Cinque S. Soto: search on Z-Library

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1

Structural basis for the function and inhibition of an influenza virus proton channel

Stouffer, Amanda L., Acharya, Rudresh, Salom, David, Levine, Anna S., Di Costanzo, Luigi, Soto, Cinque S., Tereshko, Valentina, Nanda, Vikas, Stayrook, Steven, DeGrado, William F.

Journal:

Year:

2008

Language:

english

File:

PDF, 766 KB

english, 2008

2

Structural and dynamic mechanisms for the function and inhibition of the M2 proton channel from influenza A virus

Jun Wang, Jade Xiaoyan Qiu, Cinque Soto, William F DeGrado

Journal:

Current Opinion in Structural Biology

Year:

2011

Language:

english

File:

PDF, 934 KB

english, 2011

3

Vaccine-Induced Antibodies that Neutralize Group 1 and Group 2 Influenza A Viruses

Joyce, M. Gordon, Wheatley, Adam K., Thomas, Paul V., Chuang, Gwo-Yu, Soto, Cinque, Bailer, Robert T., Druz, Aliaksandr, Georgiev, Ivelin S., Gillespie, Rebecca A., Kanekiyo, Masaru, Kong, Wing-Pui, L

Journal:

Year:

2016

Language:

english

File:

PDF, 4.88 MB

english, 2016

4

Glycosylator: a Python framework for the rapid modeling of glycans

Lemmin, Thomas, Soto, Cinque

Journal:

BMC Bioinformatics

Year:

2019

File:

PDF, 1019 KB

2019

5

Crystal structure, conformational fixation and entry-related interactions of mature ligand-free HIV-1 Env

Do Kwon, Young, Pancera, Marie, Acharya, Priyamvada, Georgiev, Ivelin S, Crooks, Emma T, Gorman, Jason, Joyce, M Gordon, Guttman, Miklos, Ma, Xiaochu, Narpala, Sandeep, Soto, Cinque, Terry, Daniel S,

Journal:

Nature Structural and Molecular Biology

Year:

2015

Language:

english

File:

PDF, 3.85 MB

english, 2015

6

Structural Repertoire of HIV-1-Neutralizing Antibodies Targeting the CD4 Supersite in 14 Donors

Zhou, Tongqing, Lynch, Rebecca M., Chen, Lei, Acharya, Priyamvada, Wu, Xueling, Doria-Rose, Nicole A., Joyce, M. Gordon, Lingwood, Daniel, Soto, Cinque, Bailer, Robert T., Ernandes, Michael J., Kong,

Journal:

Year:

2015

Language:

english

File:

PDF, 5.08 MB

english, 2015

7

pH-Induced Conformational Change of the Influenza M2 Protein C-Terminal Domain †

Nguyen, Phuong A., Soto, Cinque S., Polishchuk, Alexei, Caputo, Gregory A., Tatko, Chad D., Ma, Chunlong, Ohigashi, Yuki, Pinto, Lawrence H., DeGrado, William F., Howard, Kathleen P.

Journal:

Year:

2008

Language:

english

File:

PDF, 826 KB

english, 2008

8

High Frequency of Shared Clonotypes in Human T Cell Receptor Repertoires

Soto, Cinque, Bombardi, Robin G., Kozhevnikov, Morgan, Sinkovits, Robert S., Chen, Elaine C., Branchizio, Andre, Kose, Nurgun, Day, Samuel B., Pilkinton, Mark, Gujral, Madhusudan, Mallal, Simon, Crowe

Journal:

Year:

2020

File:

PDF, 3.54 MB

2020

9

Loop modeling: Sampling, filtering, and scoring

Cinque S. Soto, Marc Fasnacht, Jiang Zhu, Lucy Forrest, Barry Honig

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2008

Language:

english

File:

PDF, 215 KB

english, 2008

10

CD4-binding-Site Recognition by VH1-46 Germline-derived HIV-1 Neutralizers

Acharya, Priyamvada, Zhou, Tongqing, Soto, Cinque, Chen, Lei, Luongo, Timothy S., Moquin, Stephanie, Georgiev, Ivelin S., Schmidt, Stephen D., Louder, Mark K., Joyce, M. Gordon, Yang, Yongping, Zhang,

Journal:

AIDS Research and Human Retroviruses

Year:

2014

Language:

english

File:

PDF, 80 KB

english, 2014

11

Using multiple structure alignments, fast model building, and energetic analysis in fold recognition and homology modeling

Donald Petrey, Zhexin Xiang, Christopher L. Tang, Lei Xie, Marina Gimpelev, Therese Mitros, Cinque S. Soto, Sharon Goldsmith-Fischman, Andrew Kernytsky, Avner Schlessinger, Ingrid Y.Y. Koh, Emil Alexo

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2003

Language:

english

File:

PDF, 227 KB

english, 2003

12

Conformational Dynamics in Loop Swap Mutants of Homologous Fibronectin Type III Domains

Siggers, Keri, Soto, Cinque, Palmer, Arthur G.

