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  1. It's definitely NOT cellphones killing the honeybees!
  2. 454 sequencing identifies rare virus which causes deaths in organ transplants...
  3. Error-correcting barcoded primers for pyrosequencing hundreds of samples in multiplex
  4. PubMed: Rapid transcriptome characterization for a nonmodel organism using 454 pyrosq
  5. PubMed: A probabilistic method for small RNA flowgram matching.
  6. PubMed: Pyrobayes: an improved base caller for SNP discovery in pyrosequences.
  7. PubMed: Metagenomics: Read length matters.
  8. Next-gen sequencing and microRNA discovery
  9. PubMed: Phylogenetic classification of short environmental DNA fragments.
  10. PubMed: Genome-wide allele-specific expression analysis using Massively Parallel Sign
  11. PubMed: Application of MPS to microRNA profiling and discovery in human ES cells
  12. PubMed: Using 454 tech for long-PCR based seq of the mitochondria of nematode
  13. PubMed: Gene expression profiling by massively parallel sequencing
  14. PubMed: Massively parallel synthetic sequencing of DNA on clonal arrays
  15. PubMed: A comparison of microarray and MPSS tech platforms for expression analysis
  16. PubMed: Methods for Analysis of Gene Expression in Plants Using MPSS.
  17. PubMed: Accuracy and quality of massively parallel DNA pyrosequencing.
  18. PubMed: Using q scores and longer reads improves accuracy of Solexa read mapping
  19. PubMed: From ug to pg: qPCR reduces the material demands of 454 sequencing
  20. PubMed: Identification of novel and candidate miRNAs in rice by high throughput seq
  21. PubMed: Survey of bacterial diversity in chronic wounds using Pyrosequencing, DGGE, a
  22. PubMed: Mapping translocation breakpoints by next-generation sequencing.
  23. Genome Res De novo bacterial genome sequencing: millions of very short reads assembly
  24. PubMed: ALLPATHS: De novo assembly of whole-genome shotgun microreads.
  25. PubMed: Velvet: Algorithms for De Novo Short Read Assembly Using De Bruijn Graphs.
  26. PubMed: Human papillomavirus genotyping by multiplex pyrosequencing in cervical cance
  27. Helicos sequencing: Single-Molecule DNA Sequencing of a Viral Genome
  28. PubMed: Low-coverage massively parallel pyrosequencing of cDNAs enables proteomics in
  29. PubMed: Species detection using environmental DNA from water samples.
  30. PubMed: DNA bar coding and pyrosequencing to analyze adverse events in therapeutic ge
  31. PubMed: High-Throughput Single Copy DNA Amplification and Cell Analysis in Engineered
  32. Jim Watson in Excruciating Detail: 454/Baylor Publish Complete Genome Sequence
  33. PubMed: Comparison of DNA pyrosequencing with alternative methods for identification
  34. PubMed: Direct resequencing of the complete ERBB2 coding sequence reveals an absence
  35. PubMed: Identification of the source of ancient remains through genomic sequencing.
  36. PubMed: A Spatial Dissection of the Arabidopsis Floral Transcriptome by MPSS.
  37. PubMed: Viral population estimation using pyrosequencing.
  38. PubMed: Identification of somatically acquired rearrangements in cancer using genome-
  39. PubMed: A microRNA catalog of the developing chicken embryo identified by a deep sequ
  40. PubMed: A high-resolution, nucleosome position map of C. elegans reveals a lack of un
  41. PubMed: TileQC: a system for tile-based quality control of Solexa data.
  42. WTSS, SQRL or RNA-seq
  43. PubMed: Next-Generation DNA Sequencing Methods.
  44. PubMed: RNA-seq: An assessment of technical reproducibility and comparison w/ arrays
  45. Mapping transcriptomes by RNA-Seq
  46. PubMed: MicroRNA Discovery and Profiling in Human Embryonic Stem Cells by Deep Sequen
  47. PubMed: Optimal pooling for genome re-sequencing with ultra-high-throughput short-rea
  48. PubMed: The metagenome of a biogas-producing microbial community of a production-scal
  49. PubMed: FindPeaks 3.1: A Tool for Identifying Areas of Enrichment from Massively Para
  50. PubMed: Transcriptome analysis for C. elegans based on novel expressed sequence tags
  51. PubMed: Profiling the HeLa S3 transcriptome using randomly primed cDNA and massively
  52. PubMed: A Comparison of Global Gene Expression Measurement Technologies in Arabidopsi
  53. PubMed: High-throughput sequencing provides insights into genome variation and evolut
  54. PubMed: Evaluation of the bacterial diversity in the feces of cattle using 16S rDNA b
  55. PubMed: Deep sequencing of tomato short RNAs identifies microRNAs targeting genes inv
