benchmark · task

E. coli sigma70 promoter prediction

This paper-specific evaluation tests E. coli sigma70 promoter prediction using Independent E. coli sigma70 test dataset.

2 evaluations · 2 metric rows

At a glance

Explanatory profile: limited source coverage · Automated source review, 2026-09-16. This does not change the review status of its results.

Data, procedure and scoring
Property	Description and evidence
Record type	Paper-specific task; protocol incompletely extractedTSSNote-CyaPromBERT: Development of an integrated platform for highly accurate promoter prediction and visualization of Synechococcus sp. and Synechocystis sp. through a state-of-the-art natural language processing model BERT · TABLE 3, Eco70PromBERT (BERT-base + 1bp tokenizer) row, F1 score Promoter column; TABLE 3, iPro70-FMWin row, F1 score Promoter column
Inputs	Independent E. coli sigma70 test datasetTSSNote-CyaPromBERT: Development of an integrated platform for highly accurate promoter prediction and visualization of Synechococcus sp. and Synechocystis sp. through a state-of-the-art natural language processing model BERT · TABLE 3, Eco70PromBERT (BERT-base + 1bp tokenizer) row, F1 score Promoter column; TABLE 3, iPro70-FMWin row, F1 score Promoter column
Assessment	Promoter-class F1TSSNote-CyaPromBERT: Development of an integrated platform for highly accurate promoter prediction and visualization of Synechococcus sp. and Synechocystis sp. through a state-of-the-art natural language processing model BERT · TABLE 3, Eco70PromBERT (BERT-base + 1bp tokenizer) row, F1 score Promoter column; TABLE 3, iPro70-FMWin row, F1 score Promoter column
Recorded split or evaluation setting	independent testTSSNote-CyaPromBERT: Development of an integrated platform for highly accurate promoter prediction and visualization of Synechococcus sp. and Synechocystis sp. through a state-of-the-art natural language processing model BERT · TABLE 3, Eco70PromBERT (BERT-base + 1bp tokenizer) row, F1 score Promoter column; TABLE 3, iPro70-FMWin row, F1 score Promoter column
Datasets	Not extracted or verified for this record.
Organisms	Not extracted or verified for this record.
Assays	Not extracted or verified for this record.
Adaptation	Not extracted or verified for this record.
Baselines	Not extracted or verified for this record.

How it works

Reported evaluation outline

Outline of the existing paper extraction. Split membership, fitting details and scorer implementation remain incompletely reviewed.

Read the diagram as text

Independent E. coli sigma70 test dataset
Recorded fitting or scoring procedure
Assess Promoter-class F1

TSSNote-CyaPromBERT: Development of an integrated platform for highly accurate promoter prediction and visualization of Synechococcus sp. and Synechocystis sp. through a state-of-the-art natural language processing model BERT · TABLE 3, Eco70PromBERT (BERT-base + 1bp tokenizer) row, F1 score Promoter column; TABLE 3, iPro70-FMWin row, F1 score Promoter column

Evaluation context

The existing paper extraction describes: BERT-base with 1bp tokenizer; 110 promoters and 108 non-promoters.; Compared on the same independent test dataset; 110 promoters and 108 non-promoters. This description is retained with the exact evaluation records; it is not a new protocol reconstruction.

Tested models and results

Release 2026-09-16-d74d282221a9 · 2 evaluations · 2 metric rows. Different protocols are not a single leaderboard.

Evaluated configurationMetricEvidence origin

Results grouped by the exact reported evaluation
Metric and finding	Coverage and uncertainty	Evidence
Eco70PromBERT: E. coli sigma70 promoter prediction Model: Eco70PromBERT · Benchmark: E. coli sigma70 promoter prediction · Dataset: Independent E. coli sigma70 test dataset BERT-base with 1bp tokenizer; 110 promoters and 108 non-promoters. Author-reported evaluation · Evaluation metadata: needs review
0.91 Promoter-class F1 Unit: unitless · Direction: unknown	Uncertainty: not reported in legacy extract Scored: Not reported · Eligible: Not reported	source checkedTSSNote-CyaPromBERT: Development of an integrated platform for highly accurate promoter prediction and visualization of Synechococcus sp. and Synechocystis sp. through a state-of-the-art natural language processing model BERT · TABLE 3, Eco70PromBERT (BERT-base + 1bp tokenizer) row, F1 score Promoter column Source checking is not independent reproduction.
iPro70-FMWin: E. coli sigma70 promoter prediction Model: iPro70-FMWin · Benchmark: E. coli sigma70 promoter prediction · Dataset: Independent E. coli sigma70 test dataset Compared on the same independent test dataset; 110 promoters and 108 non-promoters. Independent external evaluation · Evaluation metadata: needs review
0.90 Promoter-class F1 Unit: unitless · Direction: unknown	Uncertainty: not reported in legacy extract Scored: Not reported · Eligible: Not reported	source checkedTSSNote-CyaPromBERT: Development of an integrated platform for highly accurate promoter prediction and visualization of Synechococcus sp. and Synechocystis sp. through a state-of-the-art natural language processing model BERT · TABLE 3, iPro70-FMWin row, F1 score Promoter column Source checking is not independent reproduction.

Strengths and limitations

Strengths and considerations

The linked evaluation identifies the paper-specific dataset and assessment rather than treating the task name as a universal benchmark.TSSNote-CyaPromBERT: Development of an integrated platform for highly accurate promoter prediction and visualization of Synechococcus sp. and Synechocystis sp. through a state-of-the-art natural language processing model BERT · TABLE 3, Eco70PromBERT (BERT-base + 1bp tokenizer) row, F1 score Promoter column; TABLE 3, iPro70-FMWin row, F1 score Promoter column

Limitations and conditions

The numerical table check does not establish the full data-processing, fitting or leakage-control protocol.TSSNote-CyaPromBERT: Development of an integrated platform for highly accurate promoter prediction and visualization of Synechococcus sp. and Synechocystis sp. through a state-of-the-art natural language processing model BERT · TABLE 3, Eco70PromBERT (BERT-base + 1bp tokenizer) row, F1 score Promoter column; TABLE 3, iPro70-FMWin row, F1 score Promoter column

Profile review details

Catalogue extraction inspected; protocol claims remain limited to the cited evidence. Missing details are not presumed absent from the original paper.

Stable record: reported-task-e5c34f686ac403

Sources and history

Release 2026-09-16-d74d282221a9 · Record review: needs review

TSSNote-CyaPromBERT: Development of an integrated platform for highly accurate promoter prediction and visualization of Synechococcus sp. and Synechocystis sp. through a state-of-the-art natural language processing model BERT · Original source · version of record

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Technical metadata and extraction receipts

Stable ID: reported-task-e5c34f686ac403

areas: microbes-communities
tasks: E. coli sigma70 promoter prediction
entity level: task
version: Not reported
task: E. coli sigma70 promoter prediction
scope note: Paper-specific evaluation task; protocol completeness requires further extraction.
missing metadata: protocol version: not_reported_in_legacy_extract

Related records

dataset: Independent E. coli sigma70 test dataset
benchmark: Eco70PromBERT: E. coli sigma70 promoter prediction
benchmark: iPro70-FMWin: E. coli sigma70 promoter prediction

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