Wow , i am also writing RUST 🦀 for proteomics and also masspectrometry and if you have methods then ket me know, and we can add to the previous crate either Rustret or proteogenomics github.com/omicscode i read a book on R massspectrometry and implement those methods.
omicscode - Overview
Bioinformatician| Computational Biology | Scientific Developer | I don't use language models aka LLM till now and read algorithms and data structures - omicscode
github.com
October 27, 2025 at 11:11 AM
Wow , i am also writing RUST 🦀 for proteomics and also masspectrometry and if you have methods then ket me know, and we can add to the previous crate either Rustret or proteogenomics github.com/omicscode i read a book on R massspectrometry and implement those methods.
Who’s off to Festival of Genomics at the end of Jan? Would be very keen to connect with people into long-read RNA-seq, and proteogenomics! Even better if you’re a virologist too! 🧬🦠
#FOG2025 #omics #transcriptomics #proteomics #proteogenomics #bioinformatics
#FOG2025 #omics #transcriptomics #proteomics #proteogenomics #bioinformatics
January 16, 2025 at 1:09 PM
Who’s off to Festival of Genomics at the end of Jan? Would be very keen to connect with people into long-read RNA-seq, and proteogenomics! Even better if you’re a virologist too! 🧬🦠
#FOG2025 #omics #transcriptomics #proteomics #proteogenomics #bioinformatics
#FOG2025 #omics #transcriptomics #proteomics #proteogenomics #bioinformatics
Efficient candidate drug target discovery through proteogenomics in a Scottish cohort https://www.medrxiv.org/content/10.1101/2024.01.29.24301808v1
Efficient candidate drug target discovery through proteogenomics in a Scottish cohort https://www.medrxiv.org/content/10.1101/2024.01.29.24301808v1
Understanding the genomic basis of human proteomic variability provides powerful tools to probe pote
www.medrxiv.org
January 30, 2024 at 5:41 PM
Efficient candidate drug target discovery through proteogenomics in a Scottish cohort https://www.medrxiv.org/content/10.1101/2024.01.29.24301808v1
Pan-cancer proteogenomics connects oncogenic drivers to functional states
Pan-cancer proteogenomics connects oncogenic drivers to functional states
A multi-omics analysis-based resource across ten cancer types from more than 1,000 patients provides pan-cancer insights into shared oncogenic driver mechanisms and pathways.
www.cell.com
August 31, 2023 at 2:38 PM
Pan-cancer proteogenomics connects oncogenic drivers to functional states
The DoM’s partnership with the Greater Los Angeles VA continues to grow! We are now a site for the VABIO Applied Proteogenomics Organizational Learning and Outcomes (APOLLO) program. This will enhance our ability to study cancer using cutting-edge multi-omic technology. Learn more uclahs.fyi/4aLYDOg
February 6, 2025 at 10:04 PM
The DoM’s partnership with the Greater Los Angeles VA continues to grow! We are now a site for the VABIO Applied Proteogenomics Organizational Learning and Outcomes (APOLLO) program. This will enhance our ability to study cancer using cutting-edge multi-omic technology. Learn more uclahs.fyi/4aLYDOg
Perhaps we can make a comp bio starter pack from these replies? I'm at the Broad Institute in the Proteomics Platform working with large-scale proteogenomics data and thinking of new analysis tools!
November 13, 2024 at 12:23 AM
Perhaps we can make a comp bio starter pack from these replies? I'm at the Broad Institute in the Proteomics Platform working with large-scale proteogenomics data and thinking of new analysis tools!
