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BMC  Supporter member - Indiana University at Bloomington

An internationally ranked institution of higher learning.


Research staff and students at Indiana University at Bloomington:
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Work published with BioMed Central in the last 12 months by researchers at Indiana University at Bloomington


Order by: Date published / Most viewed (30 days) / Most viewed (past year)


Research    
Protein disorder in the human diseasome: unfoldomics of human genetic diseases
Midic U, Oldfield CJ, Dunker AK, Obradovic Z, Uversky VN
BMC Genomics 2009, 10(Suppl 1):S12 (7 July 2009)
[Abstract] [Full text] [PDF]

Research    
HAPPI: an online database of comprehensive human annotated and predicted protein interactions
Chen JY, Mamidipalli SR, Huan T
BMC Genomics 2009, 10(Suppl 1):S16 (7 July 2009)
[Abstract] [Full text] [PDF]

Research    
Reconstruct gene regulatory network using slice pattern model
Wang Y, Wang G, Yang B, Tao H, Yang JY, Deng Y, Liu Y
BMC Genomics 2009, 10(Suppl 1):S2 (7 July 2009)
[Abstract] [Full text] [PDF]

Research    
Genome-wide prediction of cis-acting RNA elements regulating tissue-specific pre-mRNA alternative splicing
Wang X, Wang K, Radovich M, Wang Y, Wang G, Feng W, Sanford JR, Liu Y
BMC Genomics 2009, 10(Suppl 1):S4 (7 July 2009)
[Abstract] [Full text] [PDF]

Research    
Unfoldomics of human diseases: linking protein intrinsic disorder with diseases
Uversky VN, Oldfield CJ, Midic U, Xie H, Xue B, Vucetic S, Iakoucheva LM, Obradovic Z, Dunker AK
BMC Genomics 2009, 10(Suppl 1):S7 (7 July 2009)
[Abstract] [Full text] [PDF]

Meeting abstract    
Prediction of peptide drift time in ion mobility-mass spectrometry
Wang B, Valentine S, Raghuraman S, Plasencia M, Zhang X
BMC Bioinformatics 2009, 10(Suppl 7):A1 (25 June 2009)
[Abstract] [Full text] [PDF]

Research article    
The influence of regional basic science campuses on medical students' choice of specialty and practice location: a historical cohort study
Brokaw JJ, Mandzuk CA, Wade ME, Deal DW, Johnson MT, White GW, Wilson JS, Zollinger TW
BMC Medical Education 2009, 9:29 (6 June 2009)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]

Research    
Protein intrinsic disorder and influenza virulence: the 1918 H1N1 and H5N1 viruses
Goh GKM, Dunker AK, Uversky VN
Virology Journal 2009, 6:69 (3 June 2009)
[Abstract] [Full Text] [PDF] [PubMed] [Related articles]

Research article    
Symbiotic relationship between brain structure and dynamics
Rubinov M, Sporns O, van Leeuwen C, Breakspear M
BMC Neuroscience 2009, 10:55 (2 June 2009)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]

Research article    
The endocannabinoid anandamide is a precursor for the signaling lipid N-arachidonoyl glycine by two distinct pathways
Bradshaw HB, Rimmerman N, Hu SSJ, Benton VM, Stuart JM, Masuda K, Cravatt BF, O'Dell DK, Walker JM
BMC Biochemistry 2009, 10:14 (21 May 2009)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]

Research article    
Sequencing and de novo analysis of a coral larval transcriptome using 454 GSFlx
Meyer E, Aglyamova GV, Wang S, Buchanan-Carter J, Abrego D, Colbourne JK, Willis BL, Matz MV
BMC Genomics 2009, 10:219 (12 May 2009)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]

Research    
Lactobacillus delbrueckii ssp. bulgaricus B-30892 can inhibit cytotoxic effects and adhesion of pathogenic Clostridium difficile to Caco-2 cells
Banerjee P, Merkel GJ, Bhunia AK
Gut Pathogens 2009, 1:8 (27 April 2009)
[Abstract] [Full Text] [PDF] [PubMed] [Related articles]

