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1

Immunobiology of Long Noncoding RNAs

Atianand, Maninjay K., Caffrey, Daniel R., Fitzgerald, Katherine A.

Journal:

Annual Review of Immunology

Year:

2017

Language:

english

File:

PDF, 1023 KB

english, 2017

2

Synonymous mutations at the beginning of the influenza A virus hemagglutinin gene impact experimental fitness

Canale, Aneth S., Venev, Sergey V., Whitfield, Troy W., Caffrey, Daniel R., Marasco, Wayne A., Schiffer, Celia A., Kowalik, Timothy F., Jensen, Jeffrey D., Finberg, Robert W., Zeldovich, Konstantin B.

Journal:

Journal of Molecular Biology

Year:

2018

Language:

english

File:

PDF, 6.87 MB

english, 2018

3

The effectiveness of disinfectant and steam exposure treatments to prevent the spread of the highly invasive killer shrimp, Dikerogammarus villosus

Bradbeer, Stephanie J., Coughlan, Neil E., Cuthbert, Ross N., Crane, Kate, Dick, Jaimie T. A., Caffrey, Joe M., Lucy, Frances E., Renals, Trevor, Davis, Eithne, Warren, Daniel A., Pile, Benjamin, Quin

Journal:

Scientific Reports

Year:

2020

Language:

english

File:

PDF, 898 KB

english, 2020

4

Dynamic Testing of Alfred Zampa Memorial Bridge

Conte, Joel P., He, Xianfei, Moaveni, Babak, Masri, Sami F., Caffrey, John P., Wahbeh, Mazen, Tasbihgoo, Farzad, Whang, Daniel H., Elgamal, Ahmed

Journal:

Journal of Structural Engineering

Year:

2008

Language:

english

File:

PDF, 362 KB

english, 2008

5

O

Caffrey, Nuala M., Fritsch, Daniel, Archer, Thomas, Sanvito, Stefano, Ederer, Claude

Journal:

Physical Review B

Year:

2013

Language:

english

File:

PDF, 3.40 MB

english, 2013

6

Design, synthesis, and inÂ vitro evaluation of aza-peptide aldehydes and ketones as novel and selective protease inhibitors

Corrigan, Thomas S., Lotti Diaz, Leilani M., Border, Sarah E., Ratigan, Steven C., Kasper, Kayla Q., Sojka, Daniel, Fajtova, Pavla, Caffrey, Conor R., Salvesen, Guy S., McElroy, Craig A., Hadad, Chris

Journal:

Journal of Enzyme Inhibition and Medicinal Chemistry

Year:

2020

File:

PDF, 2.64 MB

2020

7

The domain structure and distribution of Alu elements in long noncoding RNAs and mRNAs

Kim, Eugene Z., Wespiser, Adam R., Caffrey, Daniel R.

Journal:

Year:

2015

Language:

english

File:

PDF, 672 KB

english, 2015

8

New insights into the machinery of blood digestion by ticks

Sojka, Daniel, Franta, Zdeněk, Horn, Martin, Caffrey, Conor R., Mareš, Michael, Kopáček, Petr

Journal:

Trends in Parasitology

Year:

2013

Language:

english

File:

PDF, 3.53 MB

english, 2013

9

Book reviews

Beckett, Ian F. W., Badsey, Stephen, Schulze, Kirsten E., Caffrey, Dennis F., Charters, David A., Fitz‐Simons, Daniel W.

Journal:

Small Wars & Insurgencies

Year:

1995

Language:

english

File:

PDF, 812 KB

english, 1995

10

Needs assessment of ASIS&T publications: Bridging information research and practice

Tang, Rong, Mon, Lorri, Beheshti, Jamshid, Li, Yuelin, Pollock, Danielle, Ni, Chaoqun, Chu, Samuel, Xiao, Lu, Caffrey, Julia, Gentry, Steven

Journal:

Proceedings of the Association for Information Science and Technology

Year:

2016

Language:

english

File:

PDF, 594 KB

english, 2016

11

Inflammasome-derived cytokine IL18 suppresses amyloid-induced seizures in Alzheimer-prone mice

Tzeng, Te-Chen, Hasegawa, Yuto, Iguchi, Risa, Cheung, Amy, Caffrey, Daniel R., Thatcher, Elizabeth Jeanne, Mao, Wenjie, Germain, Gail, Tamburro, Nelsy DePaula, Okabe, Shigeo, Heneka, Michael T., Latz,

Journal:

Proceedings of the National Academy of Sciences

Year:

2018

File:

PDF, 1.07 MB

2018

12

Detergent-free mass spectrometry of membrane protein complexes

Hopper, Jonathan T S, Yu, Yvonne Ting-Chun, Li, Dianfan, Raymond, Alison, Bostock, Mark, Liko, Idlir, Mikhailov, Victor, Laganowsky, Arthur, Benesch, Justin L P, Caffrey, Martin, Nietlispach, Daniel,

Journal:

Year:

2013

Language:

english

File:

PDF, 1.64 MB

english, 2013

13

Molecular Organization of Cholesterol in Unsaturated Phosphatidylethanolamines: X-ray Diffraction and Solid State 2 H NMR Reveal Differences with Phosphatidylcholines

Shaikh, Saame Raza, Cherezov, Vadim, Caffrey, Martin, Soni, Smita P., LoCascio, Daniel, Stillwell, William, Wassall, Stephen R.

Journal:

Journal of the American Chemical Society

Year:

2006

Language:

english

File:

PDF, 149 KB

english, 2006

14

A balance between inhibitor binding and substrate processing confers influenza drug resistance

Jiang, Li, Liu, Ping, Bank, Claudia, Renzette, Nicholas, Prachanronarong, Kristina, Yilmaz, Lutfu S., Caffrey, Daniel R., Zeldovich, Konstantin B., Schiffer, Celia A., Kowalik, Timothy F., Jensen, Jef

Journal:

Journal of Molecular Biology

Year:

2015

Language:

english

File:

PDF, 1.93 MB

english, 2015

15

Factors affecting the maximum depth of colonization by submersed macrophytes in Florida lakes

Caffrey, Alexis J., Hoyer, Mark V., Canfield, Daniel E.

Journal:

Lake and Reservoir Management

Year:

2007

Language:

english

File:

PDF, 506 KB

english, 2007

16

Hemoglobin Digestion in Blood-Feeding Ticks: Mapping a Multipeptidase Pathway by Functional Proteomics

Martin Horn, Martina Nussbaumerová, Miloslav Šanda, Zuzana Kovářová, Jindřich Srba, Zdeněk Franta, Daniel Sojka, Matthew Bogyo, Conor R. Caffrey, Petr Kopáček, Michael Mareš

Journal:

Chemistry & Biology

Year:

2009

Language:

english

File:

PDF, 1.07 MB

english, 2009

17

Evolution of Specific Protein–Protein Interaction Sites Following Gene Duplication

Daniel Aiello, Daniel R. Caffrey

Journal:

Journal of Molecular Biology

Year:

2012

Language:

english

File:

PDF, 1.14 MB

english, 2012

18

Influenza Virus Drug Resistance: A Time-Sampled Population Genetics Perspective

Foll, Matthieu, Poh, Yu-Ping, Renzette, Nicholas, Ferrer-Admetlla, Anna, Bank, Claudia, Shim, Hyunjin, Malaspinas, Anna-Sapfo, Ewing, Gregory, Liu, Ping, Wegmann, Daniel, Caffrey, Daniel R., Zeldovich

Journal:

Year:

2014

Language:

english

File:

PDF, 2.92 MB

english, 2014

19

SLC46 Family Transporters Facilitate Cytosolic Innate Immune Recognition of Monomeric Peptidoglycans

Paik, Donggi, Monahan, Amanda, Caffrey, Daniel R., Elling, Roland, Goldman, William E., Silverman, Neal

Journal:

The Journal of Immunology

Year:

2017

Language:

english

File:

PDF, 1.27 MB

english, 2017

20

Prediction of specificity-determining residues for small-molecule kinase inhibitors

Daniel R Caffrey, Elizabeth A Lunney, Deborah J Moshinsky

Journal:

BMC Bioinformatics

Year:

2008

Language:

english

File:

PDF, 1.15 MB

english, 2008

21

Analysis of Human Proteome Organization Plasma Proteome Project (HUPO PPP) reference specimens using surface enhanced laser desorption/ionization-time of flight (SELDI-TOF) mass spectrometry: Multi-institution correlation of spectra and identification of biomarkers

Alex J. Rai, Paul M. Stemmer, Zhen Zhang, Bao-ling Adam, William T. Morgan, Rebecca E. Caffrey, Vladimir N. Podust, Manisha Patel, Lih-yin Lim, Natalia V. Shipulina, Daniel W. Chan, O. John Semmes, Ho

Journal:

Year:

2005

Language:

english

File:

PDF, 556 KB

english, 2005

22

[IEEE 2009 17th IEEE Symposium on Field Programmable Custom Computing Machines - Napa, CA, USA (2009.04.5-2009.04.7)] 2009 17th IEEE Symposium on Field Programmable Custom Computing Machines - On-Orbit Flight Results from the Reconfigurable Cibola Flight Experiment Satellite (CFESat)

Caffrey, Michael, Morgan, Keith, Roussel-Dupre, Diane, Robinson, Scott, Nelson, Anthony, Salazar, Anthony, Wirthlin, Michael, Howes, William, Richins, Daniel

Year:

2009

Language:

english

File:

PDF, 753 KB

english, 2009

23

The Evolution of the MAP Kinase Pathways: Coduplication of Interacting Proteins Leads to New Signaling Cascades

Daniel R. Caffrey, Luke A.J. O'Neill, Denis C. Shields

Journal:

Journal of Molecular Evolution

Year:

1999

Language:

english

File:

PDF, 1.35 MB

english, 1999

24

siRNA Off-Target Effects Can Be Reduced at Concentrations That Match Their Individual Potency

Caffrey, Daniel R., Zhao, Juan, Song, Zhili, Schaffer, Michael E., Haney, Steven A., Subramanian, Romesh R., Seymour, Albert B., Hughes, Jason D., Preiss, Thomas

Journal:

Year:

2011

Language:

english

File:

PDF, 1018 KB

english, 2011

25

Schistosoma haematobium,S. intercalatum,S. japonicum,S. mansoni, andS. rodhainiin mice: relationship between patterns of lung migration by schistosomula and perfusion recovery of adult worms

Christian E. Rheinberg, Hélène Moné, Conor R. Caffrey, Danièle Imbert-Establet, Joseph Jourdane, Andreas Ruppel

Journal:

Parasitology Research

Year:

1998

Language:

english

File:

PDF, 319 KB

english, 1998

26

Structure-based maximal affinity model predicts small-molecule druggability

Cheng, Alan C, Coleman, Ryan G, Smyth, Kathleen T, Cao, Qing, Soulard, Patricia, Caffrey, Daniel R, Salzberg, Anna C, Huang, Enoch S

Journal:

Nature Biotechnology

Year:

2007

Language:

english

File:

PDF, 468 KB

english, 2007

27

[IEEE 2008 IEEE Aerospace Conference - Big Sky, MT, USA (2008.03.1-2008.03.8)] 2008 IEEE Aerospace Conference - Using Duplication with Compare for On-line Error Detection in FPGA-based Designs

Johnson, Jonathan, Howes, William, Wirthlin, Michael, McMurtrey, Daniel L, Caffrey, Michael, Graham, Paul, Morgan, Keith

Year:

2008

Language:

english

File:

PDF, 3.69 MB

english, 2008

28

Of mice and man: TLR11 (finally) finds profilin

Fanny N. Lauw, Daniel R. Caffrey, Douglas T. Golenbock

Journal:

Trends in Immunology

Year:

2005

Language:

english

File:

PDF, 70 KB

english, 2005

29

Short exposure to oxygen and sulfide alter nitrification, denitrification, and DNRA activity in seasonally hypoxic estuarine sediments

Caffrey, Jane M, Bonaglia, Stefano, Conley, Daniel J

Journal:

FEMS Microbiology Letters

Year:

2018

Language:

english

File:

PDF, 987 KB

english, 2018

30

PFAAT version 2.0: A tool for editing, annotating, and analyzing multiple sequence alignments

Daniel R Caffrey, Paul H Dana, Vidhya Mathur, Marco Ocano, Eun-Jong Hong, Yaoyu E Wang, Shyamal Somaroo, Brian E Caffrey, Shobha Potluri, Enoch S Huang

Journal:

BMC Bioinformatics

Year:

2007

Language:

english

File:

PDF, 708 KB

english, 2007

31

Aza-peptidyl Michael Acceptors. A New Class of Potent and Selective Inhibitors of Asparaginyl Endopeptidases (Legumains) from Evolutionarily Diverse Pathogens

Götz, Marion G., James, Karen Ellis, Hansell, Elizabeth, Dvořák, Jan, Seshaadri, Amritha, Sojka, Daniel, Kopáček, Petr, McKerrow, James H., Caffrey, Conor R., Powers, James C.

Journal:

Journal of Medicinal Chemistry

Year:

2008

Language:

english

File:

PDF, 247 KB

english, 2008

32

miR-718 represses proinflammatory cytokine production through targeting phosphatase and tensin homolog (PTEN)

Kalantari, Parisa, Harandi, Omid F., Agarwal, Sarika, Rus, Florentina, Kurt-Jones, Evelyn A., Fitzgerald, Katherine A., Caffrey, Daniel R., Golenbock, Douglas T.

Journal:

Journal of Biological Chemistry

Year:

2017

Language:

english

File:

PDF, 688 KB

english, 2017

33

Quantification and clustering of phenotypic screening data using time-series analysis for chemotherapy of schistosomiasis

Hyokyeong Lee, Asher Moody-Davis, Utsab Saha, Brian M Suzuki, Daniel Asarnow, Steven Chen, Michelle Arkin, Conor R Caffrey, Rahul Singh

Journal:

Year:

2012

Language:

english

File:

PDF, 1.78 MB

english, 2012

34

Are protein–protein interfaces more conserved in sequence than the rest of the protein surface?

Daniel R. Caffrey, Shyamal Somaroo, Jason D. Hughes, Julian Mintseris, Enoch S. Huang

Journal:

Protein Science

Year:

2004

Language:

english

File:

PDF, 366 KB

english, 2004

35

IrCL1 – The haemoglobinolytic cathepsin L of the hard tick, Ixodes ricinus

Zdenek Franta, Daniel Sojka, Helena Frantova, Jan Dvorak, Martin Horn, Jindrich Srba, Pavel Talacko, Michael Mares, Eric Schneider, Charles S. Craik, James H. McKerrow, Conor R. Caffrey, Petr Kopacek

Journal:

International Journal for Parasitology

Year:

2011

Language:

english

File:

PDF, 934 KB

english, 2011

36

Aza-Peptidyl Michael Acceptor and Epoxide Inhibitors—Potent and Selective Inhibitors of Schistosoma mansoni and Ixodes ricinus Legumains (Asparaginyl Endopeptidases)

Ovat, Asli, Muindi, Fanuel, Fagan, Crystal, Brouner, Michelle, Hansell, Elizabeth, Dvořák, Jan, Sojka, Daniel, Kopáček, Petr, McKerrow, James H., Caffrey, Conor R., Powers, James C.

Journal:

Journal of Medicinal Chemistry

Year:

2009

Language:

english

File:

PDF, 1.09 MB

english, 2009

37

[Society of Petroleum Engineers SPE Annual Technical Conference and Exhibition - Dallas, Texas (2000-10-01)] SPE Annual Technical Conference and Exhibition - Waterflood Management: A Case Study of the Northwest Fault Block Area of Prudhoe Bay, Alaska, Using Streamline Simulation and Traditional Waterflood Analysis

Grinestaff, G.H., Caffrey, Daniel J.

