Typed states for the displayed outbound observations.
Source: paper_references, paper_reference_links, observed 2026-08-06T22:47:07.140072Z
Paper Citation Record · LEDGER
inMOTIFin: a lightweight end-to-end simulation software for regulatory sequences
As of 17 August 2026, this Paper Citation Record lists 29 of 29 outbound references and 0 inbound Pith citation observations for arXiv:2506.20769.
A citation records a reference. It does not transfer a finding from one paper to another.
Coverage vector
One-hop event checks from named stored sources.
Source: scholarly_work_events, retraction_status_cache, observed 2026-08-17T06:30:58.91139+00:00
Pith citing papers itemized under the disclosed page cap.
Source: paper_references, paper_reference_links
A source-named dated measurement, never combined with another source.
Source: cited_works
Reference resolution
29 of 29 outbound references displayed
- verified exact0
- verified fuzzy26
- unresolved2
- parse uncertain0
- malformed identifier1
- metadata mismatch0
External citation measurements
No source-named external measurement is stored.
Outbound references
Observation 574eb2f9-88be-44fe-9553-ce43d35e286b · outbound
This paper cites Access to ground truth at unconstrained size makes simulated data as indispensable as experimental data for bioinformatics methods development and benchmarking.
inMOTIFin: a lightweight end-to-end simulation software for regulatory sequences Access to ground truth at unconstrained size makes simulated data as indispensable as experimental data for bioinformatics methods development and benchmarking
Reference 1
- Resolution
- verified fuzzy
- raw_fallback, observed 2026-08-06T22:47:07.616864Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-17T06:30:58.91139+00:00.
Observation 5e211dbf-17ea-44fd-96b2-f4993417beac · outbound
This paper cites Perspective on recent developments and challenges in regulatory and systems genomics.
inMOTIFin: a lightweight end-to-end simulation software for regulatory sequences Perspective on recent developments and challenges in regulatory and systems genomics
Reference 2
- Resolution
- verified fuzzy
- raw_fallback, observed 2026-08-06T22:47:07.606776Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-17T06:30:58.91139+00:00.
Observation 4bc7dcdb-d788-43a3-a0cc-31d3bd6d47a6 · outbound
This paper cites Van Helden, B.
inMOTIFin: a lightweight end-to-end simulation software for regulatory sequences Van Helden, B
Reference 3
- Resolution
- verified fuzzy
- raw_fallback, observed 2026-08-06T22:47:07.596327Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-17T06:30:58.91139+00:00.
Observation 7e8996d1-bcc0-4934-a75c-9ec12c422488 · outbound
This paper cites Identification of transcription factor co-binding patterns with non-negative matrix factorization.
inMOTIFin: a lightweight end-to-end simulation software for regulatory sequences Identification of transcription factor co-binding patterns with non-negative matrix factorization
Reference 4
- Resolution
- verified fuzzy
- raw_fallback, observed 2026-08-06T22:47:07.585223Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-17T06:30:58.91139+00:00.
Observation 0212bbaf-2462-476b-8b10-ec45d1b7f474 · outbound
This paper cites Unlocking gene regulation with sequence-to-function models.
inMOTIFin: a lightweight end-to-end simulation software for regulatory sequences Unlocking gene regulation with sequence-to-function models
Reference 5
- Resolution
- verified fuzzy
- raw_fallback, observed 2026-08-06T22:47:07.554159Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-17T06:30:58.91139+00:00.
Observation 61344f42-454b-464c-9235-0854062b2659 · outbound
This paper cites Assessing computational tools for the discovery of transcription factor binding sites.
inMOTIFin: a lightweight end-to-end simulation software for regulatory sequences Assessing computational tools for the discovery of transcription factor binding sites
Reference 6
- Resolution
- verified fuzzy
- raw_fallback, observed 2026-08-06T22:47:07.521160Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-17T06:30:58.91139+00:00.
Observation 076fc664-eeb5-4082-a61a-508b87a76c4d · outbound
This paper cites Quantifying similarity between motifs.
inMOTIFin: a lightweight end-to-end simulation software for regulatory sequences Quantifying similarity between motifs
Reference 7
- Resolution
- verified fuzzy
- raw_fallback, observed 2026-08-06T22:47:07.486975Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-17T06:30:58.91139+00:00.
Observation 5177cede-9563-4249-b6d8-a610f8a829e3 · outbound
This paper cites Price, and Donald Geman.
inMOTIFin: a lightweight end-to-end simulation software for regulatory sequences Price, and Donald Geman
Reference 8
- Resolution
- verified fuzzy
- raw_fallback, observed 2026-08-06T22:47:07.446940Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-17T06:30:58.91139+00:00.
