Format
Sort by
Items per page

Send to

Choose Destination

Search results

Items: 1 to 50 of 194

1.

Genome Dynamics of Vibrio cholerae Isolates Linked to Seasonal Outbreaks of Cholera in Dhaka, Bangladesh.

Baddam R, Sarker N, Ahmed D, Mazumder R, Abdullah A, Morshed R, Hussain A, Begum S, Shahrin L, Khan AI, Islam MS, Ahmed T, Alam M, Clemens JD, Ahmed N.

mBio. 2020 Feb 11;11(1). pii: e03339-19. doi: 10.1128/mBio.03339-19.

2.

Nodding syndrome phenotypes.

Spencer PS, Mazumder R, Palmer VS, Pollanen MS.

Rev Neurol (Paris). 2019 Dec;175(10):679-685. doi: 10.1016/j.neurol.2019.09.005. Epub 2019 Nov 18. Review.

3.

GlyGen: Computational and Informatics Resources for Glycoscience.

York WS, Mazumder R, Ranzinger R, Edwards N, Kahsay R, Aoki-Kinoshita KF, Campbell MP, Cummings RD, Feizi T, Martin M, Natale DA, Packer NH, Woods RJ, Agarwal G, Arpinar S, Bhat S, Blake J, Castro LJG, Fochtman B, Gildersleeve J, Goldman R, Holmes X, Jain V, Kulkarni S, Mahadik R, Mehta A, Mousavi R, Nakarakommula S, Navelkar R, Pattabiraman N, Pierce MJ, Ross K, Vasudev P, Vora J, Williamson T, Zhang W.

Glycobiology. 2020 Jan 28;30(2):72-73. doi: 10.1093/glycob/cwz080. No abstract available.

PMID:
31616925
4.

Mutated CEACAMs Disrupt Transforming Growth Factor Beta Signaling and Alter the Intestinal Microbiome to Promote Colorectal Carcinogenesis.

Gu S, Zaidi S, Hassan MI, Mohammad T, Malta TM, Noushmehr H, Nguyen B, Crandall KA, Srivastav J, Obias V, Lin P, Nguyen BN, Yao M, Yao R, King CH, Mazumder R, Mishra B, Rao S, Mishra L.

Gastroenterology. 2020 Jan;158(1):238-252. doi: 10.1053/j.gastro.2019.09.023. Epub 2019 Oct 1.

PMID:
31585122
5.

The GlySpace Alliance: toward a collaborative global glycoinformatics community.

Aoki-Kinoshita KF, Lisacek F, Mazumder R, York WS, Packer NH.

Glycobiology. 2020 Jan 28;30(2):70-71. doi: 10.1093/glycob/cwz078. No abstract available.

PMID:
31573039
6.

Baseline human gut microbiota profile in healthy people and standard reporting template.

King CH, Desai H, Sylvetsky AC, LoTempio J, Ayanyan S, Carrie J, Crandall KA, Fochtman BC, Gasparyan L, Gulzar N, Howell P, Issa N, Krampis K, Mishra L, Morizono H, Pisegna JR, Rao S, Ren Y, Simonyan V, Smith K, VedBrat S, Yao MD, Mazumder R.

PLoS One. 2019 Sep 11;14(9):e0206484. doi: 10.1371/journal.pone.0206484. eCollection 2019.

7.

Screening for coeliac disease in children and adults living in a slum of Dhaka, Bangladesh.

Gazi MA, Das S, Mahfuz M, Hasan MM, Hossain MS, Fahim SM, Alam MA, Noor Z, Gilchrist CA, Petri WA, Rahman MM, Mazumder RN, Haque R, Sarker SA, Ahmed T.

BMJ Open Gastroenterol. 2019 Apr 20;6(1):e000294. doi: 10.1136/bmjgast-2019-000294. eCollection 2019.

8.

Investigation of somatic single nucleotide variations in human endogenous retrovirus elements and their potential association with cancer.

Chang TC, Goud S, Torcivia-Rodriguez J, Hu Y, Pan Q, Kahsay R, Blomberg J, Mazumder R.

PLoS One. 2019 Apr 1;14(4):e0213770. doi: 10.1371/journal.pone.0213770. eCollection 2019.

9.

miCloud: A Plug-n-Play, Extensible, On-Premises Bioinformatics Cloud for Seamless Execution of Complex Next-Generation Sequencing Data Analysis Pipelines.

Kim B, Ali T, Dong C, Lijeron C, Mazumder R, Wultsch C, Krampis K.

J Comput Biol. 2019 Mar;26(3):280-284. doi: 10.1089/cmb.2018.0218. Epub 2019 Jan 17.

