | PubMed ID: 19325876 | Fulltext

High rate of severe radiation dermatitis during radiation therapy with concurrent cetuximab in head and neck cancer: Results of a survey in EORTC institutes.

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Giro C, Berger B, Bölke E, Ciernik IF, Duprez F, Locati L, Maillard S, Ozsahin M, Pfeffer R, Robertson AG, Langendijk JA, and Budach W

Radiotherapy and oncology : journal of the European Society for Therapeutic Radiology and Oncology 90(2):166-71, 2009 Feb - Who cited this? | PubMed ID: 18977050 | Fulltext

Mystery solved: the identification of the two missing Romanov children using DNA analysis.

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Coble MD, Loreille OM, Wadhams MJ, Edson SM, Maynard K, Meyer CE, Niederstätter H, Berger C, Berger B, Falsetti AB, Gill P, Parson W, and Finelli LN

PLoS ONE 4(3):e4838, 2009 - Who cited this? | PubMed ID: 19277206 | Fulltext

Dispensing errors and counseling quality in 100 pharmacies.

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Flynn EA, Barker KN, Berger BA, Lloyd KB, and Brackett PD

Journal of the American Pharmacists Association : JAPhA 49(2):171-80, 2009 - Who cited this? | PubMed ID: 19289343 | Fulltext

A practical platform for blood biomarker study by using global gene expression profiling of peripheral whole blood.

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Tian Z, Palmer N, Schmid P, Yao H, Galdzicki M, Berger B, Wu E, and Kohane IS

PLoS ONE 4(4):e5157, 2009 - Who cited this? | PubMed ID: 19381341 | Fulltext

Large-scale identification of genetic design strategies using local search.

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Lun DS, Rockwell G, Guido NJ, Baym M, Kelner JA, Berger B, Galagan JE, and Church GM

Molecular systems biology 5:296, 2009 - Who cited this? | PubMed ID: 19690565 | Fulltext

Improving medication delivery and counseling in community pharmacy.

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Flynn EA, Barker KN, Berger BA, Lloyd KB, and Brackett PD

Journal of the American Pharmacists Association : JAPhA 49(5):580-2; author reply 582, 2009 - Who cited this? | PubMed ID: 19748863 | Fulltext

Revealing the spatial distribution of a disease while preserving privacy.

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Wieland SC, Cassa CA, Mandl KD, and Berger B

Proceedings of the National Academy of Sciences of the United States of America 105(46):17608-13, 2008 Nov 18 - Who cited this? | PubMed ID: 19015533 | Fulltext

A simplified, noninvasive stool DNA test for colorectal cancer detection.

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Itzkowitz S, Brand R, Jandorf L, Durkee K, Millholland J, Rabeneck L, Schroy PC, Sontag S, Johnson D, Markowitz S, Paszat L, and Berger BM

The American journal of gastroenterology 103(11):2862-70, 2008 Nov - Who cited this? | PubMed ID: 18759824 | Fulltext

Primary perivascular epithelioid cell tumor of the liver not related to hepatic ligaments: hepatic PEComa as an emerging entity.

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Zimmermann A, von der Brelie C, Berger B, Kappeler A, and Candinas D

Histology and histopathology 23(10):1185, 2008 Oct - Who cited this? | PubMed ID: 18712670 | Fulltext

Global alignment of multiple protein interaction networks with application to functional orthology detection.

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Singh R, Xu J, and Berger B

Proceedings of the National Academy of Sciences of the United States of America 105(35):12763, 2008 Sep 2 - Who cited this? | PubMed ID: 18725631 | Fulltext

The role of prophage for genome diversification within a clonal lineage of Lactobacillus johnsonii: characterization of the defective prophage LJ771.

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Denou E, Pridmore RD, Ventura M, Pittet AC, Zwahlen MC, Berger B, Barretto C, Panoff JM, and Brüssow H

Journal of bacteriology 190(17):5806-13, 2008 Sep - Who cited this? | PubMed ID: 18515417 | Fulltext

Optimal Contact Map Alignment of Protein-Protein Interfaces.

