TOPICCONFERENCEAUTHOR
2021
A rigorous evaluation of optimal peptide targets for MS-based clinical diagnostics of Coronavirus Disease 2019USHUPO 2021A.Rajczewski
2020
Exploring chromatogram library-based data independent acquisition analysis using EncyclopeDIA within Galaxy frameworkBCC 2020P.Jagtap
Survey of metaproteomics software tools for functional microbiome analysisBCC 2020R.Sajulga
An Integrated Quantitative Proteogenomics Pipeline Reveals Non-Canonical Variant Peptides in Inflamed Colon TissueUSHUPO 2020A.Rajczewski
Evaluating customized database generation methods for metaproteomics analysis. Link to recording.ASMS 2020 RebootS.Mehta
An automated, accessible proteogenomic pipeline for high confidence detection and rigorous validation of novel peptide sequence variants in Galaxy-P. Link to recording.ASMS 2020 RebootA.Rajczewski
2019
Developing multi-omic informatics workflows within the Galaxy platform to uncover cancer-microbiome interactionsITCR @ Salt Lake City, UT, USAP.Jagtap
imetaQuantome workflow: An integrated metaproteomics workflow for interactive, statistical and functional microbiome analysisASMS @ Atlanta, GA, USAS.Mehta
Metaproteomics powered by Metatranscriptomics: towards a multi- omic functional microbiome analysisASMS @ Atlanta, GA, USAP.Jagtap
Galaxy on site MetabolomicsGCC @ Freiburg, GermanyA.Eschenlauer
2018
Tackling Analytical challenges in Cancer proteogenomics using Galaxy frameworkPSI @ Pune IndiaP.Jagtap
Integrative proteo-transcriptomics workflows within the Galaxy framework to explore the correlation between the expression of RNA and proteinsGCC @ Portland, OR, USAP.Kumar
Evaluation of moFF and FlashLFQ for label free peptide quantification in proteomic workflows within Galaxy-P Framework.GCC @ Portland, OR, USAS.Mehta
CRAVAT (Cancer-Related Analysis of Variants Toolkit) integration into Galaxy-P and extension towards proteogenomic studiesGCC @ Portland, OR, USAR.Sajulga
Galaxy-based multi-stage two-step database searching pipeline for improved proteogenomics and metaproteomics analysisBICB SymposiumP.Kumar
Galaxy-based multi-stage two-step database searching pipeline for improved multi-omics analysisUS-HUPOP.Kumar
Using HUPO Proteomics Standards With Software Inputs and Outputs for Galaxy-based Multi-omic InformaticsUS-HUPOT.McGowan
Evaluation of precursor-based peptide quantification software tools within the Galaxy frameworkUS-HUPOS.Mehta
Adding another horse to the carriage: using ERLIC-MS with RPLC-MS to help carry the load of expanding protein sequence coverage.ASMS @ SanDiego, CA, USAC.Guerrero
Unraveling the functions of microbiomes: A comprehensive evaluation of software tools for functional metaproteomics.ASMS @ SanDiego, CA, USAC.Easterly
Avoiding Fake news: Post analysis FDR tool for improving confidence in next-generation proteomic results.ASMS @ SanDiego, CA, USAS.Hubler
Slice and Dice: An accessible Galaxy-baed metaproteomic database sectioning approach improves taxonomic and functional microbiome characterization.ASMS @ SanDiego, CA, USAP.Kumar
Quantifying Functional Microbiomes: An integrated, quantitative metaproteomics approach reveals connections between taxa, function and protein expression in complex microbiomes.ASMS @ SanDiego, CA, USAP.Jagtap
From raw data to results on your screen: A suite of accessible software for comprehensice proteogenomic informaticsASMS @ SanDiego, CA, USAJ.Johnson
Evaluation of label-free peptide quantification tools and their application to multi-omic workflows within the Galaxy-P framework.ASMS @ SanDiego, CA, USAS.Mehta
2017
Development and evaluation of Galaxy based one-click multi stage database searching pipeline for proteogenomics analysisBICB @ Rochester,MNP.Kumar
A Galaxy-based, multi-staged, two-step searching pipeline for improved peptide identification in next generation proteomic studiesASMS @ Indianapolis,INP.Kumar
