Release Notes
Track what's new, improved, and updated across each release.
r3.2026.2
25 June 2026
June 2026 Release
Public API Access, 240 Mammal Conservation Simplex + Alignment, and sitewide improvements
API access
All SCREEN data is publicly available for download at screen.wenglab.org/downloads and can also be accessed through our API. We are providing authorized access to the API, which requires an API key for programmatic use. Please sign in to the API Console console.wenglab.org to generate your API key. API key generation and usage instructions are available in the documentation console.wenglab.org/docs/getting-started/auth
240 Mammal Conservation Simplex and Sequence Alignment
Conservation Simplex
The Conservation Simplex summarizes the evolutionary conservation profile of the selected human cCRE using a multiple genome alignment of human and 240 other placental mammals. Heatmaps show the distribution of cCREs according to two alignment-coverage metrics: N₁, the number of mammalian genomes with high alignment coverage, and N₂, the number with low alignment coverage. Background heatmaps are shown for all cCREs and for cCREs in the same class as the selected element, allowing users to compare the selected cCRE with genome-wide and class-specific conservation patterns.
240 Mammal Sequence Alignment
In the 240 mammals alignment view, the right panel displays the aligned sequences of 240 placental mammalian genomes relative to the human reference sequence for the selected cCRE. The alignment is shown in an interactive, user-filterable plot. An accompanying interactive phylogenetic tree (left panel) shows the evolutionary relationships among the species, with controls to highlight species by their percentage of aligned positions within the human cCRE.
Other Improvements
Users can now search by gene alias in addition to gene name.
Individual cCRE-Gene link files available rather than grouped together in .zip files.
When biosample-specific z-scores are shown, a biosample-specific classification for the cCRE is now provided.
Distance used for cCRE to TSS has been standardized across the site to use the middle of the cCRE as the anchor, with an optional override to use closest point instead. This was done to match the distance used for cCRE classification.
Gene Entity's “Nearby cCREs” table now allows filtering by an arbitrary window around each TSS (+/- 100kb) instead of only by distance magnitude.
Gene Entity's “Nearby cCREs” table now supports the “Gene is 1 of 3 closest” option in mm10.
Download cCREs in Genomic Region now provides a cCRE class filter.
r3.2026.1
30 April 2026
April 2026 Release
ChIP-seq peaks, PhastCons scores, CpG coverage, and promoter cCREs
Features, Updates, Status
The transcription factor (TF) motifs tab for cCREs, accessible via the More icon in the sidebar, now includes a table of representative TF ChIP-seq peaks overlapping each cCRE. This feature enables users to identify TFs binding at a given cCRE, examine individual ChIP-seq peak locations, and view corresponding TF motif logos and motif coordinates when motif sites are present. In addition, a new genome browser track, accessible via the Genome Browser icon, displays representative ChIP-seq peaks, with motif sites within peaks highlighted as green boxes.
Users can now select and view whole-genome bisulfite sequencing (WGBS) tracks for selected ENCODE human biosamples in the genome browser, with visualization limited to CpG methylation.
Users can now search by gene ID (e.g., “ENSG…”). Searches using full cCRE accessions are now consistently faster, addressing prior latency issues.
SCREEN 2025
2025
Visualization-focused release with entity dedicated pages
The SCREEN 2025 release offered more dedicated entity pages, as well as new entity type Genome Wide Associated Study (GWAS). This release also incuded brand new visualization tools such as gene expression plots for genes and z-score plots for ccres. Genome broswser updated to be entity focused
Brand new visualization tools such as gene expression plots for genes and z-score plots for ccres
SCREEN 2024
2024
Legacy release supporting cCRE Registry Version 4
SCREEN 2020
2020
Legacy releases supporting cCRE Registry Versions 2 and 3
Highlights
The SCREEN 2020 release supported cCRE Registry Versions 2 and 3, providing users with access to new data types and enhanced visualization tools. The UI also allowed for users to search for elements in the form of a gene name or alias, a SNP rsID, a cCRE accession, or a genomic region