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Pulim V, Berger B, and Bienkowska J

Bioinformatics (Oxford, England), 2008 Aug 21 - Who cited this? | PubMed ID: 18710876 | Fulltext

Efficient algorithms for probing the RNA mutation landscape.

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Waldispühl J, Devadas S, Berger B, and Clote P

PLoS computational biology 4(8), 2008 Aug - Who cited this? | PubMed ID: 18688270 | Fulltext

Protein-protein interactions in the membrane: sequence, structural, and biological motifs.

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Moore DT, Berger BW, and DeGrado WF

Structure (London, England : 1993) 16(7):991, 2008 Jul - Who cited this? | PubMed ID: 18611372 | Fulltext

Multidisciplinary treatment of a large cerebral dural arteriovenous fistula using embolization, surgery, and radiosurgery.

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Giller CA, Barnett DW, Thacker IC, Hise JH, and Berger BD

Proceedings (Baylor University. Medical Center) 21(3):255, 2008 Jul - Who cited this? | PubMed ID: 18628973 | Fulltext

Hepatocellular carcinoma: management of an increasingly common problem.

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Davis GL, Dempster J, Meler JD, Orr DW, Walberg MW, Brown B, Berger BD, O'Connor JK, and Goldstein RM

Proceedings (Baylor University. Medical Center) 21(3):266-280, 2008 Jul - Who cited this? | PubMed ID: 18628926 | Fulltext

Precision Measurement of Neutrino Oscillation Parameters with KamLAND.

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Abe S, Ebihara T, Enomoto S, Furuno K, Gando Y, Ichimura K, Ikeda H, Inoue K, Kibe Y, Kishimoto Y, Koga M, Kozlov A, Minekawa Y, Mitsui T, Nakajima K, Nakajima K,

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Physical review letters 100(22):221803, 2008 Jun 6 - Who cited this? | PubMed ID: 18643415 | Fulltext

A discrete area within the left dorsolateral prefrontal cortex involved in visual-verbal incongruence judgment.

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Plaza M, Gatignol P, Cohen H, Berger B, and Duffau H

Cerebral cortex (New York, N.Y. : 1991) 18(6):1253, 2008 Jun - Who cited this? | PubMed ID: 17921457 | Fulltext

Investigating glutamate receptor-like gene co-expression in Arabidopsis thaliana.

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Roy SJ, Gilliham M, Berger B, Essah PA, Cheffings C, Miller AJ, Davenport RJ, Liu LH, Skynner MJ, Davies JM, Richardson P, Leigh RA, and Tester M

Plant, cell & environment 31(6):861-71, 2008 Jun - Who cited this? | PubMed ID: 18284583 | Fulltext

Forensic typing of autosomal SNPs with a 29 SNP-multiplex-Results of a collaborative EDNAP exercise.

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Sanchez JJ, Børsting C, Balogh K, Berger B, Bogus M, Butler JM, Carracedo A, Court DS, Dixon LA, Filipović B, Fondevila M, Gill P, Harrison CD, Hohoff C, Huel R, Ludes B,

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Forensic science international. Genetics 2(3):176-83, 2008 Jun - Who cited this? | PubMed ID: 19083818 | Fulltext

Modeling ensembles of transmembrane beta-barrel proteins.

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Waldispühl J, O'Donnell CW, Devadas S, Clote P, and Berger B

Proteins 71(3):1097-112, 2008 May 15 - Who cited this? | PubMed ID: 18004792 | Fulltext

Origins of Cortical GABAergic Neurons in the Cynomolgus Monkey.

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Petanjek Z, Berger B, and Esclapez M

Cerebral cortex (New York, N.Y. : 1991), 2008 May 13 - Who cited this? | PubMed ID: 18477686 | Fulltext

Identification of genes associated with the long-gut-persistence phenotype of the probiotic Lactobacillus johnsonii strain NCC533 using a combination of genomics and transcriptome analysis.