PMID:
30653336
10.

Enabling precision medicine via standard communication of HTS provenance, analysis, and results.

Alterovitz G, Dean D, Goble C, Crusoe MR, Soiland-Reyes S, Bell A, Hayes A, Suresh A, Purkayastha A, King CH, Taylor D, Johanson E, Thompson EE, Donaldson E, Morizono H, Tsang H, Vora JK, Goecks J, Yao J, Almeida JS, Keeney J, Addepalli K, Krampis K, Smith KM, Guo L, Walderhaug M, Schito M, Ezewudo M, Guimera N, Walsh P, Kahsay R, Gottipati S, Rodwell TC, Bloom T, Lai Y, Simonyan V, Mazumder R.

PLoS Biol. 2018 Dec 31;16(12):e3000099. doi: 10.1371/journal.pbio.3000099. eCollection 2018 Dec.

11.

Identification of key differentially expressed MicroRNAs in cancer patients through pan-cancer analysis.

Hu Y, Dingerdissen H, Gupta S, Kahsay R, Shanker V, Wan Q, Yan C, Mazumder R.

Comput Biol Med. 2018 Dec 1;103:183-197. doi: 10.1016/j.compbiomed.2018.10.021. Epub 2018 Oct 22.

12.

A Primer for Access to Repositories of Cancer-Related Genomic Big Data.

Torcivia-Rodriguez J, Dingerdissen H, Chang TC, Mazumder R.

Methods Mol Biol. 2019;1878:1-37. doi: 10.1007/978-1-4939-8868-6_1. Review.

PMID:
30378067
13.

MELAS: Monitoring treatment with magnetic resonance spectroscopy.

Hovsepian DA, Galati A, Chong RA, Mazumder R, DeGiorgio CM, Mishra S, Yim C.

Acta Neurol Scand. 2019 Jan;139(1):82-85. doi: 10.1111/ane.13027. Epub 2018 Oct 8.

PMID:
30216413
14.

BioMuta and BioXpress: mutation and expression knowledgebases for cancer biomarker discovery.

Dingerdissen HM, Torcivia-Rodriguez J, Hu Y, Chang TC, Mazumder R, Kahsay R.

Nucleic Acids Res. 2018 Jan 4;46(D1):D1128-D1136. doi: 10.1093/nar/gkx907.

15.

DEXTER: Disease-Expression Relation Extraction from Text.

Gupta S, Dingerdissen H, Ross KE, Hu Y, Wu CH, Mazumder R, Vijay-Shanker K.

Database (Oxford). 2018 Jan 1;2018. doi: 10.1093/database/bay045.

16.

Evidence of Enriched, Hadean Mantle Reservoir from 4.2-4.0 Ga zircon xenocrysts from Paleoarchean TTGs of the Singhbhum Craton, Eastern India.

Chaudhuri T, Wan Y, Mazumder R, Ma M, Liu D.

Sci Rep. 2018 May 4;8(1):7069. doi: 10.1038/s41598-018-25494-6.

17.

Loss and gain of N-linked glycosylation sequons due to single-nucleotide variation in cancer.

Fan Y, Hu Y, Yan C, Goldman R, Pan Y, Mazumder R, Dingerdissen HM.

Sci Rep. 2018 Mar 12;8(1):4322. doi: 10.1038/s41598-018-22345-2.

18.

Gold‑manganese oxide nanocomposite suppresses hypoxia and augments pro-inflammatory cytokines in tumor associated macrophages.

Nath A, Pal R, Singh LM, Saikia H, Rahaman H, Ghosh SK, Mazumder R, Sengupta M.

Int Immunopharmacol. 2018 Apr;57:157-164. doi: 10.1016/j.intimp.2018.02.021. Epub 2018 Feb 28.

PMID:
29499453
19.

Ranking the Leading Risk Factors for Sudden Unexpected Death in Epilepsy.

DeGiorgio CM, Markovic D, Mazumder R, Moseley BD.

Front Neurol. 2017 Sep 21;8:473. doi: 10.3389/fneur.2017.00473. eCollection 2017. Review.

20.

Separation and assembly of deep sequencing data into discrete sub-population genomes.

Karagiannis K, Simonyan V, Chumakov K, Mazumder R.

Nucleic Acids Res. 2017 Nov 2;45(19):10989-11003. doi: 10.1093/nar/gkx755.

21.

Analysis of Genomes and Transcriptomes of Hepatocellular Carcinomas Identifies Mutations and Gene Expression Changes in the Transforming Growth Factor-β Pathway.

