Note that the GRCh37/hg19 assembly is not the current reference genome assembly for human. More recent NCBI annotation data may be available in the equivalent track on the GRCh38/hg38 assembly.
This track displays experimentally validated recombination interactions between recombination regions represented in the NCBI RefSeq Functional Elements (RefSeqFE) dataset.
Interaction data was mined from internally tracked recombination partner pairs in the NCBI Gene database. Pairwise interactions were determined and represented in bigInteract file format. The biological region ranges are based on parental 'biological_region' features that may include several underlying recombination or other non-genic functional features. The ranges in this track are derived from a relevant NCBI annotation release as indicated in the 'Data version' field in the top section of this page, or in the file download path in the table schema page.
Interactions in this track are at the biological region level, not per individual feature, and thus this track is best viewed in combination with the RefSeq Functional Element biological regions (FE_biol_regions) track from this track hub. Detailed underlying feature annotation can be viewed in the RefSeq Functional Element features (FE_features) track.
This track is set to 'full' display mode by default. In this mode, the track can be configured to indicate interactions as curves (default), ellipses or rectangles. To view information for each recombination interaction, hover the mouse over the small open circle in the center of each arc to display a label in the format region1:region2_recombination_partners, where region1 is the 5'-most locus symbol (with respect to the start position and plus strand of the chromosome), and region2 is the 3'-most locus symbol. Locus symbols can also be viewed by hovering the mouse over the horizontal lines from which the arcs are derived.
Alternatively, if 'pack' display mode is selected, interactions are displayed in separate rows as thick rectangles for each locus with a thin line connecting them. Locus symbols are displayed next to the thick rectangles. The interaction type label can be viewed by hovering the mouse over anywhere on the line or rectangles. This display mode may be more desirable for viewing regions with dense or complex interactions.
Recombination partners in this track are not represented quantitatively given their diverse derivations from the literature, and thus values for all scores are set to 1.
Each interaction is supported by experimental data in the literature. Supporting publications are available in the bigInteract download file as indicated in the table schema, or may be obtained by using the Table Browser or Data Integrator data explorers, or from NCBI upon request. Please visit this link for information on how to extract data from bigInteract files. To take maximum advantage of experimental evidence and functional data for RefSeq Functional Elements, please explore NCBI's various data access options at this link.
Interaction data was mined and the track was prepared by Dr. Catherine M. Farrell, NCBI/NLM/NIH.
Email: farrelca@ncbi.nlm.nih.gov
Further information is available on the NCBI RefSeq Functional Elements webpage.
Farrell CM, Goldfarb T, Rangwala SH, Astashyn A, Ermolaeva OD, Hem V, Katz KS, Kodali VK, Ludwig F, Wallin CL, Pruitt KD, Murphy TD. RefSeq Functional Elements as experimentally assayed nongenic reference standards and functional interactions in human and mouse. Genome Res. 2022 Jan;32(1):175-188. doi: 10.1101/gr.275819.121. Epub 2021 Dec 7. PMID: 34876495.