Source

Abstract: Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes (phastCons)

Europe PMC core record MED/16024819 (title and abstract), Genome Research 2005 · Peer-reviewed

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1 method
1 evidence claim

Claims

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phastCons: description: Description Conservation score from a two-state phylogenetic hidden Markov model fitted to a multiple alignment by maximum likelihood, from which conserved elements are predicted. (qa-descriptions-20261011-d-source-phastcons: abstractText)

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Methods (1)

phastCons

Evidence

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Evidence table

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Trace each statement to its source and review. A context-only reference supports the record generally; it does not verify an individual field. Source checking does not reproduce an experiment.

One row per statement and cited source. Multiple citations are not independent evaluations. Shared locators are labelled explicitly.

26 evidence rows matching the loaded filters

Claims, original sources and review scope · Release 2026-10-22-1b7cf027e4f6
Property and statement	Original source and location	Review and provenance
attributes.artifact_sha256 83aff0f66231f8dcd1e49a1308884a66a800e95e6529ee7d5d3df8b3d9280471 Source metadata	Abstract: Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes (phastCons) Original source ↗ No field-specific location recorded Version: Europe PMC core record MED/16024819 (title and abstract), Genome Research 2005 Retrieved: 2026-10-11T01:30:45Z	catalogued No individual claim review recorded Audit details Field: `attributes.artifact_sha256` Source artifact SHA-256: `83aff0f66231f8dcd1e49a1308884a66a800e95e6529ee7d5d3df8b3d9280471` Hash scope: SHA-256 of one retrieval of a Europe PMC REST search response. These responses are not byte-stable (a later retrieval can differ in JSON key order); the title and abstractText fields are the evidence. Inspected artifact
Artifact url https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=DOI%3A%2210.1101/gr.3715005%22&format=json&resultType=core Source metadata	Abstract: Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes (phastCons) Original source ↗ No field-specific location recorded Version: Europe PMC core record MED/16024819 (title and abstract), Genome Research 2005 Retrieved: 2026-10-11T01:30:45Z	catalogued No individual claim review recorded Audit details Field: `attributes.artifact_url` Source artifact SHA-256: `83aff0f66231f8dcd1e49a1308884a66a800e95e6529ee7d5d3df8b3d9280471` Hash scope: SHA-256 of one retrieval of a Europe PMC REST search response. These responses are not byte-stable (a later retrieval can differ in JSON key order); the title and abstractText fields are the evidence. Inspected artifact
Hash scope SHA-256 of one retrieval of a Europe PMC REST search response. These responses are not byte-stable (a later retrieval can differ in JSON key order); the title and abstractText fields are the evidence. Source metadata	Abstract: Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes (phastCons) Original source ↗ No field-specific location recorded Version: Europe PMC core record MED/16024819 (title and abstract), Genome Research 2005 Retrieved: 2026-10-11T01:30:45Z	catalogued No individual claim review recorded Audit details Field: `attributes.hash_scope` Source artifact SHA-256: `83aff0f66231f8dcd1e49a1308884a66a800e95e6529ee7d5d3df8b3d9280471` Hash scope: SHA-256 of one retrieval of a Europe PMC REST search response. These responses are not byte-stable (a later retrieval can differ in JSON key order); the title and abstractText fields are the evidence. Inspected artifact
Media type application/json Source metadata	Abstract: Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes (phastCons) Original source ↗ No field-specific location recorded Version: Europe PMC core record MED/16024819 (title and abstract), Genome Research 2005 Retrieved: 2026-10-11T01:30:45Z	catalogued No individual claim review recorded Audit details Field: `attributes.media_type` Source artifact SHA-256: `83aff0f66231f8dcd1e49a1308884a66a800e95e6529ee7d5d3df8b3d9280471` Hash scope: SHA-256 of one retrieval of a Europe PMC REST search response. These responses are not byte-stable (a later retrieval can differ in JSON key order); the title and abstractText fields are the evidence. Inspected artifact
Missing metadata: licence: note The retrieved record gives no licence Source metadata	Abstract: Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes (phastCons) Original source ↗ No field-specific location recorded Version: Europe PMC core record MED/16024819 (title and abstract), Genome Research 2005 Retrieved: 2026-10-11T01:30:45Z	catalogued No individual claim review recorded Audit details Field: `attributes.missing_metadata.licence.note` Source artifact SHA-256: `83aff0f66231f8dcd1e49a1308884a66a800e95e6529ee7d5d3df8b3d9280471` Hash scope: SHA-256 of one retrieval of a Europe PMC REST search response. These responses are not byte-stable (a later retrieval can differ in JSON key order); the title and abstractText fields are the evidence. Inspected artifact
Missing metadata: licence: reason unreported Source metadata	Abstract: Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes (phastCons) Original source ↗ No field-specific location recorded Version: Europe PMC core record MED/16024819 (title and abstract), Genome Research 2005 Retrieved: 2026-10-11T01:30:45Z	catalogued No individual claim review recorded Audit details Field: `attributes.missing_metadata.licence.reason` Source artifact SHA-256: `83aff0f66231f8dcd1e49a1308884a66a800e95e6529ee7d5d3df8b3d9280471` Hash scope: SHA-256 of one retrieval of a Europe PMC REST search response. These responses are not byte-stable (a later retrieval can differ in JSON key order); the title and abstractText fields are the evidence. Inspected artifact
Publication status peer_reviewed Source metadata	Abstract: Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes (phastCons) Original source ↗ No field-specific location recorded Version: Europe PMC core record MED/16024819 (title and abstract), Genome Research 2005 Retrieved: 2026-10-11T01:30:45Z	catalogued No individual claim review recorded Audit details Field: `attributes.publication_status` Source artifact SHA-256: `83aff0f66231f8dcd1e49a1308884a66a800e95e6529ee7d5d3df8b3d9280471` Hash scope: SHA-256 of one retrieval of a Europe PMC REST search response. These responses are not byte-stable (a later retrieval can differ in JSON key order); the title and abstractText fields are the evidence. Inspected artifact
Retrieved at 2026-10-11T01:30:45Z Source metadata	Abstract: Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes (phastCons) Original source ↗ No field-specific location recorded Version: Europe PMC core record MED/16024819 (title and abstract), Genome Research 2005 Retrieved: 2026-10-11T01:30:45Z	catalogued No individual claim review recorded Audit details Field: `attributes.retrieved_at` Source artifact SHA-256: `83aff0f66231f8dcd1e49a1308884a66a800e95e6529ee7d5d3df8b3d9280471` Hash scope: SHA-256 of one retrieval of a Europe PMC REST search response. These responses are not byte-stable (a later retrieval can differ in JSON key order); the title and abstractText fields are the evidence. Inspected artifact
Review: date 2026-10-11 Source metadata	Abstract: Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes (phastCons) Original source ↗ No field-specific location recorded Version: Europe PMC core record MED/16024819 (title and abstract), Genome Research 2005 Retrieved: 2026-10-11T01:30:45Z	catalogued No individual claim review recorded Audit details Field: `attributes.review.date` Source artifact SHA-256: `83aff0f66231f8dcd1e49a1308884a66a800e95e6529ee7d5d3df8b3d9280471` Hash scope: SHA-256 of one retrieval of a Europe PMC REST search response. These responses are not byte-stable (a later retrieval can differ in JSON key order); the title and abstractText fields are the evidence. Inspected artifact
Review: method note Compared the store diff with origin/main, read each new description against its cited source passage and checked the licence of each new source record. Source metadata	Abstract: Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes (phastCons) Original source ↗ No field-specific location recorded Version: Europe PMC core record MED/16024819 (title and abstract), Genome Research 2005 Retrieved: 2026-10-11T01:30:45Z	catalogued No individual claim review recorded Audit details Field: `attributes.review.method_note` Source artifact SHA-256: `83aff0f66231f8dcd1e49a1308884a66a800e95e6529ee7d5d3df8b3d9280471` Hash scope: SHA-256 of one retrieval of a Europe PMC REST search response. These responses are not byte-stable (a later retrieval can differ in JSON key order); the title and abstractText fields are the evidence. Inspected artifact

