Roger Bumgarner: search on Z-Library

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1

Comparative hybridization of an array of 21 500 ovarian cDNAs for the discovery of genes overexpressed in ovarian carcinomas

Michèl Schummer, WaiLap V Ng, Roger E Bumgarner, Peter S Nelson, Bernhard Schummer, David W Bednarski, Laurie Hassell, Rae Lynn Baldwin, Beth Y Karlan, Leroy Hood

Journal:

Year:

1999

Language:

english

File:

PDF, 311 KB

english, 1999

2

[Methods in Molecular Biology] Computational Systems Biology Volume 541 || Enzyme Function Prediction with Interpretable Models

Ireton, Reneé, Montgomery, Kristina, Bumgarner, Roger, Samudrala, Ram, McDermott, Jason

Year:

2009

Language:

english

File:

PDF, 1.34 MB

english, 2009

3

[Methods in Molecular Biology] Computational Systems Biology Volume 541 || Detecting Hierarchical Modularity in Biological Networks

Ireton, Reneé, Montgomery, Kristina, Bumgarner, Roger, Samudrala, Ram, McDermott, Jason

Year:

2009

Language:

english

File:

PDF, 643 KB

english, 2009

4

Integrating large-scale functional genomic data to dissect the complexity of yeast regulatory networks

Zhu, Jun, Zhang, Bin, Smith, Erin N, Drees, Becky, Brem, Rachel B, Kruglyak, Leonid, Bumgarner, Roger E, Schadt, Eric E

Journal:

Nature Genetics

Year:

2008

Language:

english

File:

PDF, 519 KB

english, 2008

5

[Methods in Molecular Biology] Computational Systems Biology Volume 541 || Kinetic Modeling of Biological Systems

Ireton, Reneé, Montgomery, Kristina, Bumgarner, Roger, Samudrala, Ram, McDermott, Jason

Year:

2009

Language:

english

File:

PDF, 373 KB

english, 2009

6

Correction: Multiclass classification of microarray data with repeated measurements: application to cancer

Ka Yee Yeung, Roger E Bumgarner

Journal:

Year:

2005

Language:

english

File:

PDF, 74 KB

english, 2005

7

Quality Control and Robust Estimation for cDNA Microarrays With Replicates

Gottardo, Raphael, Raftery, Adrian E, Yeung, Ka Yee, Bumgarner, Roger E

Journal:

Journal of the American Statistical Association

Year:

2006

Language:

english

File:

PDF, 545 KB

english, 2006

8

An Expressed-Sequence-Tag Database of the Human Prostate: Sequence Analysis of 1168 cDNA Clones

Peter S. Nelson, Wai-Lap Ng, Michèl Schummer, Lawrence D. True, Alvin Y. Liu, Roger E. Bumgarner, Camari Ferguson, Amy Dimak, Leroy Hood

Journal:

Year:

1998

Language:

english

File:

PDF, 155 KB

english, 1998

9

Resistance detected by pyrosequencing following zidovudine monotherapy for prevention of HIV-1 mother-to-child-transmission

Olson, Scott C., Ngo-Giang-Huong, Nicole, Beck, Ingrid, Deng, Wenjie, Britto, Paula, Shapiro, David E., Bumgarner, Roger E., Mullins, James I., Van Dyke, Russell B., Jourdain, Gonzague, Frenkel, Lisa

Journal:

Year:

2015

Language:

english

File:

PDF, 189 KB

english, 2015

10

Snapshot of a Large Dynamic Replicon in a Halophilic Archaeon: Megaplasmid or Minichromosome?

