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<TITLE> [dbsnp-announce] dbSNP BUILD 139 is available
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<H1>[dbsnp-announce] dbSNP BUILD 139 is available</H1>
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<B>Public announcements regarding dbSNP</B>
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<A HREF="mailto:dbsnp-announce%40ncbi.nlm.nih.gov?Subject=Re%3A%20%5Bdbsnp-announce%5D%20dbSNP%20BUILD%20139%20is%20available&In-Reply-To=%3Cmailman.147657.1383243884.23247.dbsnp-announce%40ncbi.nlm.nih.gov%3E"
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TITLE="[dbsnp-announce] dbSNP BUILD 139 is available">dbsnp-announce at ncbi.nlm.nih.gov
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<I>Thu Oct 31 14:21:49 EDT 2013</I>
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<PRE>dbSNP BUILD 139
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===============
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The following organisms are available in dbSNP's build 139 release.
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organism: Aspergillus fumigatus
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tax_id: 746128
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Assembly: ASM265v1 (GCF_000002655.1)
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Annotation: Aspergillus fumigatus Annotation Release 100 (GCF_000256155.1)
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total_ss_cnt: 876398
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total_rs_cnt: 114955
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new_ss_cnt: 0
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new_rs_cnt: 0
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FTP: <A HREF="ftp://ftp.ncbi.nih.gov/snp/organisms/ascomycetes_746128">ftp://ftp.ncbi.nih.gov/snp/organisms/ascomycetes_746128</A>
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Entrez: <A HREF="http://www.ncbi.nlm.nih.gov/snp/?term=txid746128">http://www.ncbi.nlm.nih.gov/snp/?term=txid746128</A>
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organism: Canis familiaris
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tax_id: 9615
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Assembly: CanFam3.1 (GCF_000002285.3)
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Annotation: Canis lupus familiaris Annotation Release 102 (GCF_000235965.1)
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total_ss_cnt: 3531778
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total_rs_cnt: 3263123
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new_ss_cnt: 106
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new_rs_cnt: 4239
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FTP: <A HREF="ftp://ftp.ncbi.nih.gov/snp/organisms/dog_9615">ftp://ftp.ncbi.nih.gov/snp/organisms/dog_9615</A>
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Entrez: <A HREF="http://www.ncbi.nlm.nih.gov/snp/?term=txid9615">http://www.ncbi.nlm.nih.gov/snp/?term=txid9615</A>
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organism: Equus caballus
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tax_id: 9796
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Assembly: EquCab2.0 (GCF_000002305.2)
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Annotation: Equus caballus Annotation Release 100 (GCF_000218255.1)
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total_ss_cnt: 5453018
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total_rs_cnt: 4974054
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new_ss_cnt: 4289273
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new_rs_cnt: 3810474
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FTP: <A HREF="ftp://ftp.ncbi.nih.gov/snp/organisms/horse_9796">ftp://ftp.ncbi.nih.gov/snp/organisms/horse_9796</A>
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Entrez: <A HREF="http://www.ncbi.nlm.nih.gov/snp/?term=txid9796">http://www.ncbi.nlm.nih.gov/snp/?term=txid9796</A>
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organism: Glycine max
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tax_id: 3847
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Assembly: V1.0 (GCF_000004515.1)
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Annotation: Glycine max Annotation Release 100 (GCF_000231295.1)
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total_ss_cnt: 21588586
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total_rs_cnt: 12105367
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new_ss_cnt: 15210236
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new_rs_cnt: 5753333
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FTP: <A HREF="ftp://ftp.ncbi.nih.gov/snp/organisms/soybean_3847">ftp://ftp.ncbi.nih.gov/snp/organisms/soybean_3847</A>
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Entrez: <A HREF="http://www.ncbi.nlm.nih.gov/snp/?term=txid3847">http://www.ncbi.nlm.nih.gov/snp/?term=txid3847</A>
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organism: Gorilla gorilla
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tax_id: 9593
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Assembly: gorGor3.1 (GCF_000151905.1)
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Annotation: Gorilla gorilla Annotation Release 100 (GCF_000313295.1)
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total_ss_cnt: 5
