Back

ProHap enables proteomic database generation accounting for population diversity

Vasicek, J.; Kuznetsova, K. G.; Skiadopoulou, D.; Johansson, S.; Njolstad, P. R.; Bruckner, S.; Kall, L.; Vaudel, M.

2023-12-24 bioinformatics
10.1101/2023.12.24.572591 bioRxiv
Show abstract

Amid the advances in genomics, the availability of large reference panels of human haplotypes is key to account for human diversity within and across populations. However, mass spectrometry-based proteomics does not benefit from this information. To address this gap, we introduce ProHap, a Python-based tool that constructs protein sequence databases from phased genotypes of reference panels. ProHap empowers researchers to account for haplotypic diversity in proteomic searches.

Matching journals

The top 2 journals account for 50% of the predicted probability mass.

1
Journal of Proteome Research
● 234 papers in training set
Top 0.1%
30.9%
2
PROTEOMICS
○ 43 papers in training set
Top 0.1%
26.4%
50% of probability mass above
3
Bioinformatics
◐ 1204 papers in training set
Top 4%
5.5%
4
PLOS ONE
● 5266 papers in training set
Top 38%
3.2%
5
Computational and Structural Biotechnology Journal
● 242 papers in training set
Top 2%
3.2%
6
Molecular & Cellular Proteomics
○ 158 papers in training set
Top 0.7%
2.4%
7
Molecular & Cellular Proteomics
25 papers in training set
Top 0.2%
2.1%
8
Genomics, Proteomics & Bioinformatics
◐ 172 papers in training set
Top 0.9%
2.1%
9
BMC Bioinformatics
○ 457 papers in training set
Top 3%
2.1%
10
Briefings in Bioinformatics
◐ 354 papers in training set
Top 4%
1.7%
11
Bioinformatics Advances
◐ 203 papers in training set
Top 3%
1.7%
12
PLOS Computational Biology
● 1863 papers in training set
Top 15%
1.7%
13
BMC Genomics
○ 406 papers in training set
Top 5%
1.5%
14
Journal of Molecular Biology
○ 232 papers in training set
Top 2%
1.5%
15
GigaScience
◐ 212 papers in training set
Top 3%
1.5%
16
International Journal of Molecular Sciences
○ 494 papers in training set
Top 11%
1.1%
17
NAR Genomics and Bioinformatics
◐ 242 papers in training set
Top 4%
1.1%
18
Scientific Reports
○ 3612 papers in training set
Top 72%
0.9%
19
Journal of Proteomics
○ 28 papers in training set
Top 0.5%
0.8%
20
Nature Communications
○ 5641 papers in training set
Top 57%
0.8%
21
BMC Medical Genomics
○ 50 papers in training set
Top 2%
0.6%