Works matching AU Wren, Jonathan D.

Results: 140

Hypomethylation coordinates antagonistically with hypermethylation in cancer development: a case study of leukemia.

Published in:

Human Genomics, 2016, v. 10, p. 83, doi. 10.1186/s40246-016-0071-5

By:

Kushwaha, Garima;
Dozmorov, Mikhail;
Wren, Jonathan D.;
Jing Qiu;
Huidong Shi;
Dong Xu

Publication type:

Article

Plant Virus Biodiversity and Ecology.

Published in:

PLoS Biology, 2006, v. 4, n. 3, p. 314, doi. 10.1371/journal.pbio.0040080

By:

Wren, Jonathan D.;
Roossinck, Marilyn J.;
Nelson, Richard S.;
Scheets, Kay;
Palmer, Michael W.;
Melcher, Ulrich

Publication type:

Article

Regional Societies: Fostering Competitive Research Through Virtual Infrastructures.

Published in:

PLoS Biology, 2004, v. 2, n. 12, p. 1, doi. 10.1371/journal.pbio.0020372

By:

Jennings, Steven F;
Ptitsyn, Andrey A;
Wilkins, Dawn;
Bruhn, Russel E;
Slikker Jr, William;
Wren, Jonathan D

Publication type:

Article

Regional Societies: Fostering Competitive Research Through Virtual Infrastructures.

Published in:

PLoS Biology, 2004, v. 2, n. 12, p. 2039, doi. 10.1371/journal.pbio.0020372

By:

Jennings, Steven F.;
Ptitsyn, Andrey A.;
Wilkins, Dawn;
Bruhn, Russel E.;
Slikker Jr., William;
Wren, Jonathan D.

Publication type:

Article

Proteomic Insight into the Role of Exosomes in Proliferative Vitreoretinopathy Development.

Published in:

Journal of Clinical Medicine, 2022, v. 11, n. 10, p. 2716, doi. 10.3390/jcm11102716

By:

Nair, Gopa Kumar Gopinadhan;
Pollalis, Dimitrios;
Wren, Jonathan D.;
Georgescu, Constantin;
Sjoelund, Virginie;
Lee, Sun Young

Publication type:

Article

Sjögren's Syndrome Minor Salivary Gland CD4+ Memory T Cells Associate with Glandular Disease Features and Have a Germinal Center T Follicular Helper Transcriptional Profile.

Published in:

Journal of Clinical Medicine, 2020, v. 9, n. 7, p. 2164, doi. 10.3390/jcm9072164

By:

Joachims, Michelle L.;
Leehan, Kerry M.;
Dozmorov, Mikhail G.;
Georgescu, Constantin;
Pan, Zijian;
Lawrence, Christina;
Marlin, M. Caleb;
Macwana, Susan;
Rasmussen, Astrid;
Radfar, Lida;
Lewis, David M.;
Stone, Donald U.;
Grundahl, Kiely;
Scofield, R. Hal;
Lessard, Christopher J.;
Wren, Jonathan D.;
Thompson, Linda F.;
Guthridge, Joel M.;
Sivils, Kathy L.;
Moore, Jacen S.

Publication type:

Article

Systemic lupus erythematosus biomarkers: the challenging quest.

Published in:

Rheumatology, 2017, v. 56, p. i32, doi. 10.1093/rheumatology/kew407

By:

Arriens, Cristina;
Wren, Jonathan D.;
Munroe, Melissa E.;
Mohan, Chandra

Publication type:

Article

The Isolation and In Vitro Differentiation of Primary Fetal Baboon Tracheal Epithelial Cells for the Study of SARS-CoV-2 Host-Virus Interactions.

Published in:

Viruses (1999-4915), 2023, v. 15, n. 4, p. 862, doi. 10.3390/v15040862

By:

Subramaniyan, Bharathiraja;
Gurung, Sunam;
Bodas, Manish;
Moore, Andrew R.;
Larabee, Jason L.;
Reuter, Darlene;
Georgescu, Constantin;
Wren, Jonathan D.;
Myers, Dean A.;
Papin, James F.;
Walters, Matthew S.

Publication type:

Article

Characterization of the SARS-CoV-2 Host Response in Primary Human Airway Epithelial Cells from Aged Individuals.