Enhancing The Multi-Omics Visualization Platform (MVP) Plug-In For Galaxy-Based ApplicationsASMS @ Indianapolis,INT.McGowan
Multi-omic informatics in the cloud: Galaxy-P takes a ride on JetstreamASMS @ Indianapolis,INT.Griffin
Galaxy-Centered Lab Workflows To Organize Metabolomic AnalysesASMS @ Indianapolis,INA.Eschenlauer
Functional analysis of microbiomes by metaproteomics withing Galaxy frameworkASM @ New Orleans,LAP.Jagtap
2016
From Start to Finish: a complete proteogenomic informatics environment implemented in the Galaxy platformASMS @ San Antonio, TXG.Onsongo
A Multi-omics Visualization Platform (MVP) Plug-in for Galaxy-based applicationsASMS @ San Antonio, TXT.McGowan
Complementary ERLIC and RPLC online separations significantly expand sequence coverage in MS-based Proteomic and Protegenomic StudiesASMS @ San Antonio, TXC.Guerrero
Galaxy-P: Recent developments and emerging applicationASMS @ San Antonio, TXT.Griffin
2015
Democratizing and expanding the reach of DIA Mass spectrometry: Developing OpenSwath tools and workflows within user-friendly Galaxy-P platformASMS @ St.Louis, MOP.Jagtap
Metaproteomic analysis of human cervical-vaginal fluid in residual Pap tests: Insights into the cervical microbiomeASMS @ St.Louis, MOT.Griffin
Revealing Pathways In COPD-Associated Lung Cancer Via Large-Scale Quantitative Multi-omic AnalysisASMS @ St.Louis, MOB.Sandri
Plugging Proteomics Peptide-Spectral -Match visualization infor GalaxyASMS @ St.Louis, MOJ.Johnson
2014
Flexible, accessible and reproducible workflows for Tandem proteogenomic and metaproteomic analysis using GalaxyP platformASMS @ Baltimore, MDP.Jagtap
The Galaxy framework as a unifying bioinformatics solution for ‘Omics’ core facilitiesABRF @ Alburquerque, NMP.Jagtap
Identifying Novel Peptide Sequence Variants from High Throughput RNA-Seq Data Via Flexible Proteomic Database Generation using the Galaxy FrameworkASMS @ Baltimore, MDJ.Johnson
Community-Based development and evaluation of biological mass spectrometry software via the Galaxy tool shedASMS @ Baltimore, MDB.Gottschalk
2013
An Integrated Systems biology platform for complete proteogenomic analysisASMS @ Minneapolis, MNP.Jagtap
Reproducible Proteomic workflows using extensions to the Galaxy frameworkASMS @ Minneapolis, MNJ.Johnson
Quantitative Analysis of the C2C12 and Mouse Skeletal Muscle Proteomes using a Multiplexing StrategyASMS @ Minneapolis, MNM.Henderson
Building Proteomic Application Platforms for Cloud Computing Environments with CloudBioLinuxASMS @ Minneapolis, MNJ.Chilton
A comprehensive characterization of the pig islet proteome: PTMs, amino acid substitutions and novel isoformsASMS @ Minneapolis, MNE.Jong
Automated Quantification and Analysis of SILAC-iTRAQ Dual-labeled DataASMS @ Minneapolis, MNG.Onsongo
Galaxy-P: Transforming MS-based proteomic informatics via innovative workflow development, dissemination, standardization and transparencyASMS @ Minneapolis, MNT.Griffin
TOPICCONFERENCEPRESENTER
2021
Galaxy Workflows for analysis of COVID 19 Mass Spectrometry datasets. Link to recording.ELIXIR - COVID analysis in Galaxy - FEB 2021S.Mehta and P..Jagtap
iPRG 2020 : Proteome Informatics Research Group Study on Metaproteomics. Link to slides.ABRF 2021 Virtual (March 2021)P.Jagtap and M.Palmblad
2020
Linking genomes and proteomes for cancer research studiesThe MCC Proteogenomics Core - May 2020T.Griffin and P.Jagtap
Proteogenomics: challenges, applications and opportunitiesKDDW 2020T.Griffin
Data Science Using Galaxy-P Platform. Link to recording.ICDSB 2020P.Jagtap
Evaluating customized database generation methods for metaproteomics analysis within the Galaxy platform. Link to recording.BCC 2020S.Mehta