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total_rs_cnt: 5
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new_ss_cnt: 0
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new_rs_cnt: 0
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FTP: <A HREF="ftp://ftp.ncbi.nih.gov/snp/organisms/gorilla_9593">ftp://ftp.ncbi.nih.gov/snp/organisms/gorilla_9593</A>
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Entrez: <A HREF="http://www.ncbi.nlm.nih.gov/snp/?term=txid9593">http://www.ncbi.nlm.nih.gov/snp/?term=txid9593</A>
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organism: Meleagris gallopavo
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tax_id: 9103
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Assembly: Turkey_2.01 (GCF_000146605.1)
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Annotation: Meleagris gallopavo Annotation Release 100 (GCF_000191995.1)
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total_ss_cnt: 9307
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total_rs_cnt: 9275
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new_ss_cnt: 22
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new_rs_cnt: 0
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FTP: <A HREF="ftp://ftp.ncbi.nih.gov/snp/organisms/turkey_9103">ftp://ftp.ncbi.nih.gov/snp/organisms/turkey_9103</A>
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Entrez: <A HREF="http://www.ncbi.nlm.nih.gov/snp/?term=txid9103">http://www.ncbi.nlm.nih.gov/snp/?term=txid9103</A>
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organism: Monodelphis domestica
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tax_id: 13616
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Assembly: MonDom5 (GCF_000002295.2)
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Annotation: Monodelphis domestica Annotation Release 101 (GCF_000184275.1)
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total_ss_cnt: 1196103
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total_rs_cnt: 1194131
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new_ss_cnt: 0
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new_rs_cnt: 0
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FTP: <A HREF="ftp://ftp.ncbi.nih.gov/snp/organisms/opossum_13616">ftp://ftp.ncbi.nih.gov/snp/organisms/opossum_13616</A>
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Entrez: <A HREF="http://www.ncbi.nlm.nih.gov/snp/?term=txid13616">http://www.ncbi.nlm.nih.gov/snp/?term=txid13616</A>
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organism: Ornithorhynchus anatinus
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tax_id: 9258
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Assembly: Ornithorhynchus_anatinus_5.0.1 (GCF_000002275.2)
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Annotation: Ornithorhynchus anatinus Annotation Release 101 (GCF_000184255.1)
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total_ss_cnt: 1883034
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total_rs_cnt: 1319269
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new_ss_cnt: 0
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new_rs_cnt: 0
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FTP: <A HREF="ftp://ftp.ncbi.nih.gov/snp/organisms/platypus_9258">ftp://ftp.ncbi.nih.gov/snp/organisms/platypus_9258</A>
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Entrez: <A HREF="http://www.ncbi.nlm.nih.gov/snp/?term=txid9258">http://www.ncbi.nlm.nih.gov/snp/?term=txid9258</A>
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organism: Ovis aries
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tax_id: 9940
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Assembly: Oar_v3.1 (GCF_000298735.1)
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Annotation: Ovis aries Annotation Release 100 (GCF_000313975.1)
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total_ss_cnt: 2915034
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total_rs_cnt: 2839270
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new_ss_cnt: 196
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new_rs_cnt: 0
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FTP: <A HREF="ftp://ftp.ncbi.nih.gov/snp/organisms/sheep_9940">ftp://ftp.ncbi.nih.gov/snp/organisms/sheep_9940</A>
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Entrez: <A HREF="http://www.ncbi.nlm.nih.gov/snp/?term=txid9940">http://www.ncbi.nlm.nih.gov/snp/?term=txid9940</A>
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organism: Solanum lycopersicum
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tax_id: 4081
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Assembly: SL2.40 (GCF_000188115.1)
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Annotation: Solanum lycopersicum Annotation Release 100 (GCF_000344675.1)
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total_ss_cnt: 433
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total_rs_cnt: 289
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new_ss_cnt: 0
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new_rs_cnt: 0
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FTP: <A HREF="ftp://ftp.ncbi.nih.gov/snp/organisms/tomato_4081">ftp://ftp.ncbi.nih.gov/snp/organisms/tomato_4081</A>
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Entrez: <A HREF="http://www.ncbi.nlm.nih.gov/snp/?term=txid4081">http://www.ncbi.nlm.nih.gov/snp/?term=txid4081</A>