Published in:

Viruses (1999-4915), 2021, v. 13, n. 8, p. 1603, doi. 10.3390/v13081603

By:

Subramaniyan, Bharathiraja;
Larabee, Jason L.;
Bodas, Manish;
Moore, Andrew R.;
Burgett, Anthony W. G.;
Myers, Dean A.;
Georgescu, Constantin;
Wren, Jonathan D.;
Papin, James F.;
Walters, Matthew S.

Publication type:

Article

Absence of genomic hypomethylation or regulation of cytosine-modifying enzymes with aging in male and female mice.

Published in:

Epigenetics & Chromatin, 2016, v. 8, p. 1, doi. 10.1186/s13072-016-0080-6

By:

Hadad, Niran;
Masser, Dustin R.;
Logan, Sreemathi;
Wronowski, Benjamin;
Mangold, Colleen A.;
Clark, Nicholas;
Otalora, Laura;
Unnikrishnan, Archana;
Ford, Matthew M.;
Giles, Cory B.;
Wren, Jonathan D.;
Richardson, Arlan;
Sonntag, William E.;
Stanford, David R.;
Freeman, Willard

Publication type:

Article

Ethnicity-specific epigenetic variation in naïve CD4+ T cells and the susceptibility to autoimmunity.

Published in:

Epigenetics & Chromatin, 2015, v. 8, p. 1, doi. 10.1186/s13072-015-0037-1

By:

Coit, Patrick;
Ognenovski, Mikhail;
Gensterblum, Elizabeth;
Maksimowicz-McKinnon, Kathleen;
Wren, Jonathan D.;
Sawalha, Amr H.

Publication type:

Article

Bisulfite oligonucleotide-capture sequencing for targeted base- and strand-specific absolute 5-methylcytosine quantitation.

Published in:

Age (0161-9152), 2016, v. 38, n. 3, p. 1, doi. 10.1007/s11357-016-9914-1

By:

Masser, Dustin R.;
Stanford, David R.;
Hadad, Niran;
Giles, Cory B.;
Wren, Jonathan D.;
Sonntag, William E.;
Richardson, Arlan;
Freeman, Willard M.

Publication type:

Article

A satellite cell‐dependent epigenetic fingerprint in skeletal muscle identity genes after lifelong physical activity.

Published in:

FASEB Journal, 2025, v. 39, n. 5, p. 1, doi. 10.1096/fj.202500177R

By:

Murach, Kevin A.;
Englund, Davis A.;
Chambers, Toby L.;
Dungan, Cory M.;
Porter, Hunter L.;
Wren, Jonathan D.;
Freeman, Willard M.;
Dupont‐Versteegden, Esther E.;
Wen, Yuan

Publication type:

Article

Cigarette Smoke Activates NOTCH3 to Promote Goblet Cell Differentiation in Human Airway Epithelial Cells.

Published in:

American Journal of Respiratory Cell & Molecular Biology, 2021, v. 64, n. 4, p. 426, doi. 10.1165/rcmb.2020-0302OC

By:

Bodas, Manish;
Moore, Andrew R.;
Subramaniyan, Bharathiraja;
Georgescu, Constantin;
Wren, Jonathan D.;
Freeman, Willard M.;
Brown, Brent R.;
Metcalf, Jordan P.;
Walters, Matthew S.

Publication type:

Article

Loss of Nrf2 exacerbates the visual deficits and optic neuritis elicited by experimental autoimmune encephalomyelitis.

Published in:

Molecular Vision, 2016, v. 22, p. 1

By:

Larabee, Chelsea M.;
Desai, Shruti;
Agasing, Agnieshka;
Georgescu, Constantin;
Wren, Jonathan D.;
Axtell, Robert C.;
Plafker, Scott M.

Publication type:

Article

Myelinspecific Th17 cells induce severe relapsing optic neuritis with irreversible loss of retinal ganglion cells in C57BL/6 mice.

Published in:

Molecular Vision, 2016, v. 22, p. 1

By:

Larabee, Chelsea M.;
Yang Hu;
Desai, Shruti;
Georgescu, Constantin;
Wren, Jonathan D.;
Axtell, Robert C.;
Plafker, Scott M.

Publication type:

Article

Targeting Bioinformatics Predicted Biomarkers Associated with Cell Proliferation and Migration for Treating Gliomas: Preclinical Studies in a GL261 Mouse Model.

Published in:

Neuroglia, 2023, v. 4, n. 1, p. 69, doi. 10.3390/neuroglia4010006

By:

Towner, Rheal A.;
Smith, Nataliya;
Saunders, Debra;
Lerner, Megan;
Jensen, Randy L.;
Battiste, James;
Ahmed, Marya;
Wren, Jonathan D.