Review    
Non-expanded adipose stromal vascular fraction cell therapy for multiple sclerosis
Riordan NH, Ichim TE, Min WP, Wang H, Solano F, Lara F, Alfaro M, Rodriguez JP, Harman RJ, Patel AN, Murphy MP, Lee RR, Minev B
Journal of Translational Medicine 2009, 7:29 (24 April 2009)
[Abstract] [Full Text] [PDF] [PubMed] [Related articles]

Research article    
The components of the Daphnia pulex immune system as revealed by complete genome sequencing
McTaggart SJ, Conlon C, Colbourne JK, Blaxter ML, Little TJ
BMC Genomics 2009, 10:175 (22 April 2009)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]

Software    
ESTPiper a web-based analysis pipeline for expressed sequence tags
Tang Z, Choi JH, Hemmerich C, Sarangi A, Colbourne JK, Dong Q
BMC Genomics 2009, 10:174 (21 April 2009)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]

Research article    
The chemoreceptor genes of the waterflea Daphnia pulex: many Grs but no Ors
Peñalva-Arana DC, Lynch M, Robertson HM
BMC Evolutionary Biology 2009, 9:79 (21 April 2009)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]

Research article    
Meiosis genes in Daphnia pulex and the role of parthenogenesis in genome evolution
Schurko AM, Logsdon JM, Eads BD
BMC Evolutionary Biology 2009, 9:78 (21 April 2009)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]

Research article    
Syndromic surveillance: STL for modeling, visualizing, and monitoring disease counts
Hafen RP, Anderson DE, Cleveland WS, Maciejewski R, Ebert DS, Abusalah A, Yakout M, Ouzzani M, Grannis SJ
BMC Medical Informatics and Decision Making 2009, 9:21 (21 April 2009)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]

Research article    
A human polymorphism affects NEDD4L subcellular targeting by leading to two isoforms that contain or lack a C2 domain
Garrone NF, Blazer-Yost BL, Weiss RB, Lalouel JM, Rohrwasser A
BMC Cell Biology 2009, 10:26 (13 April 2009)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]

Research    
Impact of the Kenya post-election crisis on clinic attendance and medication adherence for HIV-infected children in western Kenya
Vreeman RC, Nyandiko WM, Sang E, Musick BS, Braitstein P, Wiehe SE
Conflict and Health 2009, 3:5 (4 April 2009)
[Abstract] [Full Text] [PDF] [PubMed] [Related articles]

Editorial    
Grand challenges for cheminformatics
Wild DJ
Journal of Cheminformatics 2009, 1:1 (17 March 2009)
[Abstract] [Full Text] [PDF]

Research    
Feasibility investigation of allogeneic endometrial regenerative cells
Zhong Z, Patel AN, Ichim TE, Riordan NH, Wang H, Min WP, Woods EJ, Reid M, Mansilla E, Marin GH, Drago H, Murphy MP, Minev B
Journal of Translational Medicine 2009, 7:15 (20 February 2009)
[Abstract] [Full Text] [PDF] [PubMed] [Related articles]

Research    
Intrinsic disorder in Viral Proteins Genome-Linked: experimental and predictive analyses
Hébrard E, Bessin Y, Michon T, Longhi S, Uversky VN, Delalande F, Van Dorsselaer A, Romero P, Walter J, Declerk N, Fargette D
Virology Journal 2009, 6:23 (16 February 2009)
[Abstract] [Full Text] [PDF] [PubMed] [Related articles]

Research    
Enhanced pre-synaptic glutamate release in deep-dorsal horn contributes to calcium channel alpha-2-delta-1 protein-mediated spinal sensitization and behavioral hypersensitivity
Nguyen D, Deng P, Matthews EA, Kim DS, Feng G, Dickenson AH, Xu ZC, Luo ZD
Molecular Pain 2009, 5:6 (12 February 2009)
[Abstract] [Full Text] [PDF] [PubMed] [Related articles]

