# Proteomics AWG Subgroup Project **URL:** \ **Category:** Multi-Omics AWG Open Projects\ **Tags:** proteomics, pipeline-development\ **Created:** [May 29, 2024, 7:39pm UTC](https://awg.osdr.space/t/proteomics-awg-subgroup-project/451 "2024-05-29T19:39:49Z")\ **Posts on this page:** 17\ **Page:** 1
**Author:** ![asaravia](https://sea1.discourse-cdn.com/flex001/user_avatar/awg.osdr.space/asaravia/32/290_2.png) [@asaravia](https://awg.osdr.space/u/asaravia)\ **Post date:** [May 29, 2024, 7:39pm UTC](https://awg.osdr.space/t/proteomics-awg-subgroup-project/451/1 "2024-05-29T19:39:49Z")
I’m re-starting the proteomics subgroup to develop a GeneLab consensus pipeline for processing proteomics data hosted on the OSDR. We will meet on the second Wednesday of each month starting on Wednesday, June 12th at the following times: 2-3pm PT | 5-6pm ET | 9-10pm GMT | Thursday 7-8am AEST (Melbourne). If you are interested in joining this sub-group, please add your information to the table in the [Proteomics\_AWG\_Subgroup\_Members](https://docs.google.com/document/d/1lUdrjr28W3Xa-w4hX7PQseavlDPQV6ytwtAw-643DGw) google doc. ---
**Author:** ![rtscott2001](https://sea1.discourse-cdn.com/flex001/user_avatar/awg.osdr.space/rtscott2001/32/5_2.png) [@rtscott2001](https://awg.osdr.space/u/rtscott2001)\ **Post date:** [May 29, 2024, 8:08pm UTC](https://awg.osdr.space/t/proteomics-awg-subgroup-project/451/2 "2024-05-29T20:08:59Z")
Some people who may have experience and valuable input @Gbolaga_Olanrewaju @mmarto3 @mjr5770 @vinita.chauhan @ojaskulkarni5 (listed proteomics among their interest/expertise) ---
**Author:** ![joel.steele](https://sea1.discourse-cdn.com/flex001/user_avatar/awg.osdr.space/joel.steele/32/789_2.png) [@joel.steele](https://awg.osdr.space/u/joel.steele)\ **Post date:** [May 29, 2024, 10:42pm UTC](https://awg.osdr.space/t/proteomics-awg-subgroup-project/451/3 "2024-05-29T22:42:32Z")
Look forward to attending with some of my team, we make LFQ analyst for data visualisation but as a facility we process and analyse every type of proteomics experiment (internally we work with prettt much every package, pipeline and data type) 🙂 [https://analyst-suites.org/](https://analyst-suites.org/) The top contenders for a universal type -processing pipeline- would be nf-core, msfragger based, or ms stats based, allowing interoperability. I.e. universal inputs ideally, there are tools that can handle all types of inputs but choice of consensus types: LFQ, TMT, DIA, Silac, ITRAQ, Phos or PTM based integrations with or without matched total proteomes. Im not sure if anyone has done any interactomes The question is whether one would also want the multi-layered data integration. I.e. proteomics, metabolomics, transcriptomics, methylomics, metap/g and functional integration. There are a couple of JS front ends than run python under the hood. I know there are fecal samples from missions but i havent checked matching proteomics datasets on the repository, the integration of meta proteomics visualisations is a more complex thing, a few tools like iMetalab is a complete tool offering end to end processing and visualistion but some other more packaged pipelines exist now. I will assemble a list as i have a few students who work in this space and our bioinformatics team have been considering flipping everything we do into a more a-synch environment. The issue here is that i know R and Nasa arent the best of friends for the OSDR website, but i guess it doesnt need to be r to vis. @asaravia [@MultiOmicsAWG](https://awg.osdr.space/groups/multiomicsawg) ---
**Author:** ![rtscott2001](https://sea1.discourse-cdn.com/flex001/user_avatar/awg.osdr.space/rtscott2001/32/5_2.png) [@rtscott2001](https://awg.osdr.space/u/rtscott2001)\ **Post date:** [June 18, 2024, 7:14pm UTC](https://awg.osdr.space/t/proteomics-awg-subgroup-project/451/4 "2024-06-18T19:14:39Z")
Heard you all met! Exciting progress! @asaravia @joel.steele Hossein Fazelinia @mjr5770 @vinita.chauhan @sudip.sharma.temple @terry.lim @barbara.novak @GabGoncalves @mohammadreza.dorvash also those not in here yet: Debbie Chong, Hailey Zhang, Hossein Valipourkahrod ---
