tag :: SNP | BibSonomy

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1Pathogenic Germline Variants in 10,389 Adult Cancers. - PubMed - NCBI
Cell. 2018 Apr 5;173(2):355-370.e14. doi: 10.1016/j.cell.2018.03.039. Research Support, Non-U.S. Gov't
5 years ago by @marcsaric
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fulltext
gdc
germline
pan-cancer
paper
shouldread
snp
snv
tcga
fulltextgdcgermlinepan-cancerpapershouldreadsnpsnvtcga
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1Scalable Open Science Approach for Mutation Calling of Tumor Exomes Using Multiple Genomic Pipelines. - PubMed - NCBI
Cell Syst. 2018 Mar 28;6(3):271-281.e7. doi: 10.1016/j.cels.2018.03.002.
5 years ago by @marcsaric
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MUSTREAD
cancer-research
exome
fulltext
pan-cancer
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pipeline
snp
snv
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tcga-platforms
MUSTREADcancer-researchexomefulltextpan-cancerpaperpipelinesnpsnvsoftwaretcga-platforms
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1Generation of SNP datasets for orangutan population genomics using improved reduced-representation sequencing and direct comparisons of SNP calling algorithms
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3897891/
6 years ago by @robin.garcia
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snp
snp
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1Visualization
Visualization of SNP data
11 years ago by @madmicha
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data-analysis
polymorphisms
snp
visualization
data-analysispolymorphismssnpvisualization
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1Adaptive Evolution Server @ Datamonkey.org
http://www.datamonkey.org/
14 years ago by @sr320
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analysis
bioinformatics
biology
codon
dna
evolution
phylogenetic
phylogenetics
protein
selection
sequence
snp
software
tool
tools
webapp
analysisbioinformaticsbiologycodondnaevolutionphylogeneticphylogeneticsproteinselectionsequencesnpsoftwaretooltoolswebapp
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1Yellow Perch SOLID Blast output
RNAseq libraries from three populations, ~78k sequences, SWISS-PROT database
14 years ago by @sr320
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annotable
ngs
perch
snp
annotablengsperchsnp
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1Herring Nonsynonomous SNPs with annoatations
https://spreadsheets.google.com/pub?key=0AtV_gF766XZAdGpqR2d3cF9jb0NhZGhxdm5vQ0tUckE&authkey=CIT17fQB&hl=en&output=html
14 years ago by @sr320
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herring
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1Insights into shell deposition in the Antarctic bivalve Laternula elliptica: gene discovery in the mantle transcriptome using 454 pyroseqeuencing
http://www.biomedcentral.com/1471-2164/11/362
14 years ago by @sr320
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454
bivalve
clam
ngs
paper
snp
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1The SELECTON Server
The Selecton server enables detecting the selective forces at a single amino-acid site. The ratio of non-synonymous (amino-acid altering) to synonymous (silent) substitutions, known as the Ka/Ks ratio, is used to estimate both positive and purifying selection at each amino-acid site
14 years ago by @sr320
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FISH546
bioinformatics
selection
snp
software
FISH546bioinformaticsselectionsnpsoftware
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1Herring SNP Table with top hits
Herring 454 data used for SNP discovery- Interactive table with best matches in swiss-pro protein database
14 years ago by @sr320
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annotable
fish546
herring
ngs
snp
annotablefish546herringngssnp
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1Herring SNP table with GO associations
Tab-delimited file (25MB) of SNPs with annotations (SWISS-PRO) and associated GO terms
14 years ago by @sr320
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annotable
herring
ngs
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annotableherringngssnp
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1Single nucleotide polymorphism discovery in rainbow trout by deep sequencing of a reduced representation library
http://www.biomedcentral.com/1471-2164/10/559
14 years ago by @sr320
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trout
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1Characterizing natural variation using next-generation sequencing technologies
http://www.ncbi.nlm.nih.gov/pubmed/19801172
15 years ago by @sr320
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ngs
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1BatchPrimer3
http://wheat.pw.usda.gov/demos/BatchPrimer3/
15 years ago by @sr320
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PCR
batch
primer
sequencing
snp
software
PCRbatchprimersequencingsnpsoftware
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1Short Read Aligners and Variant Detection | MassGenomics
http://www.massgenomics.org/2009/11/short-read-aligners-and-variant-detection.html