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organism: Taeniopygia guttata
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tax_id: 59729
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Assembly: Taeniopygia_guttata0.2.4 (GCF_000151805.1)
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Annotation: Taeniopygia guttata Annotation Release 101 (GCF_000332575.1)
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total_ss_cnt: 1751580
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total_rs_cnt: 1750278
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new_ss_cnt: 0
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new_rs_cnt: 1750278
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FTP: <A HREF="ftp://ftp.ncbi.nih.gov/snp/organisms/zebra_finch_59729">ftp://ftp.ncbi.nih.gov/snp/organisms/zebra_finch_59729</A>
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Entrez: <A HREF="http://www.ncbi.nlm.nih.gov/snp/?term=txid59729">http://www.ncbi.nlm.nih.gov/snp/?term=txid59729</A>
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organism: Vitis vinifera
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tax_id: 29760
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Assembly: 12X (GCF_000003745.2)
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Annotation: Vitis vinifera Annotation Release 100 (GCF_000236055.1)
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total_ss_cnt: 470878
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total_rs_cnt: 470645
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new_ss_cnt: 40
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new_rs_cnt: 0
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FTP: <A HREF="ftp://ftp.ncbi.nih.gov/snp/organisms/grape_29760">ftp://ftp.ncbi.nih.gov/snp/organisms/grape_29760</A>
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Entrez: <A HREF="http://www.ncbi.nlm.nih.gov/snp/?term=txid29760">http://www.ncbi.nlm.nih.gov/snp/?term=txid29760</A>
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organism: Oryctolagus cuniculus
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tax_id: 9986
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Assembly: OryCun2.0 (GCF_000003625.2)
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Annotation: Oryctolagus cuniculus Annotation Release 100 (GCF_000004725.1)
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total_ss_cnt: 24
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total_rs_cnt: 24
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new_ss_cnt: 24
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new_rs_cnt: 24
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FTP: <A HREF="ftp://ftp.ncbi.nih.gov/snp/organisms/rabbit_9986">ftp://ftp.ncbi.nih.gov/snp/organisms/rabbit_9986</A>
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Entrez: <A HREF="http://www.ncbi.nlm.nih.gov/snp/?term=txid9986">http://www.ncbi.nlm.nih.gov/snp/?term=txid9986</A>
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UPDATES:
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1. This is a reminder that the SNV BLAST service is now retired. Please see our online instructions (<A HREF="http://www.ncbi.nlm.nih.gov/projects/SNP/SNPBlast.html">http://www.ncbi.nlm.nih.gov/projects/SNP/SNPBlast.html</A>) for an improved alternative BLAST search.
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2. The Entrez SNP Summary report (docset) as of 10/31/13 is missing the delimiters between the gene symbol and gene ID and between multiple genes. This will be fixed in the next Entrez Portal release following QA. We cannot predict the release date which depends on how quickly QA issues are resolved. Once the update occur, the gene symbols and gene ID will be reported separately in GENE and GENE_ID fields, respectively. The GENE_ID field replaced the previous LOCUS_ID field. The values in each field will be listed in corresponding order and separated by commas for multiple genes.
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For example, rs1104 mapped to SNX17 (9784) and ZNF513 (130557)
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(<A HREF="http://eutils.ncbi.nlm.nih.gov/entrez/eutils/efetch.fcgi?db=snp&id=1104&report=docset">http://eutils.ncbi.nlm.nih.gov/entrez/eutils/efetch.fcgi?db=snp&id=1104&report=docset</A>)
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Old format:
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GENES=ZNF513130557SNX179784
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New format:
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GENES=SNX17,ZNF513
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GENE_ID=9784,130557
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Contact <A HREF="http://www.ncbi.nlm.nih.gov/mailman/listinfo/dbsnp-announce">snp-admin at ncbi.nlm.ncbi.nih.gov</A> if you have any questions or concerns.
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Oct 31, 2013
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dbSNP Production Team
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National Center for Biotechnology Information (NCBI)
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National Library of Medicine
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National Institutes of Health
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