Language:

english

File:

PDF, 262 KB

english

38

Applied physics: Terahertz-wave detector

Johnson, Jonathan, Howes, William, Wirthlin, Michael, McMurtrey, Daniel L, Caffrey, Michael, Graham, Paul, Morgan, Keith

Journal:

Year:

2012

Language:

english

File:

PDF, 158 KB

english, 2012

39

Inflammasome-derived cytokine IL18 suppresses amyloid-induced seizures in Alzheimer-prone mice

Tzeng, Te-Chen, Hasegawa, Yuto, Iguchi, Risa, Cheung, Amy, Caffrey, Daniel R., Thatcher, Elizabeth Jeanne, Mao, Wenjie, Germain, Gail, Tamburro, Nelsy DePaula, Okabe, Shigeo, Heneka, Michael T., Latz,

Journal:

Proceedings of the National Academy of Sciences

Year:

2018

Language:

english

File:

PDF, 1.07 MB

english, 2018

40

A method to predict residues conferring functional differences between related proteins: Application to MAP kinase pathways

Daniel R. Caffrey, Denis C. Shields, LUKE A. J. O'Neill

Journal:

Protein Science

Year:

2000

Language:

english

File:

PDF, 1.18 MB

english, 2000

41

Long noncoding RNAs in innate and adaptive immunity

Fitzgerald, Katherine A., Caffrey, Daniel R.

Journal:

Current Opinion in Immunology

Year:

2014

Language:

english

File:

PDF, 1.73 MB

english, 2014

42

AIM2 recognizes cytosolic dsDNA and forms a caspase-1-activating inflammasome with ASC

Hornung, Veit, Ablasser, Andrea, Charrel-Dennis, Marie, Bauernfeind, Franz, Horvath, Gabor, Caffrey, Daniel. R., Latz, Eicke, Fitzgerald, Katherine A.

Journal:

Year:

2009

Language:

english

File:

PDF, 868 KB

english, 2009

43

Assessing the ecological impacts of invasive species based on their functional responses and abundances

Laverty, Ciaran, Green, Kyle D., Dick, Jaimie T. A., Barrios-O’Neill, Daniel, Mensink, Paul J., Médoc, Vincent, Spataro, Thierry, Caffrey, Joe M., Lucy, Frances E., Boets, Pieter, Britton, J. Robert,

Journal:

Biological Invasions

Year:

2017

Language:

english

File:

PDF, 1.06 MB

english, 2017

44

Profiling of proteolytic enzymes in the gut of the tickIxodes ricinusreveals an evolutionarily conserved network of aspartic and cysteine peptidases

Daniel Sojka, Zdeněk Franta, Martin Horn, Ondřej Hajdušek, Conor R Caffrey, Michael Mareš, Petr Kopáček

Journal:

Parasites & Vectors

Year:

2008

Language:

english

File:

PDF, 2.23 MB

english, 2008

45

Distinct Cellular Origins for Serotonin-Expressing and Enterochromaffin-like Cells in the Gastric Corpus

Li, Hui Joyce, Johnston, Brian, Aiello, Daniel, Caffrey, Daniel R., Giel–Moloney, Maryann, Rindi, Guido, Leiter, Andrew B.

Journal:

Gastroenterology

Year:

2014

Language:

english

File:

PDF, 2.70 MB

english, 2014

46

RNA Interference in Schistosoma mansoni Schistosomula: Selectivity, Sensitivity and Operation for Larger-Scale Screening

Štefanić, Saša, Dvořák, Jan, Horn, Martin, Braschi, Simon, Sojka, Daniel, Ruelas, Debbie S., Suzuki, Brian, Lim, Kee-Chong, Hopkins, Stephanie D., McKerrow, James H., Caffrey, Conor R., Jones, Malcolm

Journal:

PLoS Neglected Tropical Diseases

Year:

2010

Language:

english

File:

PDF, 1.99 MB

english, 2010

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