82 lines
4.7 KiB
Text
82 lines
4.7 KiB
Text
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References with further information about the methods
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Staden, R. Nucl. Acid Res. 8, 817-825 (1980)
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A computer program to search for tRNA genes. (NIP)
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Staden, R. Nucl. Acid Res. 8, 3673-3694 (1980)
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A new computer method for the storage and manipulation
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of DNA gel reading data. (SAP).
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Staden, R. Nucl. Acid Res. 10, 2951-2961 (1982)
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An interactive graphics program for comparing and
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aligning nucleic acid and amino acid sequences.
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(SIP).
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Staden, R. Nucl. Acid Res. 10, 4731-4751 (1982)
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Automation of the computer handling of gel reading data
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produced by the shotgun method of DNA sequencing.(SAP)
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Staden, R. and McLachlan, A.,D. Nucl. Acid Res. 10
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141-156 (1982)
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Codon preference and its use in identifying protein
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coding regions in long DNA sequences. (NIP)
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Staden, R. Nucl. Acid Res. 12, 499-503 (1984)
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A computer program to enter DNA gel reading data into a
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computer. (GIP)
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Staden, R. Nucl. Acid Res. 12, 551-567 (1984)
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Measurements of the effects that coding for a protein
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has on on a DNA sequence and their use for finding
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genes. (NIP: positional base preferences, uneven
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positional base frequencies)
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Staden, R. Nucl. Acid Res. 12, 505-519 (1984)
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Computer methods to locate signals in nucleic acid
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sequences. NIP: promoters, ribosome binding
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sites, intron/exon junctions.
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McLachlan A D, Staden R and Boswell D R, Nucl. Acid Res.
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12, 9567-9575 (1984)
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Measure of strength of codon preference. (NIP)
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Staden R, Computer methods to locate genes and signals in
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nucleic acid sequences, Genetic Engineering: Principles
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and Methods Vol. 7, Edited by J. K. Setlow and A.
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Hollaender, Plenum Publishing Corp. 1985. (NIP)
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Staden R Nucl. Acid. Res. 14, 217-231 (1986)
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The current status and portability of our sequence
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handling software. Summary for May 1985.
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Staden R "Computer Handling of DNA sequencing projects" in
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Nucleic acid and protein sequence analysis, A practical
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approach, 173-217. Edited by M.J.Bishop and C.J.Rawlings,
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IRL press (1987). (SAP)
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Staden R, Methods to define and locate patterns of motifs in
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sequences. CABIOS 4 53-60 (1988). (NIP, PIP,
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NIPL, PIPL)
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Staden R, Methods for calculating the probabilities of finding
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patterns in sequences. CABIOS 5 89-96 (1989). (NIP, PIP,
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NIPL, PIPL)
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Staden R, "Methods for discovering novel motifs in nucleic acid
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sequences". CABIOS 5, 293-298, (1989). (MEP)
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Staden R, Methods to search for patterns in protein and nucleic
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acid sequences. In Doolittle, R,R (ed), Methods in
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Enzymology, 183, Academic Press, San Diego, CA, 193-211.
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(1990) (NIP, NIPL, PIP, PIPL)
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Staden R, Finding protein coding regions in genomic sequences.
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In Doolittle, R,R (ed), Methods in Enzymology, 183,
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Academic Press, San Diego, CA, 163-180. (1990) (NIP)
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Gleeson T J and Staden R, An X windows and UNIX implementation
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of our sequence analysis package. CABIOS 7 398 (1991)
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Staden R, Screening protein and nucleic acid sequences against
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libraries of patterns. DNA Sequence, in press (NIP, PIP,
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SPLITP1, SPLITP2, SPLITP3, PROSITE)
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Dear S and Staden R, A sequence assembly and editing program for
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efficient management of large projects. Nucleic Acids
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Research 19 3907-3911 (1991) (XDAP)
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Staden R and Dear S, Indexing the sequence libraries: Software
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providing a common indexing system for all the standard
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sequence libraries. DNA Sequence 3, 99-105 (1992).
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Dear S and Staden R, A standard file format for data from DNA
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sequencing instruments. DNA Sequence 3, 107-110 (1992)
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Gleeson T and Hillier L, A trace display and editing program
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for data from fluorescence based sequencing machines.
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Nucleic Acids Research 19 6481-6483 (1991) (TED)
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Staden R, Staden package update. Genome News 13 12-13 (1993)
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