Ng, WaiLap V., Ciufo, Stacy A., Smith, Todd M., Bumgarner, Roger E., Baskin, Dale, Faust, Janet, Hall, Barbara, Loretz, Carol, Seto, Jason, Slagel, Joseph, Hood, Leroy, DasSarma, Shiladitya

Journal:

Genome Research

Year:

1998

Language:

english

File:

PDF, 2.77 MB

english, 1998

11

Temporal genetic association and temporal genetic causality methods for dissecting complex networks

Lin, Luan, Chen, Quan, Hirsch, Jeanne P., Yoo, Seungyeul, Yeung, Kayee, Bumgarner, Roger E., Tu, Zhidong, Schadt, Eric E., Zhu, Jun

Journal:

Nature Communications

Year:

2018

Language:

english

File:

PDF, 1.92 MB

english, 2018

12

Iterative Bayesian Model Averaging: a method for the application of survival analysis to high-dimensional microarray data

Amalia Annest, Roger E Bumgarner, Adrian E Raftery, Ka Yee Yeung

Journal:

BMC Bioinformatics

Year:

2009

Language:

english

File:

PDF, 400 KB

english, 2009

13

Multifunctionality of PAI-1 in fibrogenesis: Evidence from obstructive nephropathy in PAI-1-overexpressing mice1

Matsuo, Shunya, Lopez-Guisa, Jesus M., Cai, Xiaohe, Okamura, Daryl M., Alpers, Charles E., Bumgarner, Roger E., Peters, Mette A., Zhang, Guoqiang, Eddy, Allison A.

Journal:

Kidney International

Year:

2005

Language:

english

File:

PDF, 559 KB

english, 2005

14

Attenuation of the type I interferon response in cells infected with human rhinovirus

Swathi Kotla, Tao Peng, Roger E. Bumgarner, Kurt E. Gustin

Journal:

Year:

2008

Language:

english

File:

PDF, 793 KB

english, 2008

15

Data-adaptive algorithms for calling alleles in repeat polymorphisms

Dr. Roland Stoughton, Roger Bumgarner, William J. Frederick III, Richard A. McIndoe

Journal:

ELECTROPHORESIS

Year:

1997

Language:

english

File:

PDF, 514 KB

english, 1997

16

[Methods in Molecular Biology] Computational Systems Biology Volume 541 || Biological Network Inference and Analysis Using SEBINI and CABIN

Ireton, Reneé, Montgomery, Kristina, Bumgarner, Roger, Samudrala, Ram, McDermott, Jason

Year:

2009

Language:

english

File:

PDF, 601 KB

english, 2009

17

Cutibacterium acnes Isolates from Deep Tissue Specimens Retrieved during Revision Shoulder Arthroplasty: Similar Colony Morphology Does Not Indicate Clonality

Bumgarner, Roger E., Harrison, Della, Hsu, Jason E., Patel, Robin

Journal:

Journal of Clinical Microbiology

Year:

2019

File:

PDF, 207 KB

2019

18

Clustering gene-expression data with repeated measurements

Ka Yee Yeung, Mario Medvedovic, Roger E Bumgarner

Journal:

Year:

2003

Language:

english

File:

PDF, 340 KB

english, 2003

19

Draft Genome Sequence of Actinomyces odontolyticus subsp. actinosynbacter Strain XH001, the Basibiont of an Oral TM7 Epibiont

McLean, Jeffrey S., Liu, Quanhui, Bor, Batbileg, Bedree, Joseph K., Cen, Lujia, Watling, Michael, To, Thao T., Bumgarner, Roger E., He, Xuesong, Shi, Wenyuan

Journal:

Genome Announcements

Year:

2016

Language:

english

File:

PDF, 154 KB

english, 2016

20

Bayesian Robust Inference for Differential Gene Expression in Microarrays with Multiple Samples

Raphael Gottardo, Adrian E. Raftery, Ka Yee Yeung and Roger E. Bumgarner

Journal:

Year:

2006

Language:

english

File:

PDF, 2.10 MB

english, 2006

21

Addendum: Standardizing global gene expression analysis between laboratories and across platforms

Bammler, Theodore, Beyer, Richard P, Bhattacharya, Sanchita, Boorman, Gary A, Boyles, Abee, Bradford, Blair U, Bumgarner, Roger E, Bushel, Pierre R, Chaturvedi, Kabir, Choi, Dongseok