  56. PubMed: Substantial biases in ultra-short read data sets from high-throughput DNA seq
  57. PubMed: Comparative analysis of human gut microbiota by barcoded pyrosequencing.
  58. Science, DGE: A Global View of Gene Activity and Alternative Splicing by Deep Sequenc
  59. PubMed: High-precision, whole-genome sequencing of laboratory strains facilitates gen
  60. PubMed: Genome-wide identification of in vivo protein-DNA binding sites from ChIP-Seq
  61. PubMed: ZOOM! Zillions Of Oligos Mapped.
  62. PubMed: Genome sequences from extinct relatives.
  63. PubMed: Annotation of metagenome short reads using proxygenes.
  64. PubMed: Genome-wide analysis of transcription factor binding sites based on ChIP-Seq
  65. PubMed: Bacterial Tag-Encoded FLX Amplicon Pyrosequencing (bTEFAP) for Microbiome Stu
  66. PubMed: Alta-Cyclic: a self-optimizing base caller for next-generation sequencing
  67. PubMed: Characterization of unique small RNA populations from rice grain.
  68. PubMed: Minority HIV-1 Variants in Antiretroviral Naive Persons with Reverse Transcri
  69. PubMed: Comparison of the Diversity of the Vaginal Microbiota in HIV-Infected and HIV
  70. PubMed: Assessing the feasibility of GS FLX Pyrosequencing for sequencing the Atlanti
  71. PubMed: Detection of large numbers of novel sequences in the metatranscriptomes of co
  72. PubMed: Deep sequencing analysis of small noncoding RNA and mRNA targets of the globa
  73. PubMed: Subclonal phylogenetic structures in cancer revealed by ultra-deep sequencing
  74. PubMed: Accurate taxonomy assignments from 16S rRNA sequences produced by highly para
  75. PubMed: Multiplex sequencing of plant chloroplast genomes using Solexa sequencing-by-
  76. PubMed: Development of an ELA-DRA gene typing method based on pyrosequencing technolo
  77. PubMed: A combination of LongSAGE with Solexa sequencing is well suited to explore th
  78. Paper: "Rapid whole-genome mutational profiling using next-gen technolgies"
  79. PubMed: Metagenomic analysis of lysogeny in tampa bay: implications for prophage gene
  80. PubMed: Gene-specific promoter hypermethylation without global hypomethylation in fol
  81. Method paper: Model-based Analysis of ChIP-Seq (MACS)
  82. PubMed: Hypomethylation of retrotransposable elements correlates with genomic instabi
  83. PubMed: Phase I Study of Epigenetic Modulation with 5-Azacytidine and Valproic Acid i
  84. PubMed: Transcriptome content and dynamics at single-nucleotide resolution.
  85. PubMed: Keeping Up With the Next Generation. Massively Parallel Sequencing in Clinica
  86. PubMed: A procedure for highly specific, sensitive, and unbiased whole-genome amplifi
  87. PubMed: Multiplex HLA-Typing by Pyrosequencing.
  88. PubMed: MachiBase: a Drosophila melanogaster 5'-end mRNA transcription database.
  89. PubMed: Evaluation of human gene variant detection in amplicon pools by the GS-FLX pa
  90. PubMed: Next-generation DNA sequencing.
  91. PubMed: The development and impact of 454 sequencing.
  92. Nature Biotech: Next Gen DNA Sequencing Focus
  93. PubMed: In-depth characterization of the microRNA transcriptome in a leukemia progres
  94. PubMed: Probabilistic base calling of Solexa sequencing data.
  95. PubMed: SNP frequency estimation using massively parallel sequencing of pooled DNA.
  96. PubMed: Deep sequencing-based expression analysis shows major advances in robustness,
  97. PubMed: DDBJ dealing with mass data produced by the second generation sequencer.
  98. The Economist: Nanopore Sequencing, the Hole Story
  99. SOCS: Efficient mapping of Applied Biosystems SOLiD sequence data to a ref genome...
  100. PubMed: Aggressive Assembly of Pyrosequencing Reads with Mates.
  101. PubMed: Genome-wide high throughput analysis of DNA methylation in eukaryotes.
  102. PubMed: Targeted next-generation sequencing by specific capture of multiple genomic l
  103. PubMed: An integrated software system for analyzing ChIP-chip and ChIP-seq data.
  104. PubMed: Cross-Hybridization Modeling on Affymetrix Exon Arrays.
  105. PubMed: Profiling DNA methylation from small amounts of genomic DNA starting material
  106. PubMed: Identification and Quantification of Differentially Methylated Loci by the Py
  107. PubMed: The diploid genome sequence of an Asian individual.
  108. PubMed: Accurate whole human genome sequencing using reversible terminator chemistry.
  109. HLA typing
  110. PubMed: Generations of sequencing technologies.
  111. PubMed: The Ribosomal Database Project: improved alignments and new tools for rRNA an
  112. PubMed: Soil Bacteria Denitrification Gene Cluster