Download data in HMPA
Micropeptide basic information
Datasets Supporting Evidence File
HMPA_pep_info Detected by MS & Screening validation by CRISPR
HMPA_sorf_info Detected by MS
HMPA_transcript_info Annotated by Ensembl
Micropeptide relevant exploration
Datasets Supporting Evidence File
Mass spectrometry Detected by MS
3D structure prediction All predicted
DataSets for different cancer types
Datasets Description File
HMPA_BRCA_pep_ms Cancer-BRCA-related pep information and expression
HMPA_ccRCC_pep_ms Cancer-ccRCC-related pep information and expression
HMPA_COAD_pep_ms Cancer-COADrelated pep information and expression
HMPA_GC_pep_ms Cancer-GC-related pep information and expression
HMPA_LUAD_pep_ms Cancer-LUAD-related pep information and expression
HMPA_OV_pep_ms Cancer-OV-related pep information and expression
HMPA_PDAC_pep_ms Cancer-PDAC-related pep information and expression
HMPA_UCEC_pep_ms Cancer-UCEC-related pep information and expression
Data source
Data Source URL
Mass spectrometry raw data CPTAC https://pdc.cancer.gov/
Annotation reference (GRCh38) Ensembl https://uswest.ensembl.org/index.html
Annotation reference (GRCh38) HGNC https://www.genenames.org/
Transcriptome data GDC https://gdc.cancer.gov
sORF data SmProt http://bioinfo.ibp.ac.cn/SmProt/
Useful tools for HMPA
Tools Description URL
ribotricer Accurate detection of short and long active ORFs using Ribo-seq data https://github.com/smithlabcode/ribotricer
Proteome Discoverer Identification and quantification of proteins in proteomic samples https://www.thermofisher.cn/cn/zh/home/industrial/mass-spectrometry/liquid-chromatography-mass-spectrometry-lc-ms/lc-ms-software/multi-omics-data-analysis/proteome-discoverer-software.html
AlphaFold2 Protein structure prediction https://github.com/lucidrains/alphafold2
Apache ECharts Open source visual chart library https://echarts.apache.org/zh/index.html
phyloP A program within PHAST that computes conservation or acceleration p-values based on an alignment and a model of neutral evolution using independent hypothesis tests (-log p-values) at individual nucleotides. http://compgen.cshl.edu/phast/phyloP-tutorial.php
ProtParam Batch predict physicochemical properties parameters of protein sequences https://biopython.org/wiki/ProtParam
TMHMM 2.0 A Deep Learning Model for Transmembrane Topology Prediction and Classification https://services.healthtech.dtu.dk/services/TMHMM-2.0/
DeepLoc ubcellular localization(s) of eukaryotic proteins prediciton https://services.healthtech.dtu.dk/services/DeepLoc-2.0/
NetSurfP 3.0 NetSurfP3 server predicts the surface accessibility, secondary structure, disorder, and phi / psi dihedral angles of amino acids in an amino acid sequence https://services.healthtech.dtu.dk/services/NetSurfP-3.0/
Omicverse Omicverse is the fundamental package for multi omics with Python https://github.com/Starlitnightly/omicverse
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