Journal:

Year:

2005

Language:

english

File:

PDF, 35 KB

english, 2005

22

Negative selection: a method for obtaining low-abundance cDNAs using high-density cDNA clone arrays

Peter S Nelson, Victoria Hawkins, Michel Schummer, Roger Bumgarner, Wai-Lap Ng, Trey Ideker, Camari Ferguson, Leroy Hood

Journal:

Genetic Analysis: Biomolecular Engineering

Year:

1999

Language:

english

File:

PDF, 302 KB

english, 1999

23

High-Quality Draft Genome Sequence of Low-pH-Active Veillonella parvula Strain SHI-1, Isolated from Human Saliva within an In Vitro Oral Biofilm Model

Edlund, Anna, Liu, Quanhui, Watling, Michael, To, Thao T., Bumgarner, Roger E., He, Xuesong, Shi, Wenyuan, McLean, Jeffrey S.

Journal:

Genome Announcements

Year:

2016

Language:

english

File:

PDF, 159 KB

english, 2016

24

[Methods in Molecular Biology] Computational Systems Biology Volume 541 || Comparing Algorithms for Clustering of Expression Data: How to Assess Gene Clusters

Ireton, Reneé, Montgomery, Kristina, Bumgarner, Roger, Samudrala, Ram, McDermott, Jason

Year:

2009

Language:

english

File:

PDF, 794 KB

english, 2009

25

Laser capture microdissection enables cellular and molecular studies of tooth root development

Sun, Jian-Xun, Horst, Orapin V, Bumgarner, Roger, Lakely, Bryce, Somerman, Martha J, Zhang, Hai

Journal:

International Journal of Oral Science

Year:

2012

Language:

english

File:

PDF, 1.21 MB

english, 2012

26

Relationships between Deficits in Tissue Mass and Transcriptional Programs after Partial Hepatectomy in Mice

Jiangning Li, Jean S. Campbell, Claudia Mitchell, Ryan S. McMahan, Xuesong Yu, Kimberly J. Riehle, Roger E. Bumgarner, Nelson Fausto

Journal:

The American Journal of Pathology

Year:

2009

Language:

english

File:

PDF, 790 KB

english, 2009

27

[Methods in Molecular Biology] Computational Systems Biology Volume 541 || Using Evolutionary Information to Find Specificity-Determining and Co-evolving Residues

Ireton, Reneé, Montgomery, Kristina, Bumgarner, Roger, Samudrala, Ram, McDermott, Jason

Year:

2009

Language:

english

File:

PDF, 848 KB

english, 2009

28

Chlamydia trachomatis Variant with Nonfusing Inclusions: Growth Dynamic and Host‐Cell Transcriptional Response

Xia, Minsheng, Suchland, Robert J., Bumgarner, Roger E., Peng, Tao, Rockey, Daniel D., Stamm, Walter E.

Journal:

The Journal of Infectious Diseases

Year:

2005

Language:

english

File:

PDF, 1.83 MB

english, 2005

29

Bacterial Communities in Women with Bacterial Vaginosis: High Resolution Phylogenetic Analyses Reveal Relationships of Microbiota to Clinical Criteria

Srinivasan, Sujatha, Hoffman, Noah G., Morgan, Martin T., Matsen, Frederick A., Fiedler, Tina L., Hall, Robert W., Ross, Frederick J., McCoy, Connor O., Bumgarner, Roger, Marrazzo, Jeanne M., Fredrick

Journal:

Year:

2012

Language:

english

File:

PDF, 1.43 MB

english, 2012

30

Direct multiplexed measurement of gene expression with color-coded probe pairs

Geiss, Gary K, Bumgarner, Roger E, Birditt, Brian, Dahl, Timothy, Dowidar, Naeem, Dunaway, Dwayne L, Fell, H Perry, Ferree, Sean, George, Renee D, Grogan, Tammy

Journal:

Nature Biotechnology

Year:

2008

Language:

english

File:

PDF, 415 KB

english, 2008

31

On the persistence of supplementary resources in biomedical publications

Nicholas R Anderson, Peter Tarczy-Hornoch, Roger E Bumgarner

Journal:

BMC Bioinformatics

Year:

2006

Language:

english

File:

PDF, 586 KB

english, 2006

32

A prioritization analysis of disease association by data-mining of functional annotation of human genes

Takayuki Taniya, Susumu Tanaka, Yumi Yamaguchi-Kabata, Hideki Hanaoka, Chisato Yamasaki, Harutoshi Maekawa, Roberto A. Barrero, Boris Lenhard, Milton W. Datta, Mary Shimoyama, Roger Bumgarner, Ranajit

Journal:

Year:

2012

Language:

english

File:

PDF, 341 KB

english, 2012

33

From co-expression to co-regulation: how many microarray experiments do we need?

Ka Yee Yeung, Mario Medvedovic, Roger E Bumgarner

Journal:

Year:

2004

Language:

english

File:

PDF, 286 KB

english, 2004

34

Hierarchical gene expression profiles of HUVEC stimulated by different lipid A structures obtained from Porphyromonas gingivalis and Escherichia coli

Casey Chen, Stephen R. Coats, Roger E. Bumgarner, Richard P. Darveau

Journal:

Cellular Microbiology

Year:

2007

Language:

english

File:

PDF, 342 KB

english, 2007

35

Corrigendum: Direct multiplexed measurement of gene expression with color-coded probe pairs

Geiss, Gary K, Bumgarner, Roger E, Birditt, Brian, Dahl, Timothy, Dowidar, Naeem, Dunaway, Dwayne L, Fell, H Perry, Ferree, Sean, George, Renee D, Grogan, Tammy

Journal:

Nature Biotechnology

Year:

2008

Language:

english

File:

PDF, 53 KB

english, 2008

36

Microwave and tunable far-infrared laser spectroscopy of the ammonia–water dimer

Stockman, Paul A., Bumgarner, Roger E., Suzuki, Sakae, Blake, Geoffrey A.

Journal:

The Journal of Chemical Physics

Year:

1992

Language:

english

File:

PDF, 1.39 MB

english, 1992

37

Origin of Propionibacterium in Surgical Wounds and Evidence-Based Approach for Culturing Propionibacterium from Surgical Sites

Matsen, Frederick A., Butler-Wu, Susan, Carofino, Bradley C., Jette, Jocelyn L., Bertelsen, Alexander, Bumgarner, Roger

Journal:

The Journal of Bone & Joint Surgery

Year:

2013

Language:

english

File:

PDF, 647 KB

english, 2013

38

Draft Genome Sequence of Low-Passage Clinical Isolate Porphyromonas gingivalis MP4-504

To, Thao T., Liu, Quanhui, Watling, Michael, Bumgarner, Roger E., Darveau, Richard P., McLean, Jeffrey S.

Journal:

Genome Announcements

Year:

2016

Language:

english

File:

PDF, 161 KB

english, 2016

39

An analysis of the dynamic range and linearity of an infrared DNA sequencer

Richard A. McIndoe, Leroy Hood, Roger E. Bumgarner

Journal:

ELECTROPHORESIS

Year:

1996

Language:

english

File:

PDF, 778 KB

english, 1996

40

Development of the Minimum Information Specification for In Situ Hybridization and Immunohistochemistry Experiments (MISFISHIE)

Deutsch, Eric W., Ball, Catherine A., Bova, G. Steven, Brazma, Alvis, Bumgarner, Roger E., Campbell, David, Causton, Helen C., Christiansen, Jeff, Davidson, Duncan, Eichner, Lillian J., Goo, Young Ah,

Journal:

Omics A Journal of Integrative Biology

Year:

2006

Language:

english

File:

PDF, 56 KB

english, 2006

41

Lack of viral control and development of combination antiretroviral therapy escape mutations in macaques after bone marrow transplantation