Research    
Evaluation of the anti-ischemic effects of D-ribose during dobutamine stress echocardiography: a pilot study
Sawada SG, Lewis S, Kovacs R, Khouri S, Gradus-Pizlo I, St Cyr JA, Feigenbaum H
Cardiovascular Ultrasound 2009, 7:5 (7 February 2009)
[Abstract] [Full Text] [PDF] [PubMed] [Related articles]

Poster presentation    
Fragmented QRS complexes on a 12-lead ECG as a marker of non-coronary artery disease related myocardial disease by gadolinium delayed enhancement cardiac magnetic resonance imaging
Homsi M, Alsayed L, Safadi A, Das MK, Mahenthiran J
Journal of Cardiovascular Magnetic Resonance 2009, 11(Suppl 1):P58 (28 January 2009)
[Abstract] [Full text] [PDF]

Case Report    
Transient loss of consciousness caused by cryptococcal meningitis in an immunocompetent patient: a case report
Wilbur L, Heyborne R
Cases Journal 2009, 2:60 (15 January 2009)
[Abstract] [Full Text] [PDF] [PubMed] [Related articles]

Research    
Endocannabinoids in Alzheimer's disease and their impact on normative cognitive performance: a case-control and cohort study
Koppel J, Bradshaw H, Goldberg TE, Khalili H, Marambaud P, Walker MJ, Pazos M, Gordon ML, Christen E, Davies P
Lipids in Health and Disease 2009, 8:2 (14 January 2009)
[Abstract] [Full Text] [PDF] [PubMed] [Related articles]

Research article    
Genome screen in familial intracranial aneurysm
Foroud T, Sauerbeck L, Brown R, Anderson C, Woo D, Kleindorfer D, Flaherty ML, Deka R, Hornung R, Meissner I, Bailey-Wilson JE, Langefeld C, Rouleau G, Connolly ES, Lai D, Koller DL, Huston J, Broderick JP, the FIA Study Investigators [Familial Intracranial Aneurysm Study Investigators]
BMC Medical Genetics 2009, 10:3 (13 January 2009)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]

Correction    
Correction: Breast cancer proteomics reveals correlation between estrogen receptor status and differential phosphorylation of PGRMC1
Neubauer H, Clare SE, Wozny W, Schwall GP, Poznanovic S, Stegmann W, Vogel U, Sotlar K, Wallwiener D, Kurek R, Fehm T, Cahill MA
Breast Cancer Research 2009, 11:401 (13 January 2009)
[Abstract] [Full text] [PDF]

Research    
Production of recombinant AAV vectors encoding insulin-like growth factor I is enhanced by interaction among AAV rep regulatory sequences
Shi S, Mercer SA, Dilley R, Trippel SB
Virology Journal 2009, 6:3 (7 January 2009)
[Abstract] [Full Text] [PDF] [PubMed] [Related articles]

Research article    
Intracellular amyloid formation in muscle cells of A-transgenic Caenorhabditis elegans: determinants and physiological role in copper detoxification
Minniti AN, Rebolledo DL, Grez PM, Fadic R, Aldunate R, Volitakis I, Cherny RA, Opazo C, Masters C, Bush AI, Inestrosa NC
Molecular Neurodegeneration 2009, 4:2 (6 January 2009)
[Abstract] [Full Text] [PDF] [PubMed] [Related articles]

Research article    
Proteomic analysis of tumor necrosis factor- resistant human breast cancer cells reveals a MEK5/Erk5-mediated epithelial-mesenchymal transition phenotype
Zhou C, Nitschke AM, Xiong W, Zhang Q, Tang Y, Bloch M, Elliott S, Zhu Y, Bazzone L, Yu D, Weldon CB, Schiff R, McLachlan JA, Beckman BS, Wiese TE, Nephew KP, Shan B, Burow ME, Wang G
Breast Cancer Research 2008, 10:R105 (16 December 2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]

Case report    
Takotsubo cardiomyopathy in a patient with esophageal cancer: a case report
Gangadhar TC, Von der Lohe E, Sawada SG, Helft PR
Journal of Medical Case Reports 2008, 2:379 (8 December 2008)
[Abstract] [Full Text] [PDF] [PubMed] [Related articles]