Journal:

Biophysical Journal

Year:

2007

Language:

english

File:

PDF, 591 KB

english, 2007

13

Insights into the Dynamics of the HIV-1 Env Glycan Shield

Lemmin, Thomas, Soto, Cinque, Kwong, Peter D.

Journal:

Biophysical Journal

Year:

2017

Language:

english

File:

PDF, 42 KB

english, 2017

14

Structure and immune recognition of trimeric pre-fusion HIV-1 Env

Pancera, Marie, Zhou, Tongqing, Druz, Aliaksandr, Georgiev, Ivelin S., Soto, Cinque, Gorman, Jason, Huang, Jinghe, Acharya, Priyamvada, Chuang, Gwo-Yu, Ofek, Gilad, Stewart-Jones, Guillaume B. E., Stu

Journal:

Year:

2014

Language:

english

File:

PDF, 7.31 MB

english, 2014

15

A Cysteine Zipper Stabilizes a Pre-Fusion F Glycoprotein Vaccine for Respiratory Syncytial Virus

Stewart-Jones, Guillaume B. E., Thomas, Paul V., Chen, Man, Druz, Aliaksandr, Joyce, M. Gordon, Kong, Wing-Pui, Sastry, Mallika, Soto, Cinque, Yang, Yongping, Zhang, Baoshan, Chen, Lei, Chuang, Gwo-Yu

Journal:

Year:

2015

Language:

english

File:

PDF, 3.33 MB

english, 2015

16

Assembly of the Transmembrane Domain of E. coli PhoQ Histidine Kinase: Implications for Signal Transduction from Molecular Simulations

Lemmin, Thomas, Soto, Cinque S., Clinthorne, Graham, DeGrado, William F., Dal Peraro, Matteo, Livesay, Dennis R.

Journal:

PLoS Computational Biology

Year:

2013

Language:

english

File:

PDF, 3.18 MB

english, 2013

17

Microsecond Dynamics and Network Analysis of the HIV-1 SOSIP Env Trimer Reveal Collective Behavior and Conserved Microdomains of the Glycan Shield

Lemmin, Thomas, Soto, Cinque, Stuckey, Jonathan, Kwong, Peter D.

Journal:

Year:

2017

Language:

english

File:

PDF, 3.99 MB

english, 2017

18

PyIR: a scalable wrapper for processing billions of immunoglobulin and T cell receptor sequences using IgBLAST

Soto, Cinque, Finn, Jessica A., Willis, Jordan R., Day, Samuel B., Sinkovits, Robert S., Jones, Taylor, Schmitz, Samuel, Meiler, Jens, Branchizio, Andre, Crowe, James E.

Journal:

BMC Bioinformatics

Year:

2020

File:

PDF, 403 KB

2020

19

Structural basis for the function and inhibition of an influenza virus proton channel

Stouffer, Amanda L., Acharya, Rudresh, Salom, David, Levine, Anna S., Di Costanzo, Luigi, Soto, Cinque S., Tereshko, Valentina, Nanda, Vikas, Stayrook, Steven, DeGrado, William F.

Journal:

Year:

2008

File:

PDF, 56 KB

2008

20

Glycosylator: a Python framework for the rapid modeling of glycans

Lemmin, Thomas, Soto, Cinque

Journal:

BMC Bioinformatics

Year:

2019

Language:

english

File:

PDF, 1019 KB

english, 2019

21

Immune repertoire fingerprinting by principal component analysis reveals shared features in subject groups with common exposures

Sevy, Alexander M., Soto, Cinque, Bombardi, Robin G., Meiler, Jens, Crowe, James E.

Journal:

BMC Bioinformatics

Year:

2019

File:

PDF, 1.05 MB

2019

22

Integrated pipeline for the accelerated discovery of antiviral antibody therapeutics

Gilchuk, Pavlo, Bombardi, Robin G., Erasmus, Jesse H., Tan, Qing, Nargi, Rachel, Soto, Cinque, Abbink, Peter, Suscovich, Todd J., Durnell, Lorellin A., Khandhar, Amit, Archer, Jacob, Liang, Jenny, Fou

Journal:

Nature Biomedical Engineering

Year:

2020

File:

PDF, 2.47 MB

2020

23

Structure of the amantadine binding site of influenza M2 proton channels in lipid bilayers

Cady, Sarah D., Schmidt-Rohr, Klaus, Wang, Jun, Soto, Cinque S., DeGrado, William F., Hong, Mei

Journal:

Year:

2010

Language:

english

File:

PDF, 823 KB

english, 2010

24

A Photon-Free Approach to Transmembrane Protein Structure Determination

Cinque S. Soto, Brett T. Hannigan, William F. DeGrado

Journal:

Journal of Molecular Biology

Year:

2011

Language:

english

File:

PDF, 1.33 MB

english, 2011

25

Antibodyomics: bioinformatics technologies for understanding B-cell immunity to HIV-1

Kwong, Peter D., Chuang, Gwo-Yu, DeKosky, Brandon J., Gindin, Tatyana, Georgiev, Ivelin S., Lemmin, Thomas, Schramm, Chaim A., Sheng, Zizhang, Soto, Cinque, Yang, An-Suei, Mascola, John R., Shapiro, L

Journal:

Immunological Reviews

Year:

2017

Language:

english

File:

PDF, 1.70 MB

english, 2017

26

Determination of the Physiological Dimer Interface of the PhoQ Sensor Domain

Shalom D. Goldberg, Cinque S. Soto, Carey D. Waldburger, William F. DeGrado

Journal:

Journal of Molecular Biology

Year:

2008

Language:

english

File:

PDF, 888 KB

english, 2008

27

Maturation Pathways for the Broad and Potent Antibody 10E8 Using a Combination of Next Generation Sequencing, Bioinformatics and Functional Analysis

Soto, Cinque S., Ofek, Gilad, Joyce, M. Gordon, Zhang, Baoshan, McKee, Krisha, Mascola, John R., Kwong, Peter D.

Journal:

AIDS Research and Human Retroviruses

Year:

2014

Language:

english

File:

PDF, 55 KB

english, 2014

28

Somatic Hypermutation-Induced Changes in the Structure and Dynamics of HIV-1 Broadly Neutralizing Antibodies

Davenport, Thaddeus M., Gorman, Jason, Joyce, M. Gordon, Zhou, Tongqing, Soto, Cinque, Guttman, Miklos, Moquin, Stephanie, Yang, Yongping, Zhang, Baoshan, Doria-Rose, Nicole A., Hu, Shiu-Lok, Mascola,

Journal:

Year:

2016

Language:

english

File:

PDF, 6.30 MB

english, 2016

29

Diverse patterns of antibody variable gene repertoire disruption in patients with amyloid light chain (AL) amyloidosis

Chen, Elaine C., Rubinstein, Samuel, Soto, Cinque, Bombardi, Robin G., Day, Samuel B., Myers, Luke, Zaytsev, Alexey, Majedi, Mahsa, Cornell, R. Frank, Crowe, James E., Fugmann, Sebastian D.

Journal:

Year:

2020

File:

PDF, 3.49 MB

2020

30

Human V H 1-69 Gene-Encoded Human Monoclonal Antibodies against Staphylococcus aureus IsdB Use at Least Three Distinct Modes of Binding To Inhibit Bacterial Growth and Pathogenesis

Bennett, Monique R., Dong, Jinhui, Bombardi, Robin G., Soto, Cinque, Parrington, Helen M., Nargi, Rachel S., Schoeder, Clara T., Nagel, Marcus B., Schey, Kevin L., Meiler, Jens, Skaar, Eric P., Crowe,

Journal:

Year:

2019

File:

PDF, 2.51 MB

2019

31

Human-likeness of antibody biologics determined by back-translation and comparison with large antibody variable gene repertoires

Schmitz, Samuel, Soto, Cinque, Crowe, James E., Meiler, Jens

Journal:

Year:

2020

File:

PDF, 6.59 MB

2020

32

Insights from NMR Spectroscopy into the Conformational Properties of Man-9 and Its Recognition by Two HIV Binding Proteins

Shahzad-ul-Hussan, Syed, Sastry, Mallika, Lemmin, Thomas, Soto, Cinque, Loesgen, Sandra, Scott, Danielle A., Davison, Jack R., Lohith, Katheryn, O'Connor, Robert, Kwong, Peter D., Bewley, Carole A.

Journal:

Year:

2017

Language:

english

File:

PDF, 4.10 MB

english, 2017

33

Structural basis for broad neutralization of ebolaviruses by an antibody targeting the glycoprotein fusion loop

Janus, Benjamin M., van Dyk, Nydia, Zhao, Xuelian, Howell, Katie A., Soto, Cinque, Aman, M. Javad, Li, Yuxing, Fuerst, Thomas R., Ofek, Gilad

Journal:

Nature Communications

Year:

2018

Language:

english

File:

PDF, 3.36 MB

english, 2018

34

Structures of HIV-1 Env V1V2 with broadly neutralizing antibodies reveal commonalities that enable vaccine design

Gorman, Jason, Soto, Cinque, Yang, Max M, Davenport, Thaddeus M, Guttman, Miklos, Bailer, Robert T, Chambers, Michael, Chuang, Gwo-Yu, DeKosky, Brandon J, Doria-Rose, Nicole A, Druz, Aliaksandr, Ernan

Journal:

Nature Structural and Molecular Biology

Year:

2015

Language:

english

File:

PDF, 3.80 MB

english, 2015

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