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Singing the Gaps
This release contains only the music track from Base by Base Episode 293.
Song title: Singing the Gaps
Original Base by Base episode: 293: IndeLLM (ESM2) zero-shot scoring and Siamese transfer learning for in-frame indel prediction (MCC 0.77)
Original episode link: https://basebybase.com/episodes/indellm-indel-siamese-model
Article metadata:
Article title: Leveraging protein language models and a scoring function for indel characterization and transfer learning
Journal: Patterns, 7 (2026) 101425. doi:10.1016/j.patter.2025.101425
DOI: 10.1016/j.patter.2025.101425
Reference: Gracia Carmona O, Leipart V, Amdam GV, Orengo C, Fraternali F. Leveraging protein language models and a scoring function for indel characterization and transfer learning. Patterns. 7 (2026) 101425. https://doi.org/10.1016/j.patter.2025.101425
Lyrics:
Verse 1
Late-night screens unfold the long code, quiet like tide lines
Tiny edits—insertions and deletions—tilt a protein's folded face
We watch how subtle shifts carve shadows and open new rooms
Pre-Chorus
Overlapping windows listen to the breath of sequence
A soft scoring current gathers small probabilities into a compass
Points of resonance light where the shape gives way and signs appear
Chorus
We trace the ripple, read the maps of what a single note removes
From whispered odds the outline clears and a new form finds a voice
Not weighed by length but by the places that wake, the places that move
Verse 2
Separate the new thread from its context, let each fragment speak
Embedding threads untangle, the signal loses its fear and sings
Per-residue lights reveal the rooms where edges fray and mend
Bridge
Probabilities fold like tides, their sums a patient rising swell
A paired listening weave learns from labeled nights to point and choose
Small labeled echoes sharpen the compass, turning doubt to edge
Final Chorus
We trace the ripple, read the maps of what a single note removes
From probability light the outline reappears — clear, whole, awake
Small edits become maps of meaning, guiding hands to where to heal
We rise on that bright proof: quiet tension blooming into hope
View all episodes
By Gustavo Barcelos BarraThis release contains only the music track from Base by Base Episode 293.
Song title: Singing the Gaps
Original Base by Base episode: 293: IndeLLM (ESM2) zero-shot scoring and Siamese transfer learning for in-frame indel prediction (MCC 0.77)
Original episode link: https://basebybase.com/episodes/indellm-indel-siamese-model
Article metadata:
Article title: Leveraging protein language models and a scoring function for indel characterization and transfer learning
Journal: Patterns, 7 (2026) 101425. doi:10.1016/j.patter.2025.101425
DOI: 10.1016/j.patter.2025.101425
Reference: Gracia Carmona O, Leipart V, Amdam GV, Orengo C, Fraternali F. Leveraging protein language models and a scoring function for indel characterization and transfer learning. Patterns. 7 (2026) 101425. https://doi.org/10.1016/j.patter.2025.101425
Lyrics:
Verse 1
Late-night screens unfold the long code, quiet like tide lines
Tiny edits—insertions and deletions—tilt a protein's folded face
We watch how subtle shifts carve shadows and open new rooms
Pre-Chorus
Overlapping windows listen to the breath of sequence
A soft scoring current gathers small probabilities into a compass
Points of resonance light where the shape gives way and signs appear
Chorus
We trace the ripple, read the maps of what a single note removes
From whispered odds the outline clears and a new form finds a voice
Not weighed by length but by the places that wake, the places that move
Verse 2
Separate the new thread from its context, let each fragment speak
Embedding threads untangle, the signal loses its fear and sings
Per-residue lights reveal the rooms where edges fray and mend
Bridge
Probabilities fold like tides, their sums a patient rising swell
A paired listening weave learns from labeled nights to point and choose
Small labeled echoes sharpen the compass, turning doubt to edge
Final Chorus
We trace the ripple, read the maps of what a single note removes
From probability light the outline reappears — clear, whole, awake
Small edits become maps of meaning, guiding hands to where to heal
We rise on that bright proof: quiet tension blooming into hope