**Author:** ![alavia](https://sea1.discourse-cdn.com/flex001/user_avatar/awg.osdr.space/alavia/32/2000_2.png) [@alavia](https://awg.osdr.space/u/alavia)\ **Post date:** [August 16, 2024, 6:34am UTC](https://awg.osdr.space/t/proteomics-awg-subgroup-project/451/5 "2024-08-16T06:34:47Z")
Hello! I see this was posted in May. Is there any work left? Can I join? I am happy to put my information in the Google Doc. ---
**Author:** ![jessicadurbano](https://sea1.discourse-cdn.com/flex001/user_avatar/awg.osdr.space/jessicadurbano/32/61_2.png) [@jessicadurbano](https://awg.osdr.space/u/jessicadurbano)\ **Post date:** [August 16, 2024, 7:14am UTC](https://awg.osdr.space/t/proteomics-awg-subgroup-project/451/6 "2024-08-16T07:14:15Z")
Hello to you. I think we can tag @asaravia for more info. ---
**Author:** ![barbara.novak](https://sea1.discourse-cdn.com/flex001/user_avatar/awg.osdr.space/barbara.novak/32/127_2.png) [@barbara.novak](https://awg.osdr.space/u/barbara.novak)\ **Post date:** [September 18, 2024, 4:47pm UTC](https://awg.osdr.space/t/proteomics-awg-subgroup-project/451/7 "2024-09-18T16:47:05Z")
Hi everyone, @joel.steele, To add to the metadata discussion, we were wondering about lipidomics data. Presumably, it has some assay-specific metadata not shared with either metabolomics or proteomics, but do those differences influence the processing pipeline? And if so, which metadata differences would be important to track? thanks! Barbara ---
**Author:** ![Niskarsh97](https://sea1.discourse-cdn.com/flex001/user_avatar/awg.osdr.space/niskarsh97/32/1959_2.png) [@Niskarsh97](https://awg.osdr.space/u/Niskarsh97)\ **Post date:** [May 8, 2025, 5:59am UTC](https://awg.osdr.space/t/proteomics-awg-subgroup-project/451/8 "2025-05-08T05:59:22Z")
Hey everyone, I am Niskarsh Vikram Singh, JRF at central Ayurveda Research Institute, CCRAS, Ministry of AYUSH, GOI. I am a Bioinformatician, and to be precise, my research area is \*\*Structural Biology and bioinformatics. I am highly interested in working on a \*\*Proteomics, lipidomics, or genomics project. I recently joined the OSDR AWG and It would be nice to have some guidance on how I can contribute and learn to be a valuable asset to the community. Also, trying to get familiar with all the things and stuff! @asaravia @barbara.novak ---
**Author:** ![rtscott2001](https://sea1.discourse-cdn.com/flex001/user_avatar/awg.osdr.space/rtscott2001/32/5_2.png) [@rtscott2001](https://awg.osdr.space/u/rtscott2001)\ **Post date:** [May 8, 2025, 6:32am UTC](https://awg.osdr.space/t/proteomics-awg-subgroup-project/451/9 "2025-05-08T06:32:33Z")
Welcome! Hope ok, went ahead and tagged Amanda and Barbara, so they get the heads up. Did you find the meeting invite on the Forum-Space calendar? [https://awg.osdr.space/upcoming-events](https://awg.osdr.space/upcoming-events) Looks like the mtg is this next Wednesday, May 14 Welcome to the AWG 💯🎉🚀 ---
**Author:** ![Niskarsh97](https://sea1.discourse-cdn.com/flex001/user_avatar/awg.osdr.space/niskarsh97/32/1959_2.png) [@Niskarsh97](https://awg.osdr.space/u/Niskarsh97)\ **Post date:** [May 8, 2025, 6:37am UTC](https://awg.osdr.space/t/proteomics-awg-subgroup-project/451/10 "2025-05-08T06:37:09Z")
Thanks and appreciate the sweet gesture 😀 And yeah, I found the invite and also registered for the Moon for Earth’s Future Farming webinar on 9th May. Excited for the meeting on 14th may. ---