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Denou E, Pridmore RD, Berger B, Panoff JM, Arigoni F, and Brüssow H

Journal of bacteriology 190(9):3161-8, 2008 May - Who cited this? | PubMed ID: 18223069 | Fulltext

Model-independent, multimodality deformable image registration by local matching of anatomical features and minimization of elastic energy.

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Söhn M, Birkner M, Chi Y, Wang J, Di Y, Berger B, and Alber M

Medical physics 35(3):866, 2008 Mar - Who cited this? | PubMed ID: 18404923 | Fulltext

LTHREADER: Prediction of extracellular ligand-receptor interactions in cytokines using localized threading.

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Pulim V, Bienkowska J, and Berger B

Protein science : a publication of the Protein Society 17(2):279-92, 2008 Feb - Who cited this? | PubMed ID: 18096641 | Fulltext

Matt: local flexibility aids protein multiple structure alignment.

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Menke M, Berger B, and Cowen L

PLoS computational biology 4(1), 2008 Jan - Who cited this? | PubMed ID: 18193941 | Fulltext

Severe skin reaction secondary to concomitant radiotherapy plus cetuximab.

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Berger B and Belka C

Radiation oncology (London, England) 3:5, 2008 - Who cited this? | PubMed ID: 18226196 | Fulltext

Global alignment of multiple protein interaction networks.

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Singh R, Xu J, and Berger B

Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing:303-14, 2008 - Who cited this? | PubMed ID: 18229695 | Fulltext

SemanticDx: A Prototype to Facilitate Use of Biostatistics at the Point-of-care.

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Davidzon GA, Pankey E, Loudon T, Schmid P, Berger B, and Berkowicz DA

AMIA ... Annual Symposium proceedings / AMIA Symposium. AMIA Symposium:921, 2008 - Who cited this? | PubMed ID: 18999188 | Fulltext

[A satisfied patient--a good doc? To what extent is patient satisfaction an indicator of quality in general practice? A systematic review].

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Berger B, Lenz M, and Mühlhauser I

Zeitschrift fur Evidenz, Fortbildung und Qualitat im Gesundheitswesen 102(5):299-306, 2008 - Who cited this? | PubMed ID: 19006917 | Fulltext

Comprehensive Dissection of PDGF-PDGFR Signaling Pathways in PDGFR Genetically Defined Cells.

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Wu E, Palmer N, Tian Z, Moseman AP, Galdzicki M, Wang X, Berger B, Zhang H, and Kohane IS

PLoS ONE 3(11):e3794, 2008 - Who cited this? | PubMed ID: 19030102 | Fulltext

Exercise makes you feel good, but does feeling good make you exercise?: an examination of obese dieters.

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Carels RA, Coit C, Young K, and Berger B

Journal of sport & exercise psychology 29(6):706-22, 2007 Dec - Who cited this? | PubMed ID: 18089900 | Fulltext

The hydroxyproline-rich glycopeptide systemin precursor NapreproHypSys does not play a central role in Nicotiana attenuata's anti-herbivore defense responses.

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Berger B and Baldwin IT

Plant, cell & environment 30(11):1450, 2007 Nov - Who cited this? | PubMed ID: 17897415 | Fulltext

Gene expression of commensal Lactobacillus johnsonii strain NCC533 during in vitro growth and in the murine gut.

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Denou E, Berger B, Barretto C, Panoff JM, Arigoni F, and Brüssow H

Journal of bacteriology 189(22):8109-19, 2007 Nov - Who cited this? | PubMed ID: 17827285 | Fulltext

Predicting and annotating catalytic residues: an information theoretic approach.

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Sterner B, Singh R, and Berger B

Journal of computational biology : a journal of computational molecular cell biology 14(8):1058-73, 2007 Oct - Who cited this? | PubMed ID: 17887954 | Fulltext

A volumetric study of CyberKnife hypofractionated stereotactic radiotherapy as salvage for progressive malignant brain tumors: initial experience.

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Giller CA, Berger BD, Fink K, and Bastian E

Neurological research 29(6):563-8, 2007 Sep - Who cited this? | PubMed ID: 17535568 | Fulltext

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