Chen J, Zaidi S, Rao S, Chen JS, Phan L, Farci P, Su X, Shetty K, White J, Zamboni F, Wu X, Rashid A, Pattabiraman N, Mazumder R, Horvath A, Wu RC, Li S, Xiao C, Deng CX, Wheeler DA, Mishra B, Akbani R, Mishra L.

Gastroenterology. 2018 Jan;154(1):195-210. doi: 10.1053/j.gastro.2017.09.007. Epub 2017 Sep 15.

22.

Bangladesh Environmental Enteric Dysfunction (BEED) study: protocol for a community-based intervention study to validate non-invasive biomarkers of environmental enteric dysfunction.

Mahfuz M, Das S, Mazumder RN, Masudur Rahman M, Haque R, Bhuiyan MMR, Akhter H, Sarker MSA, Mondal D, Muaz SSA, Karim ASMB, Borowitz SM, Moskaluk CA, Barratt MJ, Petri WA, Gordon JI, Ahmed T.

BMJ Open. 2017 Aug 11;7(8):e017768. doi: 10.1136/bmjopen-2017-017768.

23.

Evaluation of Pneumococcal Load in Blood by Polymerase Chain Reaction for the Diagnosis of Pneumococcal Pneumonia in Young Children in the PERCH Study.

Deloria Knoll M, Morpeth SC, Scott JAG, Watson NL, Park DE, Baggett HC, Brooks WA, Feikin DR, Hammitt LL, Howie SRC, Kotloff KL, Levine OS, O'Brien KL, Thea DM, Ahmed D, Antonio M, Awori JO, Baillie VL, Chipeta J, Deluca AN, Dione M, Driscoll AJ, Higdon MM, Jatapai A, Karron RA, Mazumder R, Moore DP, Mwansa J, Nyongesa S, Prosperi C, Seidenberg P, Siludjai D, Sow SO, Tamboura B, Zeger SL, Murdoch DR, Madhi SA; PERCH Study Group .

Clin Infect Dis. 2017 Jun 15;64(suppl_3):S357-S367. doi: 10.1093/cid/cix149.

24.

Detection of Pneumococcal DNA in Blood by Polymerase Chain Reaction for Diagnosing Pneumococcal Pneumonia in Young Children From Low- and Middle-Income Countries.

Morpeth SC, Deloria Knoll M, Scott JAG, Park DE, Watson NL, Baggett HC, Brooks WA, Feikin DR, Hammitt LL, Howie SRC, Kotloff KL, Levine OS, Madhi SA, O'Brien KL, Thea DM, Adrian PV, Ahmed D, Antonio M, Bunthi C, DeLuca AN, Driscoll AJ, Githua LP, Higdon MM, Kahn G, Karani A, Karron RA, Kwenda G, Makprasert S, Mazumder R, Moore DP, Mwansa J, Nyongesa S, Prosperi C, Sow SO, Tamboura B, Whistler T, Zeger SL, Murdoch DR; PERCH Study Group .

Clin Infect Dis. 2017 Jun 15;64(suppl_3):S347-S356. doi: 10.1093/cid/cix145.

25.

The Effect of Antibiotic Exposure and Specimen Volume on the Detection of Bacterial Pathogens in Children With Pneumonia.

Driscoll AJ, Deloria Knoll M, Hammitt LL, Baggett HC, Brooks WA, Feikin DR, Kotloff KL, Levine OS, Madhi SA, O'Brien KL, Scott JAG, Thea DM, Howie SRC, Adrian PV, Ahmed D, DeLuca AN, Ebruke BE, Gitahi C, Higdon MM, Kaewpan A, Karani A, Karron RA, Mazumder R, McLellan J, Moore DP, Mwananyanda L, Park DE, Prosperi C, Rhodes J, Saifullah M, Seidenberg P, Sow SO, Tamboura B, Zeger SL, Murdoch DR; PERCH Study Group .

Clin Infect Dis. 2017 Jun 15;64(suppl_3):S368-S377. doi: 10.1093/cid/cix101.

26.

Distribution bias analysis of germline and somatic single-nucleotide variations that impact protein functional site and neighboring amino acids.

Pan Y, Yan C, Hu Y, Fan Y, Pan Q, Wan Q, Torcivia-Rodriguez J, Mazumder R.

Sci Rep. 2017 Feb 8;7:42169. doi: 10.1038/srep42169.

27.

In vivo quantification of aortic stiffness using MR elastography in hypertensive porcine model.

Dong H, Mazumder R, Illapani VSP, Mo X, White RD, Kolipaka A.