15 years ago by @sr320
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abi
illumina
ngs
snp
abiilluminangssnp
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1SNP genotyping: six technologies that keyed a revolution - Nature Methods
http://www.nature.com/nmeth/journal/v5/n5/full/nmeth0508-447.html
15 years ago by @sr320
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paper
snp
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1Quantitative PCR assessment of microsatellite and SNP genotyping with variable quality DNA extracts
http://www.springerlink.com/content/g475g431477u7247/
15 years ago by @sr320
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FISH510
microsatellite
paper
qpcr
snp
FISH510microsatellitepaperqpcrsnp
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1Number of Alleles as a Predictor of the Relative Assignment Accuracy of Short Tandem Repeat (STR) and Single-Nucleotide-Polymorphism (SNP) Baselines for Chum Salmon
http://afs.allenpress.com/perlserv/?request=get-document&doi=10.1577%2FT07-104.1
15 years ago by @sr320
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FISH510
genetics
paper
population
salmon
seeb
snp
FISH510geneticspaperpopulationsalmonseebsnp
(0)
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1SNP genotyping by unlabeled probe melting analysis. [Methods Mol Biol. 2008] - PubMed Result
http://www.ncbi.nlm.nih.gov/pubmed/18695968
16 years ago by @sr320
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PCR
hrm
paper
snp
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1High-resolution DNA melting analysis for simultaneous mutation scanning and genotyping in solution...[Clin Chem. 2005] - PubMed Result
http://www.ncbi.nlm.nih.gov/pubmed/16189378
16 years ago by @sr320
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HRM
paper
snp
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publications (hide)39
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1The Ensembl Variant Effect Predictor
W. McLaren, L. Gil, S. Hunt, H. Riat, G. Ritchie, A. Thormann, P. Flicek, and F. Cunningham. Genome Biology, 17 (1): 122 (2016)
4 years ago by @marcsaric
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annotation
dna-sequencing
fulltext
shouldread
snp
snv
software
variant-calling
annotationdna-sequencingfulltextshouldreadsnpsnvsoftwarevariant-calling
(0)
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1Scalable Open Science Approach for Mutation Calling of Tumor Exomes Using Multiple Genomic Pipelines
K. Ellrott, M. Bailey, G. Saksena, K. Covington, C. Kandoth, C. Stewart, J. Hess, S. Ma, K. Chiotti, M. McLellan and 730 other author(s). Cell Systems, 6 (3): 271--281.e7 (March 2018)
4 years ago by @marcsaric
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cancer-research
fulltext
indel
pan-cancer
pipeline
snp
snv
tcga
variant-calling
cancer-researchfulltextindelpan-cancerpipelinesnpsnvtcgavariant-calling
(0)
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1Interaction Landscape of Inherited Polymorphisms with Somatic Events in Cancer
H. Carter, R. Marty, M. Hofree, A. Gross, J. Jensen, K. Fisch, X. Wu, C. DeBoever, E. Nostrand, Y. Song and 6 other author(s). Cancer Discovery, 7 (4): 410--423 (February 2017)
5 years ago by @marcsaric
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cancer-research
fulltext
mutations
snp
snv
somatic
cancer-researchfulltextmutationssnpsnvsomatic
(0)
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1Xome-Blender: A novel cancer genome simulator
R. Semeraro, V. Orlandini, and A. Magi. PLoS One, (2018)
5 years ago by @marcsaric
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SNP-detection
algorithm-comparison
cancer
comparison
fulltext
genomics
simulation
snp
software
SNP-detectionalgorithm-comparisoncancercomparisonfulltextgenomicssimulationsnpsoftware
(0)
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1Mutual exclusivity analysis identifies oncogenic network modules
G. Ciriello, E. Cerami, C. Sander, and N. Schultz. Genome Res, 22 (2): 398-406 (February 2012)
5 years ago by @marcsaric
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MUSTREAD
cancer-research
fulltext
mutations
network-analysis
snp
snv
MUSTREADcancer-researchfulltextmutationsnetwork-analysissnpsnv
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1Mutation pattern analysis reveals polygenic mini-drivers associated with relapse after surgery in lung adenocarcinoma
L. Bennett, M. Howell, D. Memon, C. Smowton, C. Zhou, and C. Miller. Scientific Reports, 8 (1): 14830-- (2018)
5 years ago by @marcsaric
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cancer-research
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methods
mutations
network-analysis
rna-seq
snp
MUSTREADcancer-researchfulltextmethodsmutationsnetwork-analysisrna-seqsnp
(1)
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7Genome sequencing and population genomics in non-model organisms
H. Ellegren. Trends in Ecology & Evolution, 29 (1): 51--63 (January 2014)
6 years ago by @robin.garcia
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snp
snp
(0)
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2RADSeq: next-generation population genetics
J. Davey, and M. Blaxter. Briefings in Functional Genomics, 9 (5-6): 416-423 (2010)
