Evidence map›Paper›PMID 37873004›Full record

ArticleArXiv2024

PepMLM: Target Sequence-Conditioned Generation of Therapeutic Peptide Binders via Span Masked Language Modeling.

Tianlai Chen, Madeleine Dumas, Rio Watson, Sophia Vincoff, Christina Peng, Lin Zhao, Lauren Hong, Sarah Pertsemlidis, Mayumi Shaepers-Cheu, Tian Zi Wang and 10 more

Abstract readPreprint
PubMed Full text at PMC
In one paragraph

Article in ArXiv, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

0numbers the graph read from it
0cells of the map it votes in
0citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

0 citing papers in PubMed.

No citing paper in PubMed yet.

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

20 authors.

Tianlai ChenDepartment of Biomedical Engineering, Duke University.
Madeleine DumasDepartment of Microbiology and Immunology, College of Veterinary Medicine, Cornell University.
Rio WatsonDepartment of Biomedical Engineering, Duke University.
Sophia VincoffDepartment of Biomedical Engineering, Duke University.
Christina PengDepartment of Biochemistry and Biomedical Sciences, McMaster University.
Lin ZhaoDepartment of Biomedical Engineering, Duke University.
Lauren HongDepartment of Biomedical Engineering, Duke University.
Sarah PertsemlidisDepartment of Biomedical Engineering, Duke University.
Mayumi Shaepers-CheuDepartment of Microbiology and Immunology, College of Veterinary Medicine, Cornell University.
Tian Zi WangDepartment of Biomedical Engineering, Duke University.
Divya SrijayDepartment of Biomedical Engineering, Duke University.
Connor MonticelloDepartment of Biochemistry and Biomedical Sciences, McMaster University.
Pranay VureDepartment of Biomedical Engineering, Duke University.
Rishab PulugurtaDepartment of Biomedical Engineering, Duke University.
Kseniia KholinaDepartment of Biomedical Engineering, Duke University.
Shrey GoelDepartment of Biomedical Engineering, Duke University.
Matthew P DeLisaMeinig School of Biomedical Engineering, Cornell University, Ithaca, NY, USA.
Ray TruantDepartment of Biochemistry and Biomedical Sciences, McMaster University.
Hector C AguilarDepartment of Microbiology and Immunology, College of Veterinary Medicine, Cornell University.
Pranam ChatterjeeDepartment of Biomedical Engineering, Duke University.

Funding

Screening for Cys-Reactive Ligands to Target PAX3-FOXO1U54CA231630 · NCI · DUKE UNIVERSITY · PI LINARDIC, CORINNE MARY · 2019 to 2023
$6.5M
Mechanisms of Nipah virus fusion and entryR01AI109022 · NIAID · WASHINGTON STATE UNIVERSITY · PI AGUILAR-CARRENO, HECTOR · 2014 to 2024
$4.3M
Programmable peptide-guided protein degradationR21CA278468 · NCI · DUKE UNIVERSITY · PI CHATTERJEE, PRANAM · 2023 to 2023
$388k
NCI NIH HHS R21 CA278468NCI NIH HHS U54 CA231630NIAID NIH HHS R01 AI109022
6 · The paper itself

Abstract

Target proteins that lack accessible binding pockets and conformational stability have posed increasing challenges for drug development. Induced proximity strategies, such as PROTACs and molecular glues, have thus gained attention as pharmacological alternatives, but still require small molecule docking at binding pockets for targeted protein degradation. The computational design of protein-based binders presents unique opportunities to access "undruggable" targets, but have often relied on stable 3D structures or structure-influenced latent spaces for effective binder generation. In this work, we introduce

Identifiers

PMID37873004
PMCPMC10593082

What OpenQuestion holds

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Registered trials

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.