Magn Reson Med. 2017 Dec;78(6):2315-2321. doi: 10.1002/mrm.26601. Epub 2017 Feb 5.

28.

Impact of Nonsynonymous Single-Nucleotide Variations on Post-Translational Modification Sites in Human Proteins.

Gulzar N, Dingerdissen H, Yan C, Mazumder R.

Methods Mol Biol. 2017;1558:159-190. doi: 10.1007/978-1-4939-6783-4_8.

PMID:
28150238
29.

Pubcast and Genecast: Browsing and Exploring Publications and Associated Curated Content in Biology Through Mobile Devices.

Goldweber S, Theodore J, Torcivia-Rodriguez J, Simonyan V, Mazumder R.

IEEE/ACM Trans Comput Biol Bioinform. 2017 Mar-Apr;14(2):498-500. doi: 10.1109/TCBB.2016.2542802. Epub 2016 Mar 23.

PMID:
28113865
30.

Biocompute Objects-A Step towards Evaluation and Validation of Biomedical Scientific Computations.

Simonyan V, Goecks J, Mazumder R.

PDA J Pharm Sci Technol. 2017 Mar-Apr;71(2):136-146. doi: 10.5731/pdajpst.2016.006734. Epub 2016 Dec 14.

31.

Multiple calcifying pseudoneoplasms of the neuraxis (MCAPNON): Distinct entity, CAPNON variant, or old neurocysticercosis?

Abdaljaleel M, Mazumder R, Patel CB, Im K, Pope W, Liau LM, Vinters HV, Yong WH.

Neuropathology. 2017 Jun;37(3):233-240. doi: 10.1111/neup.12349. Epub 2016 Nov 10.

PMID:
27862397
32.

Multicentric Reticulohistiocytosis: an Unknown Source of Embolic Stroke.

Malhotra K, Mazumder R, Liebeskind DS.

J Stroke Cerebrovasc Dis. 2017 Jan;26(1):e22-e24. doi: 10.1016/j.jstrokecerebrovasdis.2016.10.023. Epub 2016 Nov 11.

PMID:
27839900
33.

Response to R. Colebunders: Helminth infections in Nodding syndrome.

Spencer PS, Mazumder R, Palmer VS; Oregon-Uganda Research Team on Nodding Syndrome.

J Neurol Sci. 2017 Jan 15;372:441. doi: 10.1016/j.jns.2016.10.010. Epub 2016 Oct 13. No abstract available.

PMID:
27765294
34.

Environmental, dietary and case-control study of Nodding Syndrome in Uganda: A post-measles brain disorder triggered by malnutrition?

Spencer PS, Mazumder R, Palmer VS, Lasarev MR, Stadnik RC, King P, Kabahenda M, Kitara DL, Stadler D, McArdle B, Tumwine JK; other Members of the Oregon-Uganda Nodding Syndrome Research Team.

J Neurol Sci. 2016 Oct 15;369:191-203. doi: 10.1016/j.jns.2016.08.023. Epub 2016 Aug 14.

35.

In vivo quantification of myocardial stiffness in hypertensive porcine hearts using MR elastography.

Mazumder R, Schroeder S, Mo X, Clymer BD, White RD, Kolipaka A.

J Magn Reson Imaging. 2017 Mar;45(3):813-820. doi: 10.1002/jmri.25423. Epub 2016 Aug 26.

36.

In vivo magnetic resonance elastography to estimate left ventricular stiffness in a myocardial infarction induced porcine model.

Mazumder R, Schroeder S, Mo X, Litsky AS, Clymer BD, White RD, Kolipaka A.

J Magn Reson Imaging. 2017 Apr;45(4):1024-1033. doi: 10.1002/jmri.25432. Epub 2016 Aug 17.

37.

Atypical case of central-variant posterior reversible encephalopathy syndrome.

Malhotra K, Mazumder R, Blanco MB, Liebeskind DS.

Acta Neurol Belg. 2017 Mar;117(1):413-415. doi: 10.1007/s13760-016-0686-2. Epub 2016 Aug 6. No abstract available.

PMID:
27497978
38.

Computational clustering for viral reference proteomes.

Chen C, Huang H, Mazumder R, Natale DA, McGarvey PB, Zhang J, Polson SW, Wang Y, Wu CH; UniProt Consortium.

Bioinformatics. 2016 Jul 1;32(13):2041-3. doi: 10.1093/bioinformatics/btw110. Epub 2016 Feb 26.

39.

DiMeX: A Text Mining System for Mutation-Disease Association Extraction.

Mahmood AS, Wu TJ, Mazumder R, Vijay-Shanker K.

PLoS One. 2016 Apr 13;11(4):e0152725. doi: 10.1371/journal.pone.0152725. eCollection 2016.

40.

Diffusion Tensor Imaging of Healthy and Infarcted Porcine Hearts: Study on the Impact of Formalin Fixation.

Mazumder R, Choi S, Clymer BD, White RD, Kolipaka A.

J Med Imaging Radiat Sci. 2016 Mar;47(1):74-85.

41.

High-performance integrated virtual environment (HIVE): a robust infrastructure for next-generation sequence data analysis.

Simonyan V, Chumakov K, Dingerdissen H, Faison W, Goldweber S, Golikov A, Gulzar N, Karagiannis K, Vinh Nguyen Lam P, Maudru T, Muravitskaja O, Osipova E, Pan Y, Pschenichnov A, Rostovtsev A, Santana-Quintero L, Smith K, Thompson EE, Tkachenko V, Torcivia-Rodriguez J, Voskanian A, Wan Q, Wang J, Wu TJ, Wilson C, Mazumder R.

Database (Oxford). 2016 Mar 17;2016. pii: baw022. doi: 10.1093/database/baw022. Print 2016.

42.

Adaptive anisotropic gaussian filtering to reduce acquisition time in cardiac diffusion tensor imaging.

Mazumder R, Clymer BD, Mo X, White RD, Kolipaka A.

Int J Cardiovasc Imaging. 2016 Jun;32(6):921-34. doi: 10.1007/s10554-016-0848-6. Epub 2016 Feb 2.

43.

Impact of germline and somatic missense variations on drug binding sites.

Yan C, Pattabiraman N, Goecks J, Lam P, Nayak A, Pan Y, Torcivia-Rodriguez J, Voskanian A, Wan Q, Mazumder R.

Pharmacogenomics J. 2017 Mar;17(2):128-136. doi: 10.1038/tpj.2015.97. Epub 2016 Jan 26.

44.

Fear of Falling Is Associated with Recurrent Falls in People with Multiple Sclerosis: A Longitudinal Cohort Study.

Mazumder R, Lambert WE, Nguyen T, Bourdette DN, Cameron MH.

Int J MS Care. 2015 Jul-Aug;17(4):164-70. doi: 10.7224/1537-2073.2014-042.

45.

Captopril in congenital chloride diarrhoea: a case study.

Bin Islam S, Mazumder RN, Chisti MJ, Sharifuzzaman, Sahreen L, Ahmed T, Haque Alam N.

J Health Popul Nutr. 2015 Mar;33(1):214-9.

46.

Probable toxic cause for suspected lychee-linked viral encephalitis.

Spencer PS, Palmer VS, Mazumder R.

Emerg Infect Dis. 2015 May;21(5):904-5. doi: 10.3201/eid2105.141650. No abstract available.

47.

Generating a focused view of disease ontology cancer terms for pan-cancer data integration and analysis.

Wu TJ, Schriml LM, Chen QR, Colbert M, Crichton DJ, Finney R, Hu Y, Kibbe WA, Kincaid H, Meerzaman D, Mitraka E, Pan Y, Smith KM, Srivastava S, Ward S, Yan C, Mazumder R.

Database (Oxford). 2015 Apr 4;2015:bav032. doi: 10.1093/database/bav032. Print 2015.

48.

BioXpress: an integrated RNA-seq-derived gene expression database for pan-cancer analysis.

Wan Q, Dingerdissen H, Fan Y, Gulzar N, Pan Y, Wu TJ, Yan C, Zhang H, Mazumder R.

Database (Oxford). 2015 Mar 28;2015. pii: bav019. doi: 10.1093/database/bav019. Print 2015.

49.

Matrix Completion and Low-Rank SVD via Fast Alternating Least Squares.

Hastie T, Mazumder R, Lee JD, Zadeh R.

J Mach Learn Res. 2015;16:3367-3402.

50.

Germ line variants of human N-methylpurine DNA glycosylase show impaired DNA repair activity and facilitate 1,N6-ethenoadenine-induced mutations.

Adhikari S, Chetram MA, Woodrick J, Mitra PS, Manthena PV, Khatkar P, Dakshanamurthy S, Dixon M, Karmahapatra SK, Nuthalapati NK, Gupta S, Narasimhan G, Mazumder R, Loffredo CA, Üren A, Roy R.

J Biol Chem. 2015 Feb 20;290(8):4966-80. doi: 10.1074/jbc.M114.627000. Epub 2014 Dec 23.

Supplemental Content

Loading ...
Support Center