An automated, accessible proteogenomic pipeline for high confidence detection and rigorous validation of novel peptide sequence variants in Galaxy-P. Link to recording.BCC 2020A.Rajczewski
A Galaxy‐Based Multi‐Omic Informatics Hub for Cancer ResearchersNCI Data Science Seminar Series @ WebZoomP.Jagtap and T.Griffin
A Galaxy-based meta-omic approach for characterizing microbiome functional dynamics via integrated metaproteomics and metatranscriptomics abundance analysisASMS 2020 RebootP.Jagtap
2019
Mass spectrometry-based multi-omics for studying health and diseaseRPI @ Troy, NY, USAT.Griffin
Functional Microbiome Analysis Within Galaxy FrameworkIMTech @ Chandigarh, IndiaP.Jagtap
Proteogenomics tools and workflows within Galaxy platformPSI @ Karnal, IndiaP.Jagtap
Working towards multi-omics integration: Tools and workflows within Galaxy-P PlatformElucidata @ New Delhi, IndiaP.Jagtap
Interactive Galaxy Visualization for Multi-omicsGCC @ Freiburg, GermanyR Sajulga
Rootless galaxy docker with Backup for our lab IntranetGCC @ Freiburg, GermanyA. Eschenlauer
Metaproteomics powered by Metatranscriptomics: towards a multi-omic functional microbiome analysis within GalaxyGCC @ Freiburg, GermanyP Jagtap
A "Divide and Conquer" approach to address peptide-spectrum matching challenges of large sequence databases in next generation proteomic applicationsASMS @ Atlanta, GA, USAP Kumar
More than just a list: An accessible and flexible informatics environment for proteogenomicsASMS @ Atlanta, GA, USAT Griffin
Galaxy Metabolomics from the Ground upPAG@ San Diego, CA, USAA. Eschenlauer
Multi-Omics with Galaxy for Diverse Biological ApplicationsPAG @ San Diego, CA,USAT.Griffin and P.Jagtap
2018
Introduction to ProteogenomicsBioinformatics solutions for ‘Big Data’ Analysis - DEC 2018P.Jagtap
Introduction to Proteogenomics IIBioinformatics solutions for ‘Big Data’ Analysis - DEC 2018P.Jagtap
Perspectives on ProteogenomicsBioinformatics solutions for ‘Big Data’ Analysis - DEC 2018P.Jagtap
Tackling Analytical challenges in Cancer proteogenomics using Galaxy frameworkPSI @ Pune IndiaP.Jagtap
Omics, Comics and Metaproteomics: Analyzing Microbiomes using ProteomicsSaturday Meet Program @ Pune IndiaP.Jagtap
Slice and Splice: An accessible galaxy-based metaproteomic database sectioning approach improves taxonomic and functional microbiome characterizationIMS @ Leipzig, GermanyP.Kumar
Metaquantome: An integrated, quantitative metaproteomics tools reveals connections between taxa, function and protein expression in microbiomes.IMS @ Leipzig, GermanyP.Jagtap
Survey of metaproteomics software tools for functional microbiome analysisIMS @ Leipzig, GermanyP.Jagtap
Multi-omic informatics for characterizing microbiomes and their role in health, disease and environmentIMS @ Leipzig, GermanyT.Griffin and M.Arntzen
Galaxy-based multi-stage two-step database searching pipeline for improved multi-omics analysisUSHUPO @ Minneapolis, MN, USAP.Kumar
Proteo-transcriptomics workflow exploring correlation between the expression of RNA and proteinsGCC @Portland, OR, USAP.Kumar
Galaxy-P: an accessible resource for multi-omics analysisLorne ConferenceM. Doyle
Quantifying Functional Microbiomes: An integrated, quantitative metaproteomics approach reveals connections between taxa, function & protein expression in complex microbiomesGCC @ Portland, OR, USAC.Easterly and P.Jagtap
Reproducible and robust quantitative functional analysis of metaproteomes using the Galaxy platformUSHUPO @ Minneapolis, MNC.Easterly
From Raw Data to New Discoveries: Towards a Complete Proteogenomic Informatics SolutionUSHUPO @ Minneapolis, MNT.Griffin
A Galaxy based Multi-Omic Informatics hub for Cancer researchersITCRT.Griffin and P.Jagtap
Quantifying Functional Microbiomes using MetaQuantome:
An integrated, quantitative metaproteomics tool reveals connections between taxa, function and protein expression in microbiomes.
