Research
On-device research index

arXiv research

A locally-built, LLM-digested index of recent arXiv papers in quant finance, geometry/topology, and statistical ML — keyword search served straight from SQLite on this machine.

169,181 papers · 148 categories

Trend · papers per month

5.2%10.4%15.6%20.8% · May 202619922001200920182026
48 results for TFBS prediction

Prototype Matching Network (PMN) improves genomic TFBS prediction.

problem Predicting Transcription Factor Binding Sites (TFBSs) with hundreds of TFs as labels.
method Prototype Matching Network (PMN) that learns motif-like features and TF-TF interactions.
result PMN significantly outperforms baselines on a large TFBS dataset.

TFB simplifies Bayesian LLM uncertainty estimation without extra training.

problem Estimating uncertainty in LLM responses remains challenging.
method Training-Free Bayesianization (TFB) that transforms low-rank adapters into Bayesian ones without additional training.
result TFB achieves superior uncertainty estimation and generalization compared to existing methods.

Computational approaches to transcription factor binding site identification have been actively researched for the past decade. Negative examples have long been utilized in de novo motif discovery and have been shown useful in transcription factor binding site search as well. However, understanding of the roles of nega…

2011-04-07abs ↗pdf ↗

Fuzzy prediction sets generalize binary predictions to include elements at varying confidence levels.

problem Binary prediction sets are limited; fuzzy prediction sets offer richer guarantees.
method Generalize prediction sets to fuzzy sets, showing they are e-values with merging properties.
result Optimal e-values lead to optimal fuzzy prediction sets, including optimal conformal prediction.

Paper defines predictive multiplicity and measures its severity in classification problems.

problem Challenges in machine learning due to competing models with conflicting predictions.
method Formal measures and integer programming tools for linear classification problems.
result Real-world datasets may admit competing models with wildly conflicting predictions.

A novel continual prediction model outperforms traditional one-time models in predicting AKI.

problem Optimally predicting AKI before it develops during a hospital stay.
method A novel continual prediction model that predicts AKI every time a patient's AKI-relevant variable changes in the EHR.
result The continual prediction model outperformed traditional one-time models, achieving a higher AUC of 0.724 compared to 0.653.

This paper re-examines conformal e-prediction and its advantages over conformal prediction.

problem The relationship between conformal prediction and conformal e-prediction.
method Systematic re-examination of conformal prediction and conformal e-prediction from a modern perspective.
result Conformal e-prediction has advantages such as ease of designing conditional predictors and guaranteed validity of cross-predictors.

Self-calibrating conformal prediction improves interval efficiency and offers a practical alternative.

problem Improving the reliability and uncertainty quantification of machine learning predictions.
method Combines Venn-Abers calibration and conformal prediction for binary and regression problems.
result Improves interval efficiency through model calibration and offers practical alternatives.

The paper aggregates predictions from multiple undisclosed datasets using conformal prediction.

problem Making valid predictions from multiple non-disclosed datasets without data sharing.
method Each dataset uses a transductive conformal predictor independently, and predictions are aggregated.
result The method produces valid and less variable aggregated predictions.

Study uses deep learning to predict asset prices, finds complex target processes lead to meaningless predictions.

problem Complexity of successful price prediction models hinders understanding.
method Deep learning models for high-frequency price prediction, focusing on volatility and directional prediction.
result Inadequately defined target price process renders predictions meaningless.

The paper emphasizes the importance of joint predictions over marginal predictions for decision-making.

problem The need for accurate joint predictions in decision-making problems.
method The paper analyzes combinatorial decision problems, sequential predictions, and multi-armed bandits, introducing an approximate Thompson sampling algorithm and new regret bounds.
result Accurate joint predictions are essential for good performance in decision-making problems.

Behavior modification improves prediction accuracy by nudging user behavior.

problem Improving prediction accuracy using behavior modification techniques.
method Combining prediction and behavior modification with reinforcement learning algorithms.
result Behavior modification can make predictions more certain but may not generalize.

Proposes feature conformal prediction for broader application in semantic feature spaces.

problem Establishing valid prediction intervals in semantic feature spaces.
method Extends conformal prediction to semantic feature spaces using deep representation learning.
result Feature conformal prediction outperforms regular conformal prediction under mild assumptions.

AutoCP automates the construction of accurate prediction intervals.

problem Creating valid and accurate prediction intervals for machine learning models.
method AutoML framework that optimizes prediction interval length for better accuracy and less conservatism.
result AutoCP significantly outperforms benchmark algorithms in constructing accurate prediction intervals.

ICP improves prediction intervals for continuous outcomes at lower computational cost.

problem Systematic bias in point predictions that undermines their use in decision-making.
method Develops Isotonic Conformal Prediction (ICP) framework to decouple calibration from prediction-set construction.
result SICP and TICP procedures match SC-CP coverage at lower computational cost.

Proposes a method to apply conformal prediction to probabilistic time series forecasting models.

problem Obtaining accurate prediction regions for multi-step time series forecasting with probabilistic models.
method Conformalises conditional normalising flows to generate potentially disjoint prediction regions.
result Improves predictive efficiency in time series forecasting with multimodal distributions.

Optimizes predictions for specific tasks using parametrized decision analysis.

problem Optimizing predictions for specific decision tasks of interest.
method Designs a class of parametrized actions for Bayesian decision analysis.
result Derives efficient and interpretable solutions for various action parametrizations and loss functions.

New measures for prediction validity and consonant plausibility introduced.

problem Challenges in predicting future observations and quantifying prediction uncertainty.
method Introducing Type-2 validity and using consonant plausibility measures and conformal prediction.
result Achieving both Type-1 and Type-2 validity through consonant plausibility measures and conformal prediction.

RFpredInterval package builds prediction intervals for random forests and boosted forests.

problem Quantifying uncertainty in random forest and boosted forest point predictions.
method 16 methods to build prediction intervals with random forests and boosted forests.
result The proposed method outperforms existing methods in building prediction intervals.

FPPI selectively uses predictions to improve inference efficiency.

problem Improving statistical inference with limited labeled data and heterogeneous prediction quality.
method Filtered Prediction-Powered Inference (FPPI) framework.
result FPPI achieves strictly improved asymptotic efficiency compared to existing methods.

COP improves online conformal prediction by incorporating data patterns, leading to tighter prediction sets.

problem Overly conservative prediction sets in online conformal prediction methods when data distribution shifts.
method Conformal Optimistic Prediction (COP) incorporating estimated cumulative distribution function of non-conformity scores.
result COP produces tighter prediction sets with valid coverage guarantees, outperforming other methods.

Time-agnostic predictors predict frames without fixed time intervals.

problem Predicting events in the future or between waypoints is difficult.
method Decouple visual prediction from a rigid notion of time, discovering predictable 'bottleneck' frames.
result Predictions are of higher visual quality and correspond to coherent semantic subgoals.

Proposes a model to update industrial data predictions based on temporal changes.

problem Improving prediction accuracy in industrial data analytics by addressing changing conditions over time.
method Integrates similarity and loss functions to estimate and update prediction models adaptively.
result The data renewal model enhances prediction accuracy by identifying and updating model changes.

Paper improves multi-step traffic flow prediction performance.

problem Predicting multiple time-steps into the future based on finite history.
method Introduces a model for recursive prediction and a data augmentation method for multi-output setting.
result Improves multi-step traffic flow prediction in recursive and multi-output settings.

New method improves predictive systems with better theoretical guarantees.

problem Constructing predictive systems with out-of-sample calibration guarantees.
method Residual Distribution Predictive Systems (RDPs) that nest conformal predictive systems and offer flexibility.
result Empirically, RDPs perform competitively with conformal predictive systems and can be implemented with various regression methods.

Variational Prediction simplifies Bayesian inference without test time costs.

problem Bayesian inference's computational costs and posterior predictive distribution marginalization.
method Variational Prediction learns a variational approximation to the posterior predictive distribution using a variational bound.
result Directly learns a variational approximation to the posterior predictive distribution without test time marginalization costs.

The study examines how hyperparameters affect prediction discrepancies in machine learning models.

problem Prediction inconsistencies across different machine learning models trained on the same dataset.
method Investigation of six models (Elastic Net, Decision Tree, k-NN, SVM, RF, XGBoost) on 21 benchmark datasets, focusing on key hyperparameters.
result Hyperparameter tuning improves model performance but increases prediction discrepancies, especially in Extreme Gradient Boosting.

Long-term lane change prediction model predicts maneuvers with 75% accuracy.

problem Predicting long-term lane changes for safer autonomous driving.
method Introduced three models: logistic regression, MLP, and RNN. Used NGSIM dataset with new labeling scheme.
result Developed model predicts 75% of lane changes with an average advanced time of 8.05 seconds.

Generalizes conformal prediction to multiple learnable parameters for efficient prediction sets.

problem Learning valid and efficient prediction sets with low-capacity function classes.
method Constrained empirical risk minimization (ERM) with gradient-based optimization of differentiable surrogate losses and Lagrangians.
result Achieves approximate valid population coverage and near-optimal efficiency within class.

Predicts EHR features that improve prediction, learning coherent topics.

problem Balancing prediction quality and coherence in EHR topic models.
method Prediction-focused topic model that uses supervisory signal to retain relevant features.
result Prediction-focused topic models learn more coherent topics while maintaining competitive predictions.

Paper discusses optimal CP for second-order predictions.

problem How to incorporate second-order predictions into conformal prediction.
method Introduces Bernoulli prediction sets (BPS) for second-order predictions and applies conformal risk control for compromised validity.
result BPS provides the smallest prediction sets with conditional coverage.