From @usegalaxyp at X: 'A #UseGalaxy of Informatics Resources for MS-based #Proteomics' is now published in @tandfonline's Expert Review of Proteomics. doi.org/10.1080/147894…
z.umn.edu/galaxypreferen #proteogenomics #metaproteomics #Multiomics #MSImaging
z.umn.edu/galaxypreferen #proteogenomics #metaproteomics #Multiomics #MSImaging
October 4, 2023 at 6:29 AM
From @usegalaxyp at X: 'A #UseGalaxy of Informatics Resources for MS-based #Proteomics' is now published in @tandfonline's Expert Review of Proteomics. doi.org/10.1080/147894…
z.umn.edu/galaxypreferen #proteogenomics #metaproteomics #Multiomics #MSImaging
z.umn.edu/galaxypreferen #proteogenomics #metaproteomics #Multiomics #MSImaging
🧬 Cracking the code of hidden peptides! moPepGen algorithm unveils molecular mysteries in cancer proteomes. Genomic detective work just got a major upgrade! 🕵️♀️ #Proteogenomics #CancerResearch https://emmecola.github.io/genomics-daily
June 17, 2025 at 6:35 AM
🧬 Cracking the code of hidden peptides! moPepGen algorithm unveils molecular mysteries in cancer proteomes. Genomic detective work just got a major upgrade! 🕵️♀️ #Proteogenomics #CancerResearch https://emmecola.github.io/genomics-daily
PepCentric Enables Fast Repository-Scale Proteogenomics Searches https://www.biorxiv.org/content/10.1101/2025.02.24.639867v1
March 1, 2025 at 12:47 AM
PepCentric Enables Fast Repository-Scale Proteogenomics Searches https://www.biorxiv.org/content/10.1101/2025.02.24.639867v1
Large-scale proteogenomics characterization of microproteins in Mycobacterium tuberculosis rdcu.be/d45JQ
Large-scale proteogenomics characterization of microproteins in Mycobacterium tuberculosis
Scientific Reports - Large-scale proteogenomics characterization of microproteins in Mycobacterium tuberculosis
rdcu.be
December 28, 2024 at 5:21 PM
Large-scale proteogenomics characterization of microproteins in Mycobacterium tuberculosis rdcu.be/d45JQ
Tumors hijack RNA splicing, creating public neoantigens across cancer types. These neojunctions are processed, HLA-presented, and recognized by T cells—offering universal immunotherapy targets.
Tumour-wide RNA splicing aberrations generate actionable public neoantigens
www.nature.com/articles/s41...
Tumour-wide RNA splicing aberrations generate actionable public neoantigens
www.nature.com/articles/s41...
Tumour-wide RNA splicing aberrations generate actionable public neoantigens - Nature
A study identifies public neoantigens generated by tumor-wide aberrant mRNA splicing activity across distinct cancer types.
www.nature.com
February 23, 2025 at 4:41 PM
We will continue using cutting edge (we just developed them) proteogenomics approaches such as PLAMseq (www.biorxiv.org/content/10.1... )to estudy the role of Ubiquitin and SUMO in genome biology.
Just a moment...
Verifying you are human. This may take a few seconds.
https://biorxiv.org/content/10.110…
July 29, 2025 at 4:29 PM
We will continue using cutting edge (we just developed them) proteogenomics approaches such as PLAMseq (www.biorxiv.org/content/10.1... )to estudy the role of Ubiquitin and SUMO in genome biology.
Refining the annotation of Rhodnius prolixus aspartic proteases A1 family genes through proteogenomics pubmed.ncbi.nlm.nih.gov/40201543/
April 11, 2025 at 4:21 AM
Refining the annotation of Rhodnius prolixus aspartic proteases A1 family genes through proteogenomics pubmed.ncbi.nlm.nih.gov/40201543/
Long-read proteogenomics connects disease-associated sQTLs to protein isoform effectors, overcoming short-read RNA-seq limits. A new approach links genomics to protein outcomes. Insights await! PMID:39079539, Am J Hum Genet 2024 doi.org/10.1016/j.aj...
Redirecting
doi.org
January 11, 2025 at 1:02 AM
Long-read proteogenomics connects disease-associated sQTLs to protein isoform effectors, overcoming short-read RNA-seq limits. A new approach links genomics to protein outcomes. Insights await! PMID:39079539, Am J Hum Genet 2024 doi.org/10.1016/j.aj...
Large-scale proteogenomics characterization of microproteins in Mycobacterium tuberculosis
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Large-scale proteogenomics characterization of microproteins in Mycobacterium tuberculosis - Scientific Reports
Scientific Reports - Large-scale proteogenomics characterization of microproteins in Mycobacterium tuberculosis
www.nature.com
December 28, 2024 at 10:04 AM
Large-scale proteogenomics characterization of microproteins in Mycobacterium tuberculosis
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Proteogenomics: Protein sequence analysis: proteogenomics for protein data files. github.com/omicscode/pr...
GitHub - omicscode/proteogenomics: proteogenomics for protein analysis
proteogenomics for protein analysis. Contribute to omicscode/proteogenomics development by creating an account on GitHub.
github.com
September 27, 2025 at 9:58 AM
Proteogenomics: Protein sequence analysis: proteogenomics for protein data files. github.com/omicscode/pr...