HUPO @ Orlando, FL, USAP.Jagtap
2017
Complementary ERLIC and RPLC online chromatographic separations for discovery of protein sequence variants via LC-MS-based proteogenomicsHPLC@Jeju, KoreaT Griffin
Approaches to uncovering the ‘dark’ proteomeBMBB retreat@Itasca,MNT Griffin
GalaxyP: A Galaxy Proteomics CommunityGAMe@Melbourne, AustraliaI Cooke
Functional Microbiome analysis using metaproteomics within Galaxy FrameworkUniversity of Chicago, ILP Jagtap
Metaproteomics for the future: Democratizing functional analysis of microbiomes via community based informatics development and dissemination   [Video]ASMS @ Indianapolis,INP.Jagtap
Metaproteomics for the future: Functional microbiome analysis community based informatics development and disseminationIMS @ Sardignia,ItalyP.Jagtap
Advancing metaproteomics research via comminity based informatics development and disseminationGCC@ Montepelier, FranceP.Jagtap
ProteogenomicsPersistent @ Pune,IndiaP.Jagtap
2016
Proteogenomics in Galaxy: Identifying Novel ‘Constellations’ of Proteoforms using Transcriptomic and Proteomics Data   [Video]GCC @ Bloomington,INP.Jagtap
New biochemical discoveries made possible by multi-omicsUW@LaCrosse,WIT.Griffin
Embracing complexity and diversity: Metaproteomics within the Galaxy framework   [Video]GCC @ Bloomington,INP.Jagtap
The Galaxy platform for Multi-omic data analysis and InformaticsABRF @ Fort Lauderdale,FLD.Clements
Embracing complexity and diversity: Discovery Metaproteomics of multiple microbiomes using the Galaxy frameworkASMS @ San Antonio, TXP.Jagtap
2015
Search GUI and Peptide Shaker deployed in the Galaxy framework: A powerful informatics platform for protein identification and beyondASMS @ St.Louis, MOI.Cooke
Proteomics data analysis using Galaxy-PCMSP @ FerringtonP.Jagtap
Galaxy-Based Peptide Shaker tools and applications with a focus on downstream applicationsASMS @ St.Louis, MOI.Cooke
The Galaxy framework as a bioinformatics solution for proteomics and multi-omics studiesABRF @ St.Louis, MOP.Jagtap
Proteogenomics and Metaproteomics using the Galaxy PlatformMultiomics_Talks @ CCMB, IndiaP.Jagtap
Proteogenomics and Metaproteomics using the Galaxy PlatformMultiomics_Talks @ IICT, IndiaP.Jagtap
Proteogenomics and Metaproteomics using the Galaxy PlatformMultiomics_Talks @ Delhi, IndiaP.Jagtap
2014
Public Sharing Of Complex MS-Based Qualitative And Quantitative Proteomic Data Analysis Workflows: Adding Value To Big Data RepositoriesASMS @ Baltimore, MDT.Griffin
The Galaxy framework as a unifying bioinformatics solution for ‘omics’ core facilitesGCC @ Baltimore,MDP.Jagtap
Large scale multi-omic data integration and analysis: Challenges and OppurtunitiesBICB symposium @ Rochestor, MNT.Griffin
Metaproteomics: and opportunity-rich complement to metagenomicsMetagenomics Supergroup @ Minneapolis,MNT.Griffin
DIA : Learnings from AlburqurqueABRF @ Alburquerque, NMP.Jagtap
The Galaxy framework as a unifying bioinformatics solution for Multi-omic data analysisABRF @ Alburquerque, NMP.Jagtap
2013
Galaxy-P Update:Project-Based Approach to Developing resources for Proteomics Research MSI @ Minneapolis,MNP.Jagtap
2012
Galaxy-P for ProteomicsGCC @ Chicago,ILP.Jagtap