Details
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Type:
Support
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Status: Open (View Workflow)
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Priority:
Major
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Resolution: Unresolved
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Labels:None
Description
From: Cuklina Jelena <jelena.chuklina@imsb.biol.ethz.ch>
To: Ann Loraine <aloraine@uncc.edu>
Date: Sun, Apr 1, 2018 at 9:42 AM
Subject: IGB Support Letter
Dear IGB developers,
I would like to express my gratitude for developing a useful tool.
My collaborator Elena Evguenieva-Hackenberg from Giessen University, Germany, introduced me to IGB around 5 years ago, when I was a master student at Moscow Institute of Physics and Technology and doing my Master thesis in the team of Prof. M.Gelfand at Institute for Information Transmission Problems, Moscow, Russia.
I was a bioinformatician on the project we did together on the agriculturally important symbiotic bacterium Bradyrhizobium japonicum. This work resulted in several publications:
1. https://www.ncbi.nlm.nih.gov/pubmed/27788207
2. https://www.ncbi.nlm.nih.gov/pubmed/27107716
During this collaboration, I provided a list of potential transcription start sites and the group of Dr. Hackenberg used IGB to choose the ones that would require validation. Also we used image exporting feature a lot to show our findings internally (with other collaborators) and externally (in publications and grant applications).
Because IGB allows to visualise proprietary genome features as long as they are coded in format like gff, I added our newly found genome components into self-constructed gff file. This file is actively used even now. Without IGB we could not do this work, as visualisation is highly important in this matters.
As a computational person myself, I appreciate the work required to merely support the software tool, as this is extremely challenging due to numerous OS systems and their constantly updated versions. With tools of such scope and usefulness (I hope download counts and citations give a hint that is useful to dozens and hopefully hundreds of users, which is a lot for academic world!) permanently employed software developer is a must. If you want to add new features - the team is required.
Importantly, this helps PhD students and PostDocs of academic team to get properly trained in software engineering and support, which is a highly useful skill also outside academia, where most of them will be employed eventually.
It is important to keep the tool free and user-friendly, which IGB satisfies very well.
Best regards,
Jelena Cuklina,
currently PhD student of ETH Zurich, Switzerland
Attachments
Activity
| Field | Original Value | New Value |
|---|---|---|
| Description |
From: Cuklina Jelena <jelena.chuklina@imsb.biol.ethz.ch>
To: Ann Loraine <aloraine@uncc.edu> Date: Sun, Apr 1, 2018 at 9:42 AM Subject: IGB Support Letter |
From: Cuklina Jelena <jelena.chuklina@imsb.biol.ethz.ch>
To: Ann Loraine <aloraine@uncc.edu> Date: Sun, Apr 1, 2018 at 9:42 AM Subject: IGB Support Letter Dear IGB developers, I would like to express my gratitude for developing a useful tool. My collaborator Elena Evguenieva-Hackenberg from Giessen University, Germany, introduced me to IGB around 5 years ago, when I was a master student at Moscow Institute of Physics and Technology and doing my Master thesis in the team of Prof. M.Gelfand at Institute for Information Transmission Problems, Moscow, Russia. I was a bioinformatician on the project we did together on the agriculturally important symbiotic bacterium Bradyrhizobium japonicum. This work resulted in several publications: 1. https://www.ncbi.nlm.nih.gov/pubmed/27788207 2. https://www.ncbi.nlm.nih.gov/pubmed/27107716 |
| Description |
From: Cuklina Jelena <jelena.chuklina@imsb.biol.ethz.ch>
To: Ann Loraine <aloraine@uncc.edu> Date: Sun, Apr 1, 2018 at 9:42 AM Subject: IGB Support Letter Dear IGB developers, I would like to express my gratitude for developing a useful tool. My collaborator Elena Evguenieva-Hackenberg from Giessen University, Germany, introduced me to IGB around 5 years ago, when I was a master student at Moscow Institute of Physics and Technology and doing my Master thesis in the team of Prof. M.Gelfand at Institute for Information Transmission Problems, Moscow, Russia. I was a bioinformatician on the project we did together on the agriculturally important symbiotic bacterium Bradyrhizobium japonicum. This work resulted in several publications: 1. https://www.ncbi.nlm.nih.gov/pubmed/27788207 2. https://www.ncbi.nlm.nih.gov/pubmed/27107716 |
From: Cuklina Jelena <jelena.chuklina@imsb.biol.ethz.ch>
To: Ann Loraine <aloraine@uncc.edu> Date: Sun, Apr 1, 2018 at 9:42 AM Subject: IGB Support Letter Dear IGB developers, I would like to express my gratitude for developing a useful tool. My collaborator Elena Evguenieva-Hackenberg from Giessen University, Germany, introduced me to IGB around 5 years ago, when I was a master student at Moscow Institute of Physics and Technology and doing my Master thesis in the team of Prof. M.Gelfand at Institute for Information Transmission Problems, Moscow, Russia. I was a bioinformatician on the project we did together on the agriculturally important symbiotic bacterium Bradyrhizobium japonicum. This work resulted in several publications: 1. https://www.ncbi.nlm.nih.gov/pubmed/27788207 2. https://www.ncbi.nlm.nih.gov/pubmed/27107716 During this collaboration, I provided a list of potential transcription start sites and the group of Dr. Hackenberg used IGB to choose the ones that would require validation. Also we used image exporting feature a lot