Paper Citation Record · LEDGER

Towards scientific discovery with dictionary learning: Extracting biological concepts from microscopy foundation models

As of 11 August 2026, this Paper Citation Record lists 26 of 26 outbound references and 1 inbound Pith citation observation for arXiv:2412.16247.

A citation records a reference. It does not transfer a finding from one paper to another.

pith.paper-citation-record.v1
2412.16247 v3

Coverage vector

measured 26 of 26 reference resolution

Typed states for the displayed outbound observations.

Source: paper_references, paper_reference_links, observed 2026-08-11T11:29:14.996369Z

measured 27 of 27 standing notices

One-hop event checks from named stored sources.

Source: scholarly_work_events, retraction_status_cache, observed 2026-08-11T06:34:44.6726+00:00

measured 1 of 1 inbound itemization

Pith citing papers itemized under the disclosed page cap.

Source: paper_references, paper_reference_links, observed 2026-05-10T18:43:02.162879Z

measured 0 of 1 external citation measurements

A source-named dated measurement, never combined with another source.

Source: arxiv_reference, observed 2026-05-11T00:05:49.323859Z

Reference resolution

26 of 26 outbound references displayed

verified exact2
verified fuzzy9
unresolved13
parse uncertain0
malformed identifier2
metadata mismatch0

External citation measurements

No source-named external measurement is stored.

Outbound references

Observation 81f0cbcf-d406-4af4-ade0-9d9d4066de38 · outbound

This paper cites As observed, the null space component consistently yields the same probing accuracy as the entire token, while the row space component yields significantly lower accuracy.

Towards scientific discovery with dictionary learning: Extracting biological concepts from microscopy foundation models As observed, the null space component consistently yields the same probing accuracy as the entire token, while the row space component yields significantly lower accuracy

Reference 1

Resolution: verified fuzzy; raw_fallback, observed 2026-08-11T11:29:15.344422Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-11T06:34:44.6726+00:00.

Observation 2d888db0-5d58-446f-848f-f9af862b7397 · outbound

This paper cites interpretable.

Towards scientific discovery with dictionary learning: Extracting biological concepts from microscopy foundation models interpretable

Reference 4

Resolution: verified fuzzy; raw_fallback, observed 2026-08-11T11:29:15.297722Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-11T06:34:44.6726+00:00.

Observation 39d7b0a3-3ee1-4ab4-b9ca-a465bb906c26 · outbound

This paper cites MAViL: Masked Audio-Video Learners.

Towards scientific discovery with dictionary learning: Extracting biological concepts from microscopy foundation models MAViL: Masked Audio-Video Learners

Reference 9

Resolution: unresolved; no resolver link, observed 2026-08-11T11:29:14.911386Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

Observation c2c85068-6845-4f40-adb0-1ed45183ced7 · outbound

This paper cites On the Origins of Linear Representations in Large Language Models.

Towards scientific discovery with dictionary learning: Extracting biological concepts from microscopy foundation models On the Origins of Linear Representations in Large Language Models

Reference 10

Resolution: unresolved; no resolver link, observed 2026-08-11T11:29:14.916489Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

Observation 8685ebf8-14e8-4d29-9708-c9a75c71e584 · outbound

This paper cites Madan, S., Henry, T., Dozier, J., Ho, H., Bhandari, N., Sasaki, T., Durand, F., Pfister, H., and Boix, X.

Towards scientific discovery with dictionary learning: Extracting biological concepts from microscopy foundation models Madan, S., Henry, T., Dozier, J., Ho, H., Bhandari, N., Sasaki, T., Durand, F., Pfister, H., and Boix, X

Reference 11

Resolution: verified exact; doi, observed 2026-08-11T11:29:15.036100Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-11T06:34:44.6726+00:00.

Observation 65a598ac-5ff3-4f63-9cf4-e7cb9fcb3ca9 · outbound

This paper cites k-Sparse Autoencoders.

Towards scientific discovery with dictionary learning: Extracting biological concepts from microscopy foundation models k-Sparse Autoencoders

Reference 12

Resolution: unresolved; no resolver link, observed 2026-08-11T11:29:14.928321Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

Observation b2735643-cf66-4380-bb81-5cceed11e911 · outbound

This paper cites Discover-then-Name: Task-Agnostic Concept Bottlenecks via Automated Concept Discovery.

Towards scientific discovery with dictionary learning: Extracting biological concepts from microscopy foundation models Discover-then-Name: Task-Agnostic Concept Bottlenecks via Automated Concept Discovery

Reference 17

Resolution: unresolved; no resolver link, observed 2026-08-11T11:29:14.953313Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

Observation b834b941-a731-48c4-85fe-ec8246217126 · outbound

This paper cites Codebook Features: Sparse and Discrete Interpretability for Neural Networks.