Research article    
Improved machine learning method for analysis of gas phase chemistry of peptides
Gehrke A, Sun S, Kurgan L, Ahn N, Resing K, Kafadar K, Cios K
BMC Bioinformatics 2008, 9:515 (3 December 2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]

Correction    
Uncovering rate variation of lateral gene transfer during bacterial genome evolution
Hao W, Golding GB
BMC Genomics 2008, 9:556 (25 November 2008)
[Abstract] [Full text] [PDF]

Research article    
Histopathological and molecular heterogeneity among individuals with dementia associated with Presenilin mutations
Maarouf CL, Daugs ID, Spina S, Vidal R, Kokjohn TA, Patton RL, Kalback WM, Luehrs DC, Walker DG, Castaño EM, Beach TG, Ghetti B, Roher AE
Molecular Neurodegeneration 2008, 3:20 (20 November 2008)
[Abstract] [Full Text] [PDF] [PubMed] [Related articles]

Research    
Cyclic changes in gene expression induced by Peg-interferon alfa-2b plus ribavirin in peripheral blood monocytes (PBMC) of hepatitis C patients during the first 10 weeks of treatment
Taylor MW, Tsukahara T, McClintick JN, Edenberg HJ, Kwo P
Journal of Translational Medicine 2008, 6:66 (5 November 2008)
[Abstract] [Full Text] [PDF] [PubMed] [Related articles]

Research    
A comparative analysis of viral matrix proteins using disorder predictors
Goh GKM, Dunker AK, Uversky VN
Virology Journal 2008, 5:126 (23 October 2008)
[Abstract] [Full Text] [PDF] [PubMed] [Related articles]

Meeting abstract    
1056 Feasibility and ultility of cardiac MRI in patients with valved bovine jugular vein conduits for right ventricular outflow tract reconstruction
Ramrakhiani S, Cohen MD, Brown JW, Johnson TR
Journal of Cardiovascular Magnetic Resonance 2008, 10(Suppl 1):A181 (22 October 2008)
[Abstract] [Full text] [PDF]

Meeting abstract    
2064 Fragmented QRS complexes on 12-lead ECG as a marker of greater myocardial infiltration by cardiac magnetic resonance gadolinium-delayed enhancement images in patients with sarcoidosis
Homsi M, Alsayed L, Vaz D, Das MK, Mahenthiran J
Journal of Cardiovascular Magnetic Resonance 2008, 10(Suppl 1):A333 (22 October 2008)
[Abstract] [Full text] [PDF]

Research article    
Breast cancer proteomics reveals correlation between estrogen receptor status and differential phosphorylation of PGRMC1
Neubauer H, Clare SE, Wozny W, Schwall GP, Poznanovi S, Stegmann W, Vogel U, Sotlar K, Wallwiener D, Kurek R, Fehm T, Cahill MA
Breast Cancer Research 2008, 10:R85 (15 October 2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]

Methodology article    
A MITE-based genotyping method to reveal hundreds of DNA polymorphisms in an animal genome after a few generations of artificial selection
Bonin A, Paris M, Després L, Tetreau G, David JP, Kilian A
BMC Genomics 2008, 9:459 (6 October 2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]

Oral presentation    
Rearfoot and knee coupling over a prolonged run in runners with patellofemoral pain syndrome
Davis IS, Dierks TA
Journal of Foot and Ankle Research 2008, 1(Suppl 1):O15 (26 September 2008)
[Abstract] [Full text] [PDF]

Research    
Paroxysmal extreme pain disorder M1627K mutation in human Nav1.7 renders DRG neurons hyperexcitable
Dib-Hajj SD, Estacion M, Jarecki BW, Tyrrell L, Fischer TZ, Lawden M, Cummins TR, Waxman SG
Molecular Pain 2008, 4:37 (19 September 2008)
[Abstract] [Full Text] [PDF] [PubMed] [Related articles]

Research    
The unfoldomics decade: an update on intrinsically disordered proteins
Dunker AK, Oldfield CJ, Meng J, Romero P, Yang JY, Chen JW, Vacic V, Obradovic Z, Uversky VN
BMC Genomics 2008, 9(Suppl 2):S1 (16 September 2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]