Integrative proteogenomics study identifies the indirect effect of circulating proteins on 8 diseases via telomere length https://www.medrxiv.org/content/10.1101/2023.12.06.23299603v1
Integrative proteogenomics study identifies the indirect effect of circulating proteins on 8 diseases via telomere length https://www.medrxiv.org/content/10.1101/2023.12.06.23299603v1
Growing evidence has revealed the associations between telomere length and diseases; however, the me
www.medrxiv.org
December 7, 2023 at 10:13 PM
Integrative proteogenomics study identifies the indirect effect of circulating proteins on 8 diseases via telomere length https://www.medrxiv.org/content/10.1101/2023.12.06.23299603v1
End-to-end proteogenomics for discovery of cryptic and non-canonical cancer proteoforms using long-read transcriptomics and multi-dimensional proteomics www.biorxiv.org/cont...
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#proteomics #prot-preprint
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#proteomics #prot-preprint
August 29, 2025 at 11:40 AM
End-to-end proteogenomics for discovery of cryptic and non-canonical cancer proteoforms using long-read transcriptomics and multi-dimensional proteomics www.biorxiv.org/cont...
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#proteomics #prot-preprint
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#proteomics #prot-preprint
Histopathology-assisted proteogenomics provides foundations for stratification of melanoma metastases https://www.biorxiv.org/content/10.1101/2023.09.29.559755v1
Histopathology-assisted proteogenomics provides foundations for stratification of melanoma metastases https://www.biorxiv.org/content/10.1101/2023.09.29.559755v1
Here we describe the histopathology-driven proteogenomic landscape of 142 treatment-naive metastatic
www.biorxiv.org
October 2, 2023 at 2:52 AM
Histopathology-assisted proteogenomics provides foundations for stratification of melanoma metastases https://www.biorxiv.org/content/10.1101/2023.09.29.559755v1
Assessing Long-Term Stored Tissues for Multi-Omics Data Quality and Proteogenomics Suitability https://www.biorxiv.org/content/10.1101/2024.03.13.583805v1
Assessing Long-Term Stored Tissues for Multi-Omics Data Quality and Proteogenomics Suitability https://www.biorxiv.org/content/10.1101/2024.03.13.583805v1
As research into the complexities of cancer biology deepens, the integration of multi-omics analyses
www.biorxiv.org
March 14, 2024 at 9:53 AM
Assessing Long-Term Stored Tissues for Multi-Omics Data Quality and Proteogenomics Suitability https://www.biorxiv.org/content/10.1101/2024.03.13.583805v1
In-booth Prezo ALERT: Join Frank Harrison at 2:30pm today (booth 501) as our Proteogenomics Product Manager unveils new platforms and solutions for protein profiling and single cell sequencing. BioLegend http://ms.spr.ly/63326STybg
#IMMUNOLOGY2025 #AAI2025
#IMMUNOLOGY2025 #AAI2025
May 5, 2025 at 11:30 PM
In-booth Prezo ALERT: Join Frank Harrison at 2:30pm today (booth 501) as our Proteogenomics Product Manager unveils new platforms and solutions for protein profiling and single cell sequencing. BioLegend http://ms.spr.ly/63326STybg
#IMMUNOLOGY2025 #AAI2025
#IMMUNOLOGY2025 #AAI2025
Assessing Long-Term Stored Tissues for Multi-Omics Data Quality and Proteogenomics Suitability pubs.acs.org/doi/10....
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#proteomics #prot-paper
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#proteomics #prot-paper
August 11, 2025 at 11:40 AM
Assessing Long-Term Stored Tissues for Multi-Omics Data Quality and Proteogenomics Suitability pubs.acs.org/doi/10....
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#proteomics #prot-paper
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#proteomics #prot-paper
Proteogenomics analysis of human tissues using pangenomes https://www.biorxiv.org/content/10.1101/2024.05.24.595489v1
Proteogenomics analysis of human tissues using pangenomes https://www.biorxiv.org/content/10.1101/2024.05.24.595489v1
The genomics landscape is evolving with the emergence of pangenomes, challenging the conventional si
www.biorxiv.org
May 28, 2024 at 2:09 PM
Proteogenomics analysis of human tissues using pangenomes https://www.biorxiv.org/content/10.1101/2024.05.24.595489v1
Large-scale proteogenomics characterization of microproteins in Mycobacterium tuberculosis #SciRep #MassSpec www.nature.com/articles/s41...
Large-scale proteogenomics characterization of microproteins in Mycobacterium tuberculosis - Scientific Reports
Scientific Reports - Large-scale proteogenomics characterization of microproteins in Mycobacterium tuberculosis
www.nature.com
December 29, 2024 at 2:25 PM
Large-scale proteogenomics characterization of microproteins in Mycobacterium tuberculosis #SciRep #MassSpec www.nature.com/articles/s41...