.. _people:

People
===============================================================================

*ProDy* is being developed in the `Bahar Lab`_ at the `University of Pittsburgh`_
with support from NIH R01 GM099738 award.

Development Team
----------------

`Ahmet Bakan`_ initiated the *ProDy* project, designed and developed
*ProDy*, *NMWiz*, *Evol*, and *DruGUI*.

`Cihan Kaya`_ was overseeing the overall development of *ProDy* from 
2015 to 2018.

`She (John) Zhang`_ was helping with maintaining and developing
*ProDy* from 2016, and took on the overseeing role from 2018 to mid 2020.

`James Krieger`_ was helping develop *ProDy* from 2017 and became the main 
overseer and developer in mid 2020.

`Hongchun Li`_ has helped maintain and develop ANM and GNM servers, 
and made significant contributions to :mod:`.database` and :mod:`.dynamics` 
including *SignDy* and Adaptive ANM.

`JiYoung Lee`_ is the main developer of :mod:`.Pharmmaker`, for constructing pharmacophore models using the outputs from :mod:`.DruGUI`.

`Yan Zhang`_ contributed significantly to the development of 
the *cryo-EM* module, :mod:`.protein.emdmap`.

`Burak Kaynak`_ contributed significantly to the development of 
:mod:`.domain_decomposition`, :mod:`.dynamics.essa`, and
:mod:`.dynamics.clustenm`. 

`Karolina Mikulska-Ruminska`_ is one of the main developers since 2022, with the addition of the new modules 
:mod:`.protein.interactions` (*InSty*), :mod:`.protein.waterbridges`
(*WatFinder*), in addition to being the developer of :mod:`.dynamics.mechstiff` (*MechStiff*).

`Anthony Bogetti`_ is overseeing the overall development of *ProDy* since 
2024.

`Anindita Dutta`_ contributed to the development of *Evol*,
:mod:`.database` and :mod:`.sequence` modules.

`Tim Lezon`_ contributed to development of Rotations and Translation of
Blocks and Membrane ENM.

`Wenzhi Mao`_ contributed to development of MSA analysis functions.

`Lidio Meireles`_ provided insightful comments on the design of *ProDy*,
and contributed to the development of :ref:`prody-apps`.

`Mustafa Tekpinar`_ contributed to the development of MechStiff.

`Luca Ponzoni`_ contributed to the development of SignDy.

`David Koes`_ contributed to the development of drug discovery tools.

Contributors
------------

In addition to the development team members, we acknowledge
contributions and feedback from the following individuals:


`Ying Liu`_ provided the code for Perturbation Response Scanning method.

`Frane Doljanin`_ provided the code for the water bridge detection.

`Kian Ho`_ contributed with bug fixes and unit tests for DSSP functions.

`Gökçen Eraslan`_ contributed with bug fixes and development and maintenance
insights.


.. _Ahmet Bakan: https://scholar.google.com/citations?user=-QAYVgMAAAAJ&hl=en
.. _Cihan Kaya: https://www.linkedin.com/in/cihan-kaya/
.. _Bahar Lab: http://www.bahargroup.org/Faculty/bahar/
.. _University of Pittsburgh: http://www.pitt.edu/
.. _Anindita Dutta: http://www.linkedin.com/pub/anindita-dutta/5a/568/a90
.. _Wenzhi Mao: http://www.linkedin.com/pub/wenzhi-mao/2a/29a/29
.. _Lidio Meireles: http://www.linkedin.com/in/lidio
.. _Ying Liu: https://www.linkedin.com/in/yingliu03/
.. _Kian Ho: https://github.com/kianho
.. _Gökçen Eraslan: https://github.com/gokceneraslan
.. _Tim Lezon: https://scholar.google.pl/citations?user=1MwNI3EAAAAJ&hl=pl&oi=ao
.. _Chakra Chennubhotla: http://www.csb.pitt.edu/Faculty/Chakra/
.. _She (John) Zhang: https://www.linkedin.com/in/she-zhang-49164399/
.. _Hongchun Li: http://www.pitt.edu/~hongchun/
.. _James Krieger: https://scholar.google.pl/citations?user=DoiCjkUAAAAJ&hl=pl
.. _Yan Zhang: https://scholar.google.pl/citations?user=VxwU0pgAAAAJ&hl=pl&oi=sra
.. _Burak Kaynak: https://scholar.google.pl/citations?user=gP8RokwAAAAJ&hl=pl&oi=ao
.. _Karolina Mikulska-Ruminska: https://scholar.google.pl/citations?user=IpyPHRwAAAAJ&hl=pl
.. _Anthony Bogetti: https://scholar.google.pl/citations?hl=pl&user=9qQClIcAAAAJ
.. _Frane Doljanin: https://github.com/fdoljanin
.. _JiYoung Lee: https://scholar.google.com/citations?user=odKQmZcAAAAJ&hl=en
.. _David Koes: https://bits.csb.pitt.edu/
.. _Luca Ponzoni: https://scholar.google.it/citations?user=8vfPOYUAAAAJ&hl=en
.. _Mustafa Tekpinar: https://scholar.google.com/citations?user=qeVv6o8AAAAJ&hl=en   