Research    
Transcription factor and microRNA regulation in androgen-dependent and -independent prostate cancer cells
Wang G, Wang Y, Feng W, Wang X, Yang JY, Zhao Y, Wang Y, Liu Y
BMC Genomics 2008, 9(Suppl 2):S22 (16 September 2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]

Research    
A Poisson mixture model to identify changes in RNA polymerase II binding quantity using high-throughput sequencing technology
Feng W, Liu Y, Wu J, Nephew KP, Huang THM, Li L
BMC Genomics 2008, 9(Suppl 2):S23 (16 September 2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]

Research    
Short Linear Motifs recognized by SH2, SH3 and Ser/Thr Kinase domains are conserved in disordered protein regions
Ren S, Uversky VN, Chen Z, Dunker AK, Obradovic Z
BMC Genomics 2008, 9(Suppl 2):S26 (16 September 2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]

Research    
Protein intrinsic disorder toolbox for comparative analysis of viral proteins
Goh GKM, Dunker AK, Uversky VN
BMC Genomics 2008, 9(Suppl 2):S4 (16 September 2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]

Software    
BOV a web-based BLAST output visualization tool
Gollapudi R, Revanna KV, Hemmerich C, Schaack S, Dong Q
BMC Genomics 2008, 9:414 (15 September 2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]

Research article    
Identification of a gene signature in cell cycle pathway for breast cancer prognosis using gene expression profiling data
Liu J, Campen A, Huang S, Peng SB, Ye X, Palakal M, Dunker AK, Xia Y, Li S
BMC Medical Genomics 2008, 1:39 (11 September 2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]

Research    
Normalization of flow-mediated dilation to shear stress area under the curve eliminates the impact of variable hyperemic stimulus
Padilla J, Johnson BD, Newcomer SC, Wilhite DP, Mickleborough TD, Fly AD, Mather KJ, Wallace JP
Cardiovascular Ultrasound 2008, 6:44 (4 September 2008)
[Abstract] [Full Text] [PDF] [PubMed] [Related articles]

Research    
Uncovering protein interaction in abstracts and text using a novel linear model and word proximity networks
Abi-Haidar A, Kaur J, Maguitman A, Radivojac P, Rechtsteiner A, Verspoor K, Wang Z, Rocha LM
Genome Biology 2008, 9(Suppl 2):S11 (1 September 2008)
[Full text] [PDF] [PubMed] [Related articles]

Research article    
TOPS++FATCAT: Fast flexible structural alignment using constraints derived from TOPS+ Strings Model
Veeramalai M, Ye Y, Godzik A
BMC Bioinformatics 2008, 9:358 (31 August 2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]

Research    
Allogeneic endometrial regenerative cells: An "Off the shelf solution" for critical limb ischemia?
Murphy MP, Wang H, Patel AN, Kambhampati S, Angle N, Chan K, Marleau AM, Pyszniak A, Carrier E, Ichim TE, Riordan NH
Journal of Translational Medicine 2008, 6:45 (19 August 2008)
[Abstract] [Full Text] [PDF] [PubMed] [Related articles]

Proceedings    
ProteoLens: a visual analytic tool for multi-scale database-driven biological network data mining
Huan T, Sivachenko AY, Harrison SH, Chen JY
BMC Bioinformatics 2008, 9(Suppl 9):S5 (12 August 2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]

Research article    
In vitro tooth whitening effect of two medicated chewing gums compared to a whitening gum and saliva
Moore M, Hasler-Nguyen N, Saroea G
BMC Oral Health 2008, 8:23 (11 August 2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]

Hypothesis    
Stone age diseases and modern AIDS
Koch AL
Virology Journal 2008, 5:93 (7 August 2008)
[Abstract] [Full Text] [PDF] [PubMed] [Related articles]

Research    
Novel genes dramatically alter regulatory network topology in amphioxus
Zhang Q, Zmasek CM, Dishaw LJ, Mueller MG, Ye Y, Litman GW, Godzik A
Genome Biology 2008, 9:R123 (4 August 2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]


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