Peterson, Christopher W., Haworth, Kevin G., Polacino, Patricia, Huang, Meei-Li, Sykes, Craig, Obenza, Willimark M., Repetto, Andrea C., Kashuba, Angela, Bumgarner, Roger, DeRosa, Stephen C., Woolfrey

Journal:

Year:

2015

Language:

english

File:

PDF, 2.95 MB

english, 2015

42

Bayesian Robust Inference for Differential Gene Expression in Microarrays with Multiple Samples

Raphael Gottardo, Adrian E. Raftery, Ka Yee Yeung, Roger E. Bumgarner

Journal:

Year:

2006

Language:

english

File:

PDF, 520 KB

english, 2006

43

10.1038/35101627

Whiteley, Marvin, Bangera, M. Gita, Bumgarner, Roger E., Parsek, Matthew R., Teitzel, Gail M., Lory, Stephen, Greenberg, E. P.

Journal:

Year:

2001

Language:

english

File:

PDF, 436 KB

english, 2001

44

[Methods in Molecular Biology] Computational Systems Biology Volume 541 || Prediction and Integration of Regulatory and Protein–Protein Interactions

Ireton, Reneé, Montgomery, Kristina, Bumgarner, Roger, Samudrala, Ram, McDermott, Jason

Year:

2009

Language:

english

File:

PDF, 923 KB

english, 2009

45

[Methods in Molecular Biology] Computational Systems Biology Volume 541 || Identification of cis-Regulatory Elements in Gene Co-expression Networks Using A-GLAM

Ireton, Reneé, Montgomery, Kristina, Bumgarner, Roger, Samudrala, Ram, McDermott, Jason

Year:

2009

Language:

english

File:

PDF, 1.17 MB

english, 2009

46

Stitching together Multiple Data Dimensions Reveals Interacting Metabolomic and Transcriptomic Networks That Modulate Cell Regulation

Zhu, Jun, Sova, Pavel, Xu, Qiuwei, Dombek, Kenneth M., Xu, Ethan Y., Vu, Heather, Tu, Zhidong, Brem, Rachel B., Bumgarner, Roger E., Schadt, Eric E., Levchenko, Andre

Journal:

Year:

2012

Language:

english

File:

PDF, 1.08 MB

english, 2012

47

Proteomic Analysis of Two Non-Bronchoscopic Methods of Sampling the Lungs of Patients with the Acute Respiratory Distress Syndrome (ARDS)

Dong W. Chang, Giuseppe Colucci, Tomas Vaisar, Trevor King, Shinichi Hayashi, Gustavo Matute-Bello, Roger Bumgarner, Jay Heinecke, Thomas R. Martin, Guido M. Domenighetti

Journal:

Clinical Proteomics

Year:

2007

Language:

english

File:

PDF, 407 KB

english, 2007

48

10.1038/35101634

Whiteley, Marvin, Bangera, M. Gita, Bumgarner, Roger E., Parsek, Matthew R., Teitzel, Gail M., Lory, Stephen, Greenberg, E. P.

Journal:

Year:

2001

Language:

english

File:

PDF, 296 KB

english, 2001

49

Proteomic and Computational Analysis of Bronchoalveolar Proteins during the Course of the Acute Respiratory Distress Syndrome

Chang, Dong W., Hayashi, Shinichi, Gharib, Sina A., Vaisar, Tomas, King, S. Trevor, Tsuchiya, Mitsuhiro, Ruzinski, John T., Park, David R., Matute-Bello, Gustavo, Wurfel, Mark M., Bumgarner, Roger, He

Journal:

American Journal of Respiratory and Critical Care Medicine

Year:

2008

Language:

english

File:

PDF, 1.40 MB

english, 2008

50

10.1038/35101637

Whiteley, Marvin, Bangera, M. Gita, Bumgarner, Roger E., Parsek, Matthew R., Teitzel, Gail M., Lory, Stephen, Greenberg, E. P.

Journal:

Year:

2001

Language:

english

File:

PDF, 375 KB

english, 2001

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