Appendix C.docx

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Biosequence Search
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ACQ-27-0065
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Appendix A.docx DOCX document
RFI Attachment 3 - Question and Answer Sheet.xlsx XLSX spreadsheet
RFI Attachment 1 - RFI Response Template_v0.1.xlsx XLSX spreadsheet
Appendix D.docx DOCX document
ACQ-27-0065 - RFI Biosequence Tool.pdf PDF
Appendix B.docx DOCX document
RFI Attachment 2 - Biosequence Search SOO.pdf PDF

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Date: May 1, 2026 Appendix C. Future-State Workflow Tables Table C-1. Future-state SI-assisted workflow

Workflow
Step No.
Step Name
Primary Actor
Systems / Tools
Key Inputs
Core Action
Key Output
Main Burden / Risk
Future-State SI-Assisted Workflow
1
Ingest case file
SI system with examiner oversight
PE2E-DAV, SLIC, sequence listing
Claims, specification, sequence listing, annotations
Read and structure the relevant application content
Structured case summary
Must accurately process both structured and unstructured content
Future-State SI-Assisted Workflow
2
Extract search-relevant features
SI system with examiner oversight
SI analysis layer
SEQ ID NOs, fragments, identity ranges, variants, fusions, wildcards
Identify the sequence-related claim features that affect search scope
Search-feature inventory
Must preserve examiner review and control
Future-State SI-Assisted Workflow
3
Generate candidate search strategy
SI system with examiner oversight
SI analysis layer, ABSS workflow logic
Search-feature inventory, known tool capabilities
Recommend search type, query groupings, parameters, and databases
Proposed search plan
Recommendations must be explainable and auditable
Future-State SI-Assisted Workflow
4
Examiner review of strategy
Examiner
SI user interface
Proposed search plan
Accept, reject, or revise the SI recommendations
Finalized search plan
Examiner remains responsible for search sufficiency
Future-State SI-Assisted Workflow
5
Prepare search submission
SI system and examiner
ABSS, STIC request workflow
Finalized search plan
Convert the approved plan into ABSS or STIC-ready instructions
Search-ready submission package
Must fit existing USPTO workflows
Future-State SI-Assisted Workflow
6
Execute search
Examiner or STIC-EIC 1600
ABSS, STIC request workflow
Search-ready submission package
Run the search or submit the customized request
Search submitted
SI should support, not autonomously decide, examination actions
Future-State SI-Assisted Workflow
7
Ingest result files
SI system with examiner oversight
PE2E-DAV, GenBase UI
ABSS result files
Parse and organize results across queries and databases
Structured result set
Must handle large and heterogeneous output files
Future-State SI-Assisted Workflow
8
Triage and prioritize results
SI system with examiner oversight
SI result-analysis layer
Structured result set, claim features
Rank, cluster, and summarize likely relevant hits and references
Prioritized examiner-facing result set
Must avoid hiding potentially material references
Future-State SI-Assisted Workflow
9
Explain recommendations
SI system
SI user interface
Ranked results, supporting evidence
Provide reasons why particular hits or references were prioritized
Explainable recommendation summary
Explainability is essential for trust and adoption
Future-State SI-Assisted Workflow
10
Examiner review of prioritized references
Examiner
SI user interface, PE2E-DAV, GenBase UI
Prioritized result set, explanations
Confirm, revise, or reject SI-prioritized references
Examiner-approved prior art set
Examiner judgment remains controlling
Future-State SI-Assisted Workflow
11
Support documentation
SI system and examiner
Examination record tools
Final search plan, approved references
Draft concise search summaries and workflow notes for examiner revision
Draft documentation support
Output must remain editable and reviewable by the examiner

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