Publication type:

Article

The NOTCH3 Downstream Target HEYL Is Required for Efficient Human Airway Basal Cell Differentiation.

Published in:

Cells (2073-4409), 2021, v. 10, n. 11, p. 3215, doi. 10.3390/cells10113215

By:

Bodas, Manish;
Subramaniyan, Bharathiraja;
Moore, Andrew R.;
Metcalf, Jordan P.;
Ocañas, Sarah R.;
Freeman, Willard M.;
Georgescu, Constantin;
Wren, Jonathan D.;
Walters, Matthew S.

Publication type:

Article

eTBLAST: a web server to identify expert reviewers, appropriate journals and similar publications.

Published in:

Nucleic Acids Research, 2007, v. 35, n. suppl_2, p. W12, doi. 10.1093/nar/gkm221

By:

Errami, Mounir;
Wren, Jonathan D.;
Hicks, Justin M.;
Garner, Harold R.

Publication type:

Article

Biomedical term mapping databases.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 1, p. d289

By:

Wren, Jonathan D.;
Chang, Jeffrey T.;
Pustejovsky, James;
Adar, Eytan;
Garner, Harold R.;
Altman, Russ B.

Publication type:

Article

Simulated Annealing of Microarray Data Reduces Noise and Enables Cross-Experimental Comparisons.

Published in:

DNA & Cell Biology, 2004, v. 23, n. 10, p. 695, doi. 10.1089/dna.2004.23.695

By:

Wren, Jonathan D.;
Yao, Minghua;
Langer, Marybeth;
Conway, Tyrrell

Publication type:

Article

Histone demethylase JMJD2A drives prostate tumorigenesis through transcription factor ETV1.

Published in:

2016

By:

Tae-Dong Kim;
Fang Jin;
Sook Shin;
Sangphil Oh;
Lightfoot, Stan A.;
Grande, Joseph P.;
Johnson, Aaron J.;
van Deursen, Jan M.;
Wren, Jonathan D.;
Janknecht, Ralf;
Kim, Tae-Dong;
Jin, Fang;
Shin, Sook;
Oh, Sangphil

Publication type:

journal article

Truth, Probability, and Frameworks.

Published in:

2005

By:

Wren, Jonathan D.

Publication type:

Letter

Deja vu A study of duplicate citations in Medline.

Published in:

Bioinformatics, 2008, v. 24, n. 2, p. 243, doi. 10.1093/bioinformatics/btm574

By:

Mounir Errami;
Justin M. Hicks;
Wayne Fisher;
David Trusty;
Jonathan D. Wren;
Tara C. Long;
Harold R. Garner

Publication type:

Article

Clustering microarray-derived gene lists through implicit literature relationships.

Published in:

Bioinformatics, 2007, v. 23, n. 15, p. 1995, doi. 10.1093/bioinformatics/btm261

By:

Mark F. Burkart;
Jonathan D. Wren;
Jason I. Herschkowitz;
Charles M. Perou;
Harold R. Garner

Publication type:

Article

Theory and reality for software patents: good in concept, not so good in practice.

Published in:

Bioinformatics, 2006, v. 22, n. 13, p. 1543, doi. 10.1093/bioinformatics/btl168

By:

Jonathan D. Wren

Publication type:

Article

Markov model recognition and classification of DNA/protein sequences within large text databases.

Published in:

Bioinformatics, 2005, v. 21, n. 21, p. 4046, doi. 10.1093/bioinformatics/bti657

By:

Jonathan D. Wren;
William H. Hildebrand;
Sreedevi Chandrasekaran;
Ulrich Melcher

Publication type:

Article

404 not found: the stability and persistence of URLs published in MEDLINE.

Published in:

Bioinformatics, 2004, v. 20, n. 5, p. 668, doi. 10.1093/bioinformatics/btg465

By:

Jonathan D. Wren

Publication type:

Article

Knowledge discovery by automated identification and ranking of implicit relationships.

Published in:

Bioinformatics, 2004, v. 20, n. 3, p. 389, doi. 10.1093/bioinformatics/btg421

By:

Jonathan D. Wren;
Raffi Bekeredjian;
Jelena A. Stewart;
Ralph V. Shohet;
Harold R. Garner

Publication type:

Article

ARROGANT: an application to manipulate large gene collections.

