Searching on the Secondary Structure of Protein Sequences
Summary: Proposes a query language for protein secondary structure and algorithms to evaluate queries. Implemented in Periscope and a commercial ORDBMS, with a cost-estimation based optimization framework and experiments showing protein-query performance. (summarized by gpt-5-nano on Feb 09 2026)
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Incoming Citations (Sorted by Pagerank)
Showing 2 of 2 citing papers.
| Rank | Citing Paper | Year | Venue | Pagerank |
|---|---|---|---|---|
| 9,826 | Exploiting Structure in Regular Expression Queries | 2023 | SIGMOD | 4.2751057e-05 |
| 10,106 | Regular Expression Indexing for Log Analysis | 2026 | SIGMOD | 4.1945683e-05 |
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Outgoing Citations (Sorted by Pagerank)
Showing 11 of 11 cited papers.
Citations counted here include only citations to other VLDB/SIGMOD/CIDR/PODS papers in this database.
| Rank | Cited Paper | Year | Venue | Pagerank |
|---|---|---|---|---|
| 1 | Access Path Selection in a Relational Database Management System | 1979 | SIGMOD | 0.0040449103 |
| 7 | Optimal Aggregation Algorithms for Middleware [Extended Abstract] | 2001 | PODS | 0.0015496097 |
| 72 | Combining Fuzzy Information from Multiple Systems | 1996 | PODS | 0.00058577335 |
| 116 | Equi-Depth Histograms For Estimating Selectivity Factors For Multi-Dimensional Queries | 1988 | SIGMOD | 0.00046148737 |
| 292 | Shoring Up Persistent Applications | 1994 | SIGMOD | 0.00028741386 |
| 327 | Balancing Histogram Optimality and Practicality for Query Result Size Estimation | 1995 | SIGMOD | 0.00027308479 |
| 552 | Supporting Incremental Join Queries on Ranked Inputs | 2001 | VLDB | 0.00020310903 |
| 808 | Universality of Serial Histograms | 1993 | VLDB | 0.00016432772 |
| 1,118 | A Database Index to Large Biological Sequences | 2001 | VLDB | 0.00013879121 |
| 3,035 | Multi-Dimensional Substring Selectivity Estimation | 1999 | VLDB | 7.6748073e-05 |
| 4,333 | An Efficient Index Structure for String Databases | 2001 | VLDB | 6.2805237e-05 |
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| Overall Rank | Paper | Year | Venue | Pagerank |
|---|---|---|---|---|
| 1,433 | Combinatorial Pattern Discovery for Scientific Data: Some Preliminary Results | 1994 | SIGMOD | 0.00012009649 |
| 625 | Sequence Query Processing | 1994 | SIGMOD | 0.00018980669 |
| 13,577 | Capri/MR: Exploring Protein Databases from a Structural and Physicochemical Point of View | 2008 | VLDB | - |
| 7,325 | Periscope/GQ: A Graph Querying Toolkit | 2008 | VLDB | 4.7616954e-05 |
| 13,915 | A Database Platform for Bioinformatics | 2000 | VLDB | - |
| 2,314 | Optimization of Sequence Queries in Database Systems | 2001 | PODS | 9.0479606e-05 |
| 6,464 | Reference-Based Indexing of Sequence Databases | 2006 | VLDB | 5.0532607e-05 |
| 572 | Substructure Similarity Search in Graph Databases | 2005 | SIGMOD | 0.00019887011 |
| 1,316 | An Approximate Search Engine for Structural Databases | 2000 | SIGMOD | 0.00012629219 |
| 4,306 | Periscope/SQ: Interactive Exploration of Biological Sequence Databases | 2007 | VLDB | 6.2885419e-05 |