Towards scientific discovery with dictionary learning: Extracting biological concepts from microscopy foundation models Codebook Features: Sparse and Discrete Interpretability for Neural Networks

Reference 18

Resolution: unresolved; no resolver link, observed 2026-08-11T11:29:14.958065Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

Observation e9c18b09-b752-4563-9976-e7787260a708 · outbound

This paper cites D., and Vidal, R.

Towards scientific discovery with dictionary learning: Extracting biological concepts from microscopy foundation models D., and Vidal, R

Reference 19

Resolution: verified fuzzy; raw_fallback, observed 2026-08-11T11:29:15.410731Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-11T06:34:44.6726+00:00.

Observation b8469a04-fd8a-489b-bb4d-d8af79de99cf · outbound

This paper cites an unresolved cited work.

Towards scientific discovery with dictionary learning: Extracting biological concepts from microscopy foundation models Unresolved cited work

Reference 20

Resolution: unresolved; raw_fallback, observed 2026-08-11T11:29:15.395615Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-11T06:34:44.6726+00:00.

Observation dafb5cd6-700f-4601-8444-9a3b85f4da44 · outbound

This paper cites Both blocks are connected via an encoder-decoder projection matrix W : Rde×dd with, in our case, de = 1664(ViT-G model from (Zhai et al., 2022)) and dd =.

Towards scientific discovery with dictionary learning: Extracting biological concepts from microscopy foundation models Both blocks are connected via an encoder-decoder projection matrix W : Rde×dd with, in our case, de = 1664(ViT-G model from (Zhai et al., 2022)) and dd =

Reference 21

Resolution: verified fuzzy; raw_fallback, observed 2026-08-11T11:29:15.379738Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-11T06:34:44.6726+00:00.

Observation ef94df38-d26d-49fa-a708-84485c5de7c8 · outbound

This paper cites # of non-zeros, and log10 learning rate (second and fourth).

Towards scientific discovery with dictionary learning: Extracting biological concepts from microscopy foundation models # of non-zeros, and log10 learning rate (second and fourth)

Reference 24

Resolution: verified fuzzy; raw_fallback, observed 2026-08-11T11:29:15.328814Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-11T06:34:44.6726+00:00.

Observation 7759843a-3cee-421e-8d67-6aaac497e8ae · outbound

This paper cites Ablations In this section we present ablations on type of token, model size, sparsity and learning rate.

Towards scientific discovery with dictionary learning: Extracting biological concepts from microscopy foundation models Ablations In this section we present ablations on type of token, model size, sparsity and learning rate

Reference 25

Resolution: verified fuzzy; raw_fallback, observed 2026-08-11T11:29:15.313071Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-11T06:34:44.6726+00:00.

Observation cd799213-4d29-4cee-b33f-671da985df48 · outbound

This paper cites register.

Towards scientific discovery with dictionary learning: Extracting biological concepts from microscopy foundation models register

Reference 512

Resolution: verified fuzzy; raw_fallback, observed 2026-08-11T11:29:15.361519Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-11T06:34:44.6726+00:00.

Observation 60df42d6-abd6-4de0-9796-b052dab6b994 · outbound

This paper cites Linguistic regularities in continuous space word representations.

Towards scientific discovery with dictionary learning: Extracting biological concepts from microscopy foundation models Linguistic regularities in continuous space word representations

Reference 1993

Resolution: verified fuzzy; raw_fallback, observed 2026-08-11T11:29:15.426266Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-11T06:34:44.6726+00:00.

Observation 7a28f4b4-19c4-43fa-8cc0-1319c5a15829 · outbound

This paper cites The Linear Representation Hypothesis and the Geometry of Large Language Models.

Towards scientific discovery with dictionary learning: Extracting biological concepts from microscopy foundation models The Linear Representation Hypothesis and the Geometry of Large Language Models

Reference 1997

Resolution: unresolved; no resolver link, observed 2026-08-11T11:29:14.943324Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

Observation 9edb8b5f-9959-4710-a3a7-30ce853eaba4 · outbound

This paper cites Scaling and evaluating sparse autoencoders.

Towards scientific discovery with dictionary learning: Extracting biological concepts from microscopy foundation models Scaling and evaluating sparse autoencoders

Reference 1998

Resolution: malformed identifier; no resolver link, observed 2026-08-11T11:29:14.901067Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

Observation 13b5d422-c246-4173-86bb-292b8db9cc34 · outbound

This paper cites MIM-Refiner: A Contrastive Learning Boost from Intermediate Pre-Trained Representations.

