To determine a full map for IDE cleavage of T40, a temporal series of products were analyzed by mass spectrometry (MS) and reported based upon T40 numbering (Asp1 to Leu40).
To quantitatively estimate temporal specificity of each transcript during cleavage stage, we applied a Jensen-Shannon distance-based algorithm [ 28] to calculate temporal expression specificity score of each transcript in 24 single cells from cleavage stage embryos and 33 mouse tissues from ENCODE (GSE39524) (Methods).
DOI: http://dx.doi.org/10.7554/eLife.03939.002 Co-transcriptional processing of nascent pre-mRNA is a central mechanism for gene regulation in eukaryotes and requires temporal coordination between transcription initiation, elongation, splicing, and cleavage.
To identify the temporal sequence of events leading to Beclin-1 cleavage, we first investigated the consequences of an NMDA receptor block on calpain activation and Beclin-1 modulation.
Cleavage cycle 14A is divided into 8 temporal classes (T1-T8) of 6.5 minutes each.
It is present in a sharp temporal window in the oocytes, eggs and very early cleavage stages but not in the later stages of embryonic development or the adult tissues [ 36].
Altogether, our data support a causal role for CED-3 cleavage of LIN-28 in the regulation of temporal cell fate patterning.
Cleavage of the five NS boundaries follows a preferred temporal order, which is likely to be partially dictated by the amino acids in the P5 P2 and P2′ positions flanking the scissile bond dipeptide (P1 P1′) [ 6, 7, 16, 22– 25].
Together, these observations suggested lncRNAs in cleavage stage embryos are expressed in a more temporal-specific manner than protein coding transcripts and lncRNAs identified in somatic tissues.
Our current data with rat cerebral cortical neurons demonstrate a temporal correlation between proteasome inhibition and caspase activation that leads to TAU cleavage at Asp421 associated with TAU pathology and cell death.
Reducing diffusion by up to 4 orders of magnitude and plotting the full profiles of substrate cleavage at the near and far ends correspondingly showed the noticeable temporal separation of substrate cleavage profiles upon approx. 100-fold reduced diffusivity (Fig. 4C-F).
