Transcriptional regulatory code of a eukaryotic genome
Transcriptional regulatory code of a eukaryotic genome is a dataset published in Nature (2004). On theSindex it has a DataRank of 18.1, placing it in the top 8.1% of the data-sharing corpus. It has been cited 2,183 times, with 188 citing works in its 1-hop citation network. Its calibrated FAIR score is 31/100.
Abstract
DNA-binding transcriptional regulators interpret the genome's regulatory code by binding to specific sequences to induce or repress gene expression. Comparative genomics has recently been used to identify potential cis-regulatory sequences within the yeast genome on the basis of phylogenetic conservation, but this information alone does not reveal if or when transcriptional regulators occupy these binding sites. We have constructed an initial map of yeast's transcriptional regulatory code by identifying the sequence elements that are bound by regulators under various conditions and that are conserved among Saccharomyces species. The organization of regulatory elements in promoters and the environment-dependent use of these elements by regulators are discussed. We find that environment-specific use of regulatory elements predicts mechanistic models for the function of a large population of yeast's transcriptional regulators.
›Data sources & pipeline
FAIR Checklist
Context only (not used in score)- Has DOI
- Open Access
- Dataset classification
FAIR checklist signals are shown for context only and do not affect DataRank scoring.
Calibrated FAIR score — a parallel quality metric, independent of the DataRank citation score. See the full evaluation →
DataRank Breakdown
Base Score Contribution
1.2
From this paper's citation signal
Citation Network Contribution
16.9
From 188 citing papers with measurable signal
Top 5 citers driving the network score
Ranked by citation count — the same ordering the engine uses when summing log1p(Cq) over citers.
- Initial sequencing and comparative analysis of the mouse genomeNature20027,236 citationsDataRank 16.2Top 10%
- Genetic regulatory mechanisms in the synthesis of proteinsJournal of Molecular Biology19616,563 citationsDataRank 1.3
- Sequencing and comparison of yeast species to identify genes and regulatory elementsNature20031,791 citationsDataRank 19.3Top 6%
- Wisdom of crowds for robust gene network inferenceNature Methods20121,765 citationsDataRank 1.1
- A genomic code for nucleosome positioningNature20061,524 citationsDataRank 1.1
Why this DataRank?
DataRank blends this paper's own citation count with the influence of the papers that cite it. Here, roughly 6% comes from its base citations and 94% from the citation network (188 citing papers contributed measurable signal).
- Base score B(p)
- log1p(citation_count) — grows sub-linearly, so a paper with 1,000 citations is not 10× a paper with 100.
- Network N(p)
- Σ over citers of log1p(Cq) ÷ max(outdegreeq, 1). Being cited by a highly-cited paper with few references counts most.
- Damping factor d = 0.85
- DataRank = (1−d)·B(p) + d·N(p) — the two cards above are each already multiplied by their share.
- Self-citations excluded
- Citers sharing any OpenAlex author ID with this paper are filtered out before the network sum.
Citers are pulled from OpenAlex sorted by cited_by_count:descand capped per paper, so when the cap binds we keep the highest-signal references and the score is reproducible across reruns.
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