Published in:

Bioinformatics, 2002, v. 18, n. 11, p. 1410, doi. 10.1093/bioinformatics/18.11.1410

By:

Kulkarni, Amit V.;
Williams, Noelle Sevilir;
Lian, Yun;
Wren, Jonathan D.;
Mittelman, David;
Pertsemlidis, Alexander;
Garner, Harold R.

Publication type:

Article

Insights From Analysis of Human Antigen-Specific Memory B Cell Repertoires.

Published in:

Frontiers in Immunology, 2019, p. N.PAG, doi. 10.3389/fimmu.2018.03064

By:

Shah, Hemangi B.;
Smith, Kenneth;
Wren, Jonathan D.;
Webb, Carol F.;
Ballard, Jimmy D.;
Bourn, Rebecka L.;
James, Judith A.;
Lang, Mark L.

Publication type:

Article

The Role of Neutrophil Proteins on the Amyloid Beta-RAGE Axis.

Published in:

PLoS ONE, 2016, v. 11, n. 9, p. 1, doi. 10.1371/journal.pone.0163330

By:

Stock, Amanda J.;
Kasus-Jacobi, Anne;
Wren, Jonathan D.;
Sjoelund, Virginie H.;
Prestwich, Glenn D.;
Pereira, H. Anne

Publication type:

Article

Optimized monoclonal antibody treatment against ELTD1 for GBM in a G55 xenograft mouse model.

Published in:

Journal of Cellular & Molecular Medicine, 2020, v. 24, n. 2, p. 1738, doi. 10.1111/jcmm.14867

By:

Zalles, Michelle;
Smith, Nataliya;
Ziegler, Jadith;
Saunders, Debra;
Remerowski, Shannon;
Thomas, Lincy;
Gulej, Rafal;
Mamedova, Nadya;
Lerner, Megan;
Fung, Kar‐Ming;
Chung, Junho;
Hwang, Kyusang;
Jin, Junyeong;
Wiley, Graham;
Brown, Chase;
Battiste, James;
Wren, Jonathan D.;
Towner, Rheal A.

Publication type:

Article

Restoration of Sarcoplasmic Reticulum Ca 2+ ATPase (SERCA) Activity Prevents Age-Related Muscle Atrophy and Weakness in Mice.

Published in:

International Journal of Molecular Sciences, 2021, v. 22, n. 1, p. 37, doi. 10.3390/ijms22010037

By:

Qaisar, Rizwan;
Pharaoh, Gavin;
Bhaskaran, Shylesh;
Xu, Hongyang;
Ranjit, Rojina;
Bian, Jan;
Ahn, Bumsoo;
Georgescu, Constantin;
Wren, Jonathan D.;
Van Remmen, Holly

Publication type:

Article

MNEMONIC: MetageNomic Experiment Mining to create an OTU Network of Inhabitant Correlations.

Published in:

BMC Bioinformatics, 2019, v. 20, p. 1, doi. 10.1186/s12859-019-2623-x

By:

Perz, Aleksandra I.;
Giles, Cory B.;
Brown, Chase A.;
Porter, Hunter;
Roopnarinesingh, Xiavan;
Wren, Jonathan D.

Publication type:

Article

Proceedings of the 2018 MidSouth Computational Biology and Bioinformatics Society (MCBIOS) conference.

Published in:

2019

By:

Wren, Jonathan D.;
Doerkson, Robert J.;
Toby, Inimary T.;
Nanduri, Bindu;
Homayouni, Ramin;
Manda, Prashanti;
Thakkar, Shraddha

Publication type:

Conference Paper/Materials

Detecting anomalous referencing patterns in PubMed papers suggestive of author-centric reference list manipulation.

Published in:

Scientometrics, 2022, v. 127, n. 10, p. 5753, doi. 10.1007/s11192-022-04503-6

By:

Wren, Jonathan D.;
Georgescu, Constantin

Publication type:

Article

The write position. A survey of perceived contributions to papers based on byline position and number of authors.

Published in:

EMBO Reports, 2007, v. 8, n. 11, p. 988, doi. 10.1038/sj.embor.7401095

By:

Wren, Jonathan D.;
Kozak, Katarzyna Z.;
Johnson, Kathryn R.;
Deakyne, Sara J.;
Schilling, Lisa M.;
Dellavalle, Robert P.

Publication type:

Article

E-mail decay rates among corresponding authors in MEDLINE.

