APPRIS database
@appris.bsky.social
APPRIS database and webserver updates, announcements and new releases.
APPRIS: https://appris.bioinfo.cnio.es/#/
APPRIS: https://appris.bioinfo.cnio.es/#/
One example is ACOT2 where APPRIS has the correct biological isoform. The MANE Select ACOT2 isoform is almost certainly produced by an inefficient translation initiation process, would lose the mitochondrial signal sequence and will end up in the wrong compartment.
academic.oup.com/nar/article/...
academic.oup.com/nar/article/...
Evidence for widespread translation of 5′ untranslated regions
Abstract. Ribosome profiling experiments support the translation of a range of novel human open reading frames. By contrast, most peptides from large-scale
academic.oup.com
February 25, 2025 at 11:10 AM
One example is ACOT2 where APPRIS has the correct biological isoform. The MANE Select ACOT2 isoform is almost certainly produced by an inefficient translation initiation process, would lose the mitochondrial signal sequence and will end up in the wrong compartment.
academic.oup.com/nar/article/...
academic.oup.com/nar/article/...
Many of the novel Principal:M isoforms correspond to MANE Select transcripts because we are preferentially annotating those 1,000+ genes where MANE and APPRIS do not agree.
However, we do occasionally choose a 3rd isoform and most principal isoforms are unchanged after manual curation.
However, we do occasionally choose a 3rd isoform and most principal isoforms are unchanged after manual curation.
February 24, 2025 at 1:03 PM
Many of the novel Principal:M isoforms correspond to MANE Select transcripts because we are preferentially annotating those 1,000+ genes where MANE and APPRIS do not agree.
However, we do occasionally choose a 3rd isoform and most principal isoforms are unchanged after manual curation.
However, we do occasionally choose a 3rd isoform and most principal isoforms are unchanged after manual curation.
Changes to Principal:M isoforms are based on known protein structure and funcional domains, and cross-species conservation, as well as RNA-Seq and proteomics evidence.
Principal isoforms changed by manual curation are now targged as "Alternative:M".
Principal isoforms changed by manual curation are now targged as "Alternative:M".
February 24, 2025 at 12:47 PM
Changes to Principal:M isoforms are based on known protein structure and funcional domains, and cross-species conservation, as well as RNA-Seq and proteomics evidence.
Principal isoforms changed by manual curation are now targged as "Alternative:M".
Principal isoforms changed by manual curation are now targged as "Alternative:M".
For DCD, the Principal:2 isoform was the isoform with the intact Pfam domain. Unfortunately, the Pfam domain was based on erroneous transcript predictions in primates.
Structure and function is known for the 110 aa protein (Principal:M), while the 121 aa protein (Alternative:M) is uninteresting.
Structure and function is known for the 110 aa protein (Principal:M), while the 121 aa protein (Alternative:M) is uninteresting.
February 24, 2025 at 12:33 PM
For DCD, the Principal:2 isoform was the isoform with the intact Pfam domain. Unfortunately, the Pfam domain was based on erroneous transcript predictions in primates.
Structure and function is known for the 110 aa protein (Principal:M), while the 121 aa protein (Alternative:M) is uninteresting.
Structure and function is known for the 110 aa protein (Principal:M), while the 121 aa protein (Alternative:M) is uninteresting.