note - FIZ Karlsruhe

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Text and Bibliographic searching Bibliographic search options Publication information (PI) Publication (patent) number (PN), date (PD), year (PY), kind (PK) and country (PC) search and display (PI) options, for all indexed DGENE published applications and patents (see <strong>note</strong> below). => S L1 AND PD S L1 AND AD S L1 AND PRD
Sorting answer sets Text and Bibliographic searching SORT A DGENE answer set may be sorted alphanumerically using any of a number of SORT fields. For a list of sortable fields in DGENE, enter HELP SRTFIELDS at the STN prompt (=>). => SORT L7 SORT ENTIRE ANSWER SET? (Y)/N:Y ENTER SORT FIELDS AND SORT DIRECTION (?):AN D PROCESSING COMPLETED FOR L7 L8 1049 SOR L7 AN D FSORT A DGENE answer set may be sorted by patent families using the patent Family SORT (FSORT) command. Sequence records from the same publications can be conveniently gathered together via common publication, application, related application and/or priority numbers. Selected members of each family group can be displayed with the DISPLAY PFAM command. => FSORT L8 L9 1049 FSO L8 => D L9 PFAM=1- 1 BIB Helpful HINT 34 Multi-record Families Answers 1-1003 Family 1 Answers 1-15 Family 2 Answers 16-17 . . . Family 33 Answers 992-1001 Family 34 Answers 1002-1003 46 Individual Records Answers 1004-1049 0 Non-patent Records See SORT and FSORT being used with BLAST search results on page 40. GENESEQ on STN (DGENE) Workshop Manual | Page 91
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GENESEQ TM STN ® WORKSHOP MANUAL
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Contents DATABASE CONTENT .........
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DATABASE CONTENT In this section, y
Page 7 and 8:
How to read a DGENE record Database
Page 9 and 10:
Patent family and legal status info
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INTRODUCTION TO SIMILARITY SEARCHIN
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GETSIM Introduction to similarity s
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The uploaded sequence text file bec
Page 17 and 18:
Introduction to similarity searchin
Page 19 and 20:
Introduction to similarity searchin
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Prepare the query offline Prepare y
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Sort the answers by descending simi
Page 25 and 26:
Display selected answers in a bibli
Page 27 and 28:
Prepare the query offline Prepare y
Page 29 and 30:
Sort similarity score descending An
Page 31 and 32:
Page 33 and 34:
9590 ANSWERS FOUND ABOVE A THRESHOL
Page 35 and 36:
Page 37 and 38:
RUN GETSIM for a SQN BOTH search In
Page 39 and 40: Display selected answers in a bibli
Page 41 and 42: Upload the sequence and conduct a B
Page 43 and 44: Introduction to similarity searchin
Page 45 and 46: ADVANCED SIMILARITY SEARCHING In th
Page 47 and 48: RUN BLAST Advanced similarity searc
Page 49 and 50: BLAST advanced options Advanced sim
Page 51 and 52: Altering BLAST parameters Advanced
Page 53 and 54: Sort the answer set according to si
Page 55 and 56: 9913 ANSWERS FOUND BELOW EXPECTATIO
Page 57 and 58: Advanced similarity searching L4 AN
Page 59 and 60: Run a BLAST similarity search with
Page 61 and 62: Display some records with alignment
Page 63 and 64: Protein sequences: switching off th
Page 65 and 66: Sort similarity score descending An
Page 69 and 70: Upload the sequence query text file
Page 71 and 72: Review the answers using IDENT and
Page 75 and 76: RUN GETSIM using the translated (/T
Page 77 and 78: . . . . Advanced similarity searchi
Page 79 and 80: Batch Search Mode Advanced similari
Page 81 and 82: Collection of Batch Results Advance
Page 83 and 84: Current Awareness Alert Searching A
Page 85 and 86: CURRENT RESULTS AVAILABLE NAME RUN
Page 87 and 88: TEXT AND BIBLIOGRAPHIC In this sect
Page 89: Additional search indexes Text and
Page 93 and 94: Prepare and save the query Prepare
Page 95 and 96: 341 ANSWERS FOUND BELOW EXPECTATION
Page 97 and 98: Text and Bibliographic searching Re
Page 99 and 100: Display selected answers in a prefe
Page 101 and 102: SEQUENCE CODE MATCH SEARCHING In th
Page 103 and 104: Sequence Code Match Searching Exact
Page 105 and 106: Protein EXACT Search GETSEQ search
Page 107 and 108: Protein EXACT FAMILY Search Sequenc
Page 109 and 110: Protein SUBSEQUENCE Search Sequence
Page 111 and 112: Protein SUBSEQUENCE FAMILY Search S
Page 113 and 114: Nucleic acid EXACT Search Sequence
Page 115 and 116: Nucleic Acid SUBSEQUENCE Search Seq
Page 117 and 118: Using variability symbols Sequence
Page 119 and 120: Excluding residues Sequence Code Ma
Page 121 and 122: Repeat the search with the compleme
Page 123 and 124: APPENDICES This section includes ap
Page 125 and 126: Three letter codes 3-Letter Code 1-
Page 127 and 128: III: Universal Genetic Code Table A
Page 129 and 130: Nucleic acids Appendices Nucleotide
Page 131 and 132: Appendices Feature Definition termi
Page 133 and 134: Search fields VI: DGENE search and
Page 135 and 136: VII: Variability Symbols for GETSEQ
Page 137 and 138: VIII: BLAST advanced options Parame
Page 139 and 140: IX: Sequence Search Query Limits Ap
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note - FIZ Karlsruhe

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