to show our findings internally (with other collaborators) and externally (in publications and grant applications). Because IGB allows to visualise proprietary genome features as long as they are coded in format like gff, I added our newly found genome components into self-constructed gff file. This file is actively used even now. Without IGB we could not do this work, as visualisation is highly important in this matters. As a computational person myself, I appreciate the work required to merely support the software tool, as this is extremely challenging due to numerous OS systems and their constantly updated versions. With tools of such scope and usefulness (I hope download counts and citations give a hint that is useful to dozens and hopefully hundreds of users, which is a lot for academic world!) permanently employed software developer is a must. If you want to add new features - the team is required. Importantly, this helps PhD students and PostDocs of academic team to get properly trained in software engineering and support, which is a highly useful skill also outside academia, where most of them will be employed eventually. |
| Description |
From: Cuklina Jelena <jelena.chuklina@imsb.biol.ethz.ch>
To: Ann Loraine <aloraine@uncc.edu> Date: Sun, Apr 1, 2018 at 9:42 AM Subject: IGB Support Letter Dear IGB developers, I would like to express my gratitude for developing a useful tool. My collaborator Elena Evguenieva-Hackenberg from Giessen University, Germany, introduced me to IGB around 5 years ago, when I was a master student at Moscow Institute of Physics and Technology and doing my Master thesis in the team of Prof. M.Gelfand at Institute for Information Transmission Problems, Moscow, Russia. I was a bioinformatician on the project we did together on the agriculturally important symbiotic bacterium Bradyrhizobium japonicum. This work resulted in several publications: 1. https://www.ncbi.nlm.nih.gov/pubmed/27788207 2. https://www.ncbi.nlm.nih.gov/pubmed/27107716 During this collaboration, I provided a list of potential transcription start sites and the group of Dr. Hackenberg used IGB to choose the ones that would require validation. Also we used image exporting feature a lot to show our findings internally (with other collaborators) and externally (in publications and grant applications). Because IGB allows to visualise proprietary genome features as long as they are coded in format like gff, I added our newly found genome components into self-constructed gff file. This file is actively used even now. Without IGB we could not do this work, as visualisation is highly important in this matters. As a computational person myself, I appreciate the work required to merely support the software tool, as this is extremely challenging due to numerous OS systems and their constantly updated versions. With tools of such scope and usefulness (I hope download counts and citations give a hint that is useful to dozens and hopefully hundreds of users, which is a lot for academic world!) permanently employed software developer is a must. If you want to add new features - the team is required. Importantly, this helps PhD students and PostDocs of academic team to get properly trained in software engineering and support, which is a highly useful skill also outside academia, where most of them will be employed eventually. |
From: Cuklina Jelena <jelena.chuklina@imsb.biol.ethz.ch>
To: Ann Loraine <aloraine@uncc.edu> Date: Sun, Apr 1, 2018 at 9:42 AM Subject: IGB Support Letter Dear IGB developers, I would like to express my gratitude for developing a useful tool. My collaborator Elena Evguenieva-Hackenberg from Giessen University, Germany, introduced me to IGB around 5 years ago, when I was a master student at Moscow Institute of Physics and Technology and doing my Master thesis in the team of Prof. M.Gelfand at Institute for Information Transmission Problems, Moscow, Russia. I was a bioinformatician on the project we did together on the agriculturally important symbiotic bacterium Bradyrhizobium japonicum. This work resulted in several publications: 1. https://www.ncbi.nlm.nih.gov/pubmed/27788207 2. https://www.ncbi.nlm.nih.gov/pubmed/27107716 During this collaboration, I provided a list of potential transcription start sites and the group of Dr. Hackenberg used IGB to choose the ones that would require validation. Also we used image exporting feature a lot to show our findings internally (with other collaborators) and externally (in publications and grant applications). Because IGB allows to visualise proprietary genome features as long as they are coded in format like gff, I added our newly found genome components into self-constructed gff file. This file is actively used even now. Without IGB we could not do this work, as visualisation is highly important in this matters. As a computational person myself, I appreciate the work required to merely support the software tool, as this is extremely challenging due to numerous OS systems and their constantly updated versions. With tools of such scope and usefulness (I hope download counts and citations give a hint that is useful to dozens and hopefully hundreds of users, which is a lot for academic world!) permanently employed software developer is a must. If you want to add new features - the team is required. Importantly, this helps PhD students and PostDocs of academic team to get properly trained in software engineering and support, which is a highly useful skill also outside academia, where most of them will be employed eventually. It is important to keep the tool free and user-friendly, which IGB satisfies very well. Best regards, Jelena Cuklina, currently PhD student of ETH Zurich, Switzerland |