Towards scientific discovery with dictionary learning: Extracting biological concepts from microscopy foundation models MIM-Refiner: A Contrastive Learning Boost from Intermediate Pre-Trained Representations

Reference 2006

Resolution: verified exact; local_arxiv, observed 2026-08-11T11:29:15.282343Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-11T06:34:44.6726+00:00.

Observation f353655c-e3c7-4930-833a-33793bfa0ea6 · outbound

This paper cites Emergent Linear Representations in World Models of Self-Supervised Sequence Models.

Towards scientific discovery with dictionary learning: Extracting biological concepts from microscopy foundation models Emergent Linear Representations in World Models of Self-Supervised Sequence Models

Reference 2015

Resolution: unresolved; no resolver link, observed 2026-08-11T11:29:14.938467Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

Observation 3a11f74c-e789-45b4-b24f-5d7c0d1659cb · outbound

This paper cites Vision Transformers Need Registers.

Towards scientific discovery with dictionary learning: Extracting biological concepts from microscopy foundation models Vision Transformers Need Registers

Reference 2016

Resolution: unresolved; no resolver link, observed 2026-08-11T11:29:14.880583Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

Observation 8768e7cb-cea6-4857-9bd4-ec815af0a779 · outbound

This paper cites Toy Models of Superposition.

Towards scientific discovery with dictionary learning: Extracting biological concepts from microscopy foundation models Toy Models of Superposition

Reference 2018

Resolution: unresolved; no resolver link, observed 2026-08-11T11:29:14.885636Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

Observation d4135e80-c3a3-4dea-9e0c-7d6e652feb6f · outbound

This paper cites The Missing Curve Detectors of InceptionV1: Applying Sparse Autoencoders to InceptionV1 Early Vision.

Towards scientific discovery with dictionary learning: Extracting biological concepts from microscopy foundation models The Missing Curve Detectors of InceptionV1: Applying Sparse Autoencoders to InceptionV1 Early Vision

Reference 2019

Resolution: unresolved; no resolver link, observed 2026-08-11T11:29:14.906345Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

Observation f22c1272-38a3-455a-9aec-924a314f0cec · outbound

This paper cites Improving Dictionary Learning with Gated Sparse Autoencoders.

Towards scientific discovery with dictionary learning: Extracting biological concepts from microscopy foundation models Improving Dictionary Learning with Gated Sparse Autoencoders

Reference 2021

Resolution: unresolved; no resolver link, observed 2026-08-11T11:29:14.948541Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

Observation ba6cee27-5674-4620-aefe-ee86224683a3 · outbound

This paper cites M., Kraus, O., Victors, M., Arumugam, L., Vuggu- mudi, K., Urbanik, J., Hansen, K., Celik, S., Cernek, N., Jagannathan, G., et al.

Towards scientific discovery with dictionary learning: Extracting biological concepts from microscopy foundation models M., Kraus, O., Victors, M., Arumugam, L., Vuggu- mudi, K., Urbanik, J., Hansen, K., Celik, S., Cernek, N., Jagannathan, G., et al

Reference 2022

Resolution: verified fuzzy; raw_fallback, observed 2026-08-11T11:29:15.441518Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-11T06:34:44.6726+00:00.

Observation 1052c760-23d3-4661-b152-2d00b615b01d · outbound

This paper cites A Primer on the Inner Workings of Transformer-based Language Models.

Towards scientific discovery with dictionary learning: Extracting biological concepts from microscopy foundation models A Primer on the Inner Workings of Transformer-based Language Models

Reference 2023

Resolution: unresolved; no resolver link, observed 2026-08-11T11:29:14.896147Z

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Unavailable: canonical work link unavailable.

Observation 82c49952-b78d-465d-954c-475dd65ada54 · outbound

This paper cites an unresolved cited work.

Towards scientific discovery with dictionary learning: Extracting biological concepts from microscopy foundation models Unresolved cited work

Reference 2024

Resolution: malformed identifier; no resolver link, observed 2026-08-11T11:29:14.875674Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

Pith citing papers

Observation 681631c6-b373-4395-859a-9eb18dcf66bb · inbound

Learned Dictionaries with Total Variation and Non-Negativity for Single-Cell Microscopy: Convergence Theory and Deterministic Multi-Channel Cell Feature Unification cites this paper.

Learned Dictionaries with Total Variation and Non-Negativity for Single-Cell Microscopy: Convergence Theory and Deterministic Multi-Channel Cell Feature Unification Towards scientific discovery with dictionary learning: Extracting biological concepts from microscopy foundation models

Reference 21

Resolution: verified exact; arxiv_id, observed 2026-05-11T00:05:49.326100Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-11T06:34:44.6726+00:00.