Observation 4f988c9f-1342-4fdf-988e-16367e8b4591 · outbound
This paper cites Learning Important Features Through Propagating Activation Differences.
inMOTIFin: a lightweight end-to-end simulation software for regulatory sequences Learning Important Features Through Propagating Activation Differences
Reference 9
- Resolution
- unresolved
- no resolver link, observed 2026-08-06T22:47:07.056227Z
Source-reported events for the cited work
Unavailable: canonical work link unavailable.
Observation c227891c-747b-4ca3-8cd4-2c13ce65e406 · outbound
This paper cites Prakash, Avanti Shrikumar, and Anshul Kundaje.
inMOTIFin: a lightweight end-to-end simulation software for regulatory sequences Prakash, Avanti Shrikumar, and Anshul Kundaje
Reference 10
- Resolution
- verified fuzzy
- raw_fallback, observed 2026-08-06T22:47:07.413703Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-17T06:30:58.91139+00:00.
Observation b95590df-062b-4f3c-a047-7fddbc0125d6 · outbound
This paper cites Al Hajj, Johan Pensar, and Geir K.
inMOTIFin: a lightweight end-to-end simulation software for regulatory sequences Al Hajj, Johan Pensar, and Geir K
Reference 11
- Resolution
- verified fuzzy
- raw_fallback, observed 2026-08-06T22:47:07.399851Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-17T06:30:58.91139+00:00.
Observation 37d01824-af6c-4236-b59b-736a50095710 · outbound
This paper cites RSAT 2022: regulatory sequence analysis tools.
inMOTIFin: a lightweight end-to-end simulation software for regulatory sequences RSAT 2022: regulatory sequence analysis tools
Reference 12
- Resolution
- verified fuzzy
- raw_fallback, observed 2026-08-06T22:47:07.389497Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-17T06:30:58.91139+00:00.
Observation c733cade-c886-4d41-9154-304954ba1abd · outbound
This paper cites Absence of a simple code: how transcription factors read the genome.
inMOTIFin: a lightweight end-to-end simulation software for regulatory sequences Absence of a simple code: how transcription factors read the genome
Reference 13
- Resolution
- verified fuzzy
- raw_fallback, observed 2026-08-06T22:47:07.377741Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-17T06:30:58.91139+00:00.
Observation 2718b22f-8348-48a4-b432-f995f189565b · outbound
This paper cites Frith, James Johnson, and Timothy L.
inMOTIFin: a lightweight end-to-end simulation software for regulatory sequences Frith, James Johnson, and Timothy L
Reference 14
- Resolution
- verified fuzzy
- raw_fallback, observed 2026-08-06T22:47:07.365852Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-17T06:30:58.91139+00:00.
Observation 594a6eca-b185-4fb0-aee7-11baca8c50e1 · outbound
This paper cites A review of deep learning applications in human genomics using next-generation sequencing data.
inMOTIFin: a lightweight end-to-end simulation software for regulatory sequences A review of deep learning applications in human genomics using next-generation sequencing data
Reference 15
- Resolution
- verified fuzzy
- raw_fallback, observed 2026-08-06T22:47:07.353550Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-17T06:30:58.91139+00:00.
Observation 5571e51a-10f2-44b3-9946-0ac824b7b9b8 · outbound
This paper cites Predicting gene expression from DNA sequence using deep learning models.
inMOTIFin: a lightweight end-to-end simulation software for regulatory sequences Predicting gene expression from DNA sequence using deep learning models
Reference 16
- Resolution
- verified fuzzy
- raw_fallback, observed 2026-08-06T22:47:07.339466Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-17T06:30:58.91139+00:00.
Observation c5c3a0ef-30e8-4e80-830f-af527d3787f0 · outbound
This paper cites Exploring explainability and transparency in deep neural networks: A comparative approach.
inMOTIFin: a lightweight end-to-end simulation software for regulatory sequences Exploring explainability and transparency in deep neural networks: A comparative approach
Reference 17
- Resolution
- verified fuzzy
- raw_fallback, observed 2026-08-06T22:47:07.328031Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-17T06:30:58.91139+00:00.
Observation 214f5587-b0c7-41c6-b0eb-a37e915977c4 · outbound
This paper cites Perturbation-based methods for explaining deep neural networks: A survey.
inMOTIFin: a lightweight end-to-end simulation software for regulatory sequences Perturbation-based methods for explaining deep neural networks: A survey
Reference 18
- Resolution
- verified fuzzy
- raw_fallback, observed 2026-08-06T22:47:07.316902Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-17T06:30:58.91139+00:00.
Observation 17735df8-ef7e-4fc9-9f75-044b8e40e178 · outbound
This paper cites tangermeme: Tutorial a4: Seqlets.
inMOTIFin: a lightweight end-to-end simulation software for regulatory sequences tangermeme: Tutorial a4: Seqlets
Reference 19
- Resolution
- verified fuzzy
- raw_fallback, observed 2026-08-06T22:47:07.305457Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-17T06:30:58.91139+00:00.