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Sources and history

Release 2026-10-22-1b7cf027e4f6 · Record review: source checked

Source text retrieved and hashed for the issue #88 category-only description fix.

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Technical metadata and extraction receipts

Stable ID: qa-descriptions-20261011-d-source-phastcons

url: https://doi.org/10.1101/gr.3715005
artifact url: https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=DOI%3A%2210.1101/gr.3715005%22&format=json&resultType=core
version: Europe PMC core record MED/16024819 (title and abstract), Genome Research 2005
retrieved at: 2026-10-11T01:30:45Z
artifact sha256: 83aff0f66231f8dcd1e49a1308884a66a800e95e6529ee7d5d3df8b3d9280471
publication status: peer_reviewed
media type: application/json
source locator: abstractText
hash scope: SHA-256 of one retrieval of a Europe PMC REST search response. These responses are not byte-stable (a later retrieval can differ in JSON key order); the title and abstractText fields are the evidence.
missing metadata: licence: reason: unreported; note: The retrieved record gives no licence
review: method: automated-source-review; ai-assisted-source-review; reviewer: claude; reviewer note: Extractor: Claude integrator agent for issue #88. Reviewer: a separate Claude review agent, independent of the extractor; no human review claimed.; date: 2026-10-11; method note: Compared the store diff with origin/main, read each new description against its cited source passage and checked the licence of each new source record.; note: Approved. Checked the 16 Pancotti-derived descriptions word for word against PMC8921618 section 2.2, ESM therm, RaSP and ELASPIC-2 against Chu 2024, ThermoMPNN against Dieckhaus 2024, and ABYSSAL and phyloP against their abstracts; all match. Licences on the new sources are supported by Europe PMC, the PMC XML and Crossref.; receipt: data/omics/qa-descriptions-20261011-d/review.json; retrieval url: https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=DOI%3A%2210.1101/gr.3715005%22&format=json&resultType=core

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