**Author:** ![aryan18104](https://sea1.discourse-cdn.com/flex001/user_avatar/awg.osdr.space/aryan18104/32/2033_2.png) [@aryan18104](https://awg.osdr.space/u/aryan18104)\ **Post date:** [May 8, 2025, 8:51am UTC](https://awg.osdr.space/t/proteomics-awg-subgroup-project/451/11 "2025-05-08T08:51:40Z")
Hello , I am Deep Ranjan I saw this post today only … And I want to join this subgroup for exploring the field of proteomics and learning about deep knowledge of proteomics. Is there any space left so I can also contribute in this . Thank you. @asaravia@barbara.novak ---
**Author:** ![asaravia](https://sea1.discourse-cdn.com/flex001/user_avatar/awg.osdr.space/asaravia/32/290_2.png) [@asaravia](https://awg.osdr.space/u/asaravia)\ **Post date:** [July 2, 2025, 2:03pm UTC](https://awg.osdr.space/t/proteomics-awg-subgroup-project/451/13 "2025-07-02T14:03:11Z")
Hi @Niskarsh97 and @aryan18104, If you are still interested in joining the proteomics subgroup, please sign up on the members sign-up sheet: > **[Proteomics\_AWG\_Subgroup\_Members](https://docs.google.com/document/d/1lUdrjr28W3Xa-w4hX7PQseavlDPQV6ytwtAw-643DGw/edit)** > > Proteomics AWG Subgroup Purpose: To develop a consensus pipeline for processing proteomics data hosted on the OSDR Meetings: The second Wednesday of each month, 2-3pm PT | 5-6pm ET | 9-10pm GMT | Thursday 7-8am AEST (Melbourne) Members: Name... ---
**Author:** ![KomalYadav](https://sea1.discourse-cdn.com/flex001/user_avatar/awg.osdr.space/komalyadav/32/2409_2.png) [@KomalYadav](https://awg.osdr.space/u/KomalYadav)\ **Post date:** [July 8, 2025, 12:52pm UTC](https://awg.osdr.space/t/proteomics-awg-subgroup-project/451/14 "2025-07-08T12:52:21Z")
hey i am interested and looking forward to contribute in this project ---
**Author:** ![Maitha](https://sea1.discourse-cdn.com/flex001/user_avatar/awg.osdr.space/maitha/32/2528_2.png) [@Maitha](https://awg.osdr.space/u/Maitha)\ **Post date:** [July 20, 2025, 12:39pm UTC](https://awg.osdr.space/t/proteomics-awg-subgroup-project/451/15 "2025-07-20T12:39:50Z")
Hello I’m really interested in contributing! I wanted to ask if there’s still work left to do on the project and if it’s possible for me to join. I’m very excited about the opportunity to help develop the consensus pipeline and learn more about bioinformatics and proteomics data analysis. ---
**Author:** ![rtscott2001](https://sea1.discourse-cdn.com/flex001/user_avatar/awg.osdr.space/rtscott2001/32/5_2.png) [@rtscott2001](https://awg.osdr.space/u/rtscott2001)\ **Post date:** [July 20, 2025, 5:37pm UTC](https://awg.osdr.space/t/proteomics-awg-subgroup-project/451/16 "2025-07-20T17:37:51Z")
Absolutely there is content to be done 😊 Consider chatting directly with @asaravia ---
**Author:** ![asaravia](https://sea1.discourse-cdn.com/flex001/user_avatar/awg.osdr.space/asaravia/32/290_2.png) [@asaravia](https://awg.osdr.space/u/asaravia)\ **Post date:** [August 22, 2025, 4:50pm UTC](https://awg.osdr.space/t/proteomics-awg-subgroup-project/451/17 "2025-08-22T16:50:02Z")
Hi Proteomics AWG sub-group members, I drafted an abstract for the 2025 Annual AWG Member meeting on September 25th. Please review the [2025\_AWG\_Annual\_Mtg\_Proteomics\_subgrp\_abstract](https://docs.google.com/document/d/1kBJIsnVYGfefaagKHmpHq_z7eAyjbq4NJC_GTBPYK4c/edit?usp=sharing) and track any edits **by Wednesday 8/27**. Please also add your name and affiliation to the abstract (I’ve highlighted these sections in the abstract draft). I will plan to submit the abstract on Thursday, 8/28. Thanks, Amanda @barbara.novak @joel.steele @alexis.torres @jihan.yehia @yaankitn @KariJ @spruce @ccnaney @amaanarif25 @HosseinFazelinia @terry.lim @hosseinvk ---
**Author:** ![asaravia](https://sea1.discourse-cdn.com/flex001/user_avatar/awg.osdr.space/asaravia/32/290_2.png) [@asaravia](https://awg.osdr.space/u/asaravia)\ **Post date:** [October 7, 2025, 10:08pm UTC](https://awg.osdr.space/t/proteomics-awg-subgroup-project/451/18 "2025-10-07T22:08:46Z")
The Proteomics Subgroup meeting tomorrow (10/8) is cancelled. When we meet next month, we will go over the outputs from the tools in our current pipeline draft. See you all in November :0)