6 years ago by @robin.garcia
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snp
snp
(0)
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1Making the most of RNA-seq: Pre-processing sequencing data with Opossum for reliable SNP variant detection
L. Oikkonen, and S. Lise. Wellcome Open Res, (January 2017)
6 years ago by @marcsaric
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SHOULDREAD
SNP-detection
fulltext
pipeline
rna-seq
sequencing
snp
software
SHOULDREADSNP-detectionfulltextpipelinerna-seqsequencingsnpsoftware
(0)
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1Computational prediction of damage associated non synonymous SNPs of CYP17A1 and CYP19A1 gene
R. Dahiya. International Journal of Trend in Scientific Research and Development, 1 (6): 635-646 (October 2017)
6 years ago by @ijtsrd
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Aromatase
Biotechnology
CYP450
Oestrogen
SNP
Steroidogenesis
Testosterone
AromataseBiotechnologyCYP450OestrogenSNPSteroidogenesisTestosterone
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1A SNP profiling panel for sample tracking in whole-exome sequencing studies
R. Pengelly, J. Gibson, G. Andreoletti, A. Collins, C. Mattocks, and S. Ennis. Genome Med, 5 (9): 89-89 (2013)
6 years ago by @marcsaric
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MUSTREAD
exome
fulltext
quality-control
snp
MUSTREADexomefulltextquality-controlsnp
(1)
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1Why significant variables aren’t automatically good predictors
A. Lo, H. Chernoff, T. Zheng, and S. Lo. Proceedings of the National Academy of Sciences, 112 (45): 13892--13897 (November 2015)
7 years ago by @yourwelcome
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SNP
\_tablet,
bad
consistency,
efficiency,
genetics,
prediction,
significance
study,
test,
SNP\_tablet,badconsistency,efficiency,genetics,prediction,significancestudy,test,
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1Characterization of SNPs Associated with Prostate Cancer in Men of Ashkenazic Descent from the Set of GWAS Identified SNPs: Impact of Cancer Family History and Cumulative SNP Risk Prediction
R. Fiñones, J. Yeargin, M. Lee, A. Kaur, C. Cheng, P. Sun, C. Wu, C. Nguyen, J. Wang-Rodriguez, A. Meyer and 3 other author(s). Plos One, (2013)
10 years ago by @hpschu
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GWAS
PrCa
SNP
GWASPrCaSNP
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1A Simple Correction for Multiple Testing for Single-Nucleotide Polymorphisms in Linkage Disequilibrium with Each Other
D. Nyholt. (April 2004)
12 years ago by @peter.ralph
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SNP
linkage
population_genomics
statistics
SNPlinkagepopulation_genomicsstatistics
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2Genomic and geographic distribution of SNP-defined runs of homozygosity in Europeans
M. Nothnagel, T. Lu, M. Kayser, and M. Krawczak. Human Molecular Genetics, (2010)
12 years ago by @peter.ralph
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SNP
eurogenetics
run_of_homozygosity
IBD
SNPeurogeneticsrun_of_homozygosityIBD
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1Common SNPs explain a large proportion of the heritability for human height
J. Yang, B. Benyamin, B. McEvoy, S. Gordon, A. Henders, D. Nyholt, P. Madden, A. Heath, N. Martin, G. Montgomery and 2 other author(s). Nat Genet, 42 (7): 565--569 (July 2010)
12 years ago by @peter.ralph
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SNP
genotype_phenotype
human_genome
missing_heritability
SNPgenotype_phenotypehuman_genomemissing_heritability
(0)
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2Maximum-likelihood estimation of demographic parameters using the frequency spectrum of unlinked single-nucleotide polymorphisms
A. Adams, and R. Hudson. Genetics, 168 (3): 1699-1712 (November 2004)
12 years ago by @peter.ralph
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SNP
demographic_inference
eurogenetics
maximum_likelihood
methods
population_genomics
SNPdemographic_inferenceeurogeneticsmaximum_likelihoodmethodspopulation_genomics
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1Searching for SNPs with cloud computing
B. Langmead, M. Schatz, J. Lin, M. Pop, and S. Salzberg. Genome Biol, 10 (11): R134 (2009)
12 years ago by @ytyoun
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bioinformatics
cloud-computing
snp
bioinformaticscloud-computingsnp
(0)
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1Ascertainment biases in SNP chips affect measures of population divergence
A. Albrechtsen, F. Nielsen, and R. Nielsen. Mol Biol Evol, 27 (11): 2534-2547 (November 2010)
12 years ago by @peter.ralph
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SNP
ascertainment
population_genomics
statistics
SNPascertainmentpopulation_genomicsstatistics
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2Familial identification: population structure and relationship distinguishability
R. Rohlfs, S. Fullerton, and B. Weir. PLoS Genet, (February 2012)
12 years ago by @peter.ralph
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SNP
inferring_relationships
pedigrees
SNPinferring_relationshipspedigrees
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