Published in:

2006

By:

Wren, Jonathan D.;
Grissom, Joe E.;
Conway, Tyrrell

Publication type:

Correction Notice

E-mail decay rates among corresponding authors in MEDLINE.

Published in:

EMBO Reports, 2006, v. 7, n. 2, p. 122, doi. 10.1038/sj.embor.7400631

By:

Wren, Jonathan D.;
Grissom, Joe E.;
Conway, Tyrrell

Publication type:

Article

Histone Deacetylase 5 Is Overexpressed in Scleroderma Endothelial Cells and Impairs Angiogenesis via Repression of Proangiogenic Factors.

Published in:

Arthritis & Rheumatology, 2016, v. 68, n. 12, p. 2975, doi. 10.1002/art.39828

By:

Tsou, Pei‐Suen;
Wren, Jonathan D.;
Amin, M. Asif;
Schiopu, Elena;
Fox, David A.;
Khanna, Dinesh;
Sawalha, Amr H.

Publication type:

Article

Epigenetic Reprogramming in Naive CD4+ T Cells Favoring T Cell Activation and Non-Th1 Effector T Cell Immune Response as an Early Event in Lupus Flares.

Published in:

Arthritis & Rheumatology, 2016, v. 68, n. 9, p. 2200, doi. 10.1002/art.39720

By:

Coit, Patrick;
Dozmorov, Mikhail G.;
Merrill, Joan T.;
McCune, W. Joseph;
Maksimowicz‐McKinnon, Kathleen;
Wren, Jonathan D.;
Sawalha, Amr H.

Publication type:

Article

Evolving research trends in bioinformatics.

Published in:

Briefings in Bioinformatics, 2007, v. 8, n. 2, p. 88, doi. 10.1093/bib/bb1035

By:

Perez-Iratxeta, Carolina;
Andrade-Navarro, Miguel A.;
Wren, Jonathan D.

Publication type:

Article

Algorithmically outsourcing the detection of statistical errors and other problems.

Published in:

EMBO Journal, 2018, v. 37, n. 12, p. 1, doi. 10.15252/embj.201899651

By:

Wren, Jonathan D.

Publication type:

Article

ALE: automated label extraction from GEO metadata.

Published in:

BMC Bioinformatics, 2017, v. 18, p. 7, doi. 10.1186/s12859-017-1888-1

By:

Giles, Cory B.;
Brown, Chase A.;
Ripperger, Michael;
Dennis, Zane;
Roopnarinesingh, Xiavan;
Porter, Hunter;
Perz, Aleksandra;
Wren, Jonathan D.

Publication type:

Article

Proceedings of the 2017 MidSouth Computational Biology and Bioinformatics Society (MCBIOS) Conference.

Published in:

2017

By:

Wren, Jonathan D.;
Dozmorov, Mikhail G.;
Toby, Inimary;
Nanduri, Bindu;
Homayouni, Ramin;
Manda, Prashanti;
Thakkar, Shraddha

Publication type:

Proceeding

Analysis of TMEFF2 Allografts and Transgenic Mouse Models Reveals Roles in Prostate Regeneration and Cancer.

Published in:

Prostate, 2016, v. 76, n. 1, p. 97, doi. 10.1002/pros.23103

By:

Corbin, Joshua M.;
Overcash, Ryan F.;
Wren, Jonathan D.;
Coburn, Anita;
Tipton, Greg J.;
Ezzell, Jennifer A.;
McNaughton, Kirk K.;
Fung, Kar‐Ming;
Kosanke, Stanley D.;
Ruiz‐Echevarria, Maria J.

Publication type:

Article

Reviewer-coerced citation: case report, update on journal policy and suggestions for future prevention.

Published in:

Bioinformatics, 2019, v. 35, n. 18, p. 3217, doi. 10.1093/bioinformatics/btz071

By:

Wren, Jonathan D;
Valencia, Alfonso;
Kelso, Janet

Publication type:

Article

Algorithmic identification of discrepancies between published ratios and their reported confidence intervals and P-values.

Published in:

Bioinformatics, 2018, v. 34, n. 10, p. 1758, doi. 10.1093/bioinformatics/btx811

By:

Georgescu, Constantin;
Wren, Jonathan D

Publication type:

Article

Bioinformatics programs are 31-fold over-represented among the highest impact scientific papers of the past two decades.

Published in:

Bioinformatics, 2016, v. 32, n. 17, p. 2686, doi. 10.1093/bioinformatics/btw284

By:

Wren, Jonathan D.

Publication type:

Article