Observation f708c964-c753-4140-b7ab-7417ad041e41 · outbound
This paper cites Ishak, James Johnson, Nicolas J.
inMOTIFin: a lightweight end-to-end simulation software for regulatory sequences Ishak, James Johnson, Nicolas J
Reference 20
- Resolution
- verified fuzzy
- raw_fallback, observed 2026-08-06T22:47:07.292871Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-17T06:30:58.91139+00:00.
Observation e20ac252-c608-498f-9ff7-0224a8174572 · outbound
This paper cites Beyond authorship: attribution, contribution, collaboration, and credit.
inMOTIFin: a lightweight end-to-end simulation software for regulatory sequences Beyond authorship: attribution, contribution, collaboration, and credit
Reference 21
- Resolution
- verified fuzzy
- raw_fallback, observed 2026-08-06T22:47:07.280297Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-17T06:30:58.91139+00:00.
Observation d79d65c6-9da9-4f8f-885d-e87c4c3e7ca8 · outbound
This paper cites write newline.
inMOTIFin: a lightweight end-to-end simulation software for regulatory sequences write newline
Reference 22
- Resolution
- malformed identifier
- no resolver link, observed 2026-08-06T22:47:07.108710Z
Source-reported events for the cited work
Unavailable: canonical work link unavailable.
Observation f85da5e2-1407-4b02-9532-acb1c5dbca52 · outbound
This paper cites JASPAR 2024: 20th anniversary of the open-access database of transcription factor binding profiles.
inMOTIFin: a lightweight end-to-end simulation software for regulatory sequences JASPAR 2024: 20th anniversary of the open-access database of transcription factor binding profiles
Reference 23
- Resolution
- verified fuzzy
- raw_fallback, observed 2026-08-06T22:47:07.260442Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-17T06:30:58.91139+00:00.
Observation e7004645-8192-4ae0-9027-1b9f9132c296 · outbound
This paper cites pyJASPAR : a Pythonic interface to JASPAR transcription factor motifs, February 2021.
inMOTIFin: a lightweight end-to-end simulation software for regulatory sequences pyJASPAR : a Pythonic interface to JASPAR transcription factor motifs, February 2021
Reference 24
- Resolution
- verified fuzzy
- raw_fallback, observed 2026-08-06T22:47:07.247137Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-17T06:30:58.91139+00:00.
Observation ca32834c-ade7-46ab-ad2b-2856fa0c93b9 · outbound
This paper cites universalmotif: An R package for biological motifanalysis.
inMOTIFin: a lightweight end-to-end simulation software for regulatory sequences universalmotif: An R package for biological motifanalysis
Reference 25
- Resolution
- verified fuzzy
- raw_fallback, observed 2026-08-06T22:47:07.234911Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-17T06:30:58.91139+00:00.
Observation 1cb67d13-a3e6-4ab7-a86e-6557f0e2e344 · outbound
This paper cites Base-resolution models of transcription-factor binding reveal soft motif syntax.
inMOTIFin: a lightweight end-to-end simulation software for regulatory sequences Base-resolution models of transcription-factor binding reveal soft motif syntax
Reference 26
- Resolution
- verified fuzzy
- raw_fallback, observed 2026-08-06T22:47:07.221354Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-17T06:30:58.91139+00:00.
Observation b7c0f3b5-9d39-4a93-bb57-d9e4db242910 · outbound
This paper cites rMotifGen : random motif generator for DNA and protein sequences.
inMOTIFin: a lightweight end-to-end simulation software for regulatory sequences rMotifGen : random motif generator for DNA and protein sequences
Reference 27
- Resolution
- verified fuzzy
- raw_fallback, observed 2026-08-06T22:47:07.209996Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-17T06:30:58.91139+00:00.
Observation 91081c87-1978-45b4-9b04-3d8d97594550 · outbound
This paper cites Intervene: a tool for intersection and visualization of multiple gene or genomic region sets.
inMOTIFin: a lightweight end-to-end simulation software for regulatory sequences Intervene: a tool for intersection and visualization of multiple gene or genomic region sets
Reference 28
- Resolution
- verified fuzzy
- raw_fallback, observed 2026-08-06T22:47:07.197423Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-17T06:30:58.91139+00:00.
Observation ab42c167-3b3e-42b8-8276-4e84827c9eef · outbound
This paper cites A Unified Approach to Interpreting Model Predictions.
inMOTIFin: a lightweight end-to-end simulation software for regulatory sequences A Unified Approach to Interpreting Model Predictions
Reference 29
- Resolution
- unresolved
- no resolver link, observed 2026-08-06T22:47:07.140072Z
Source-reported events for the cited work
Unavailable: canonical work link unavailable.
Pith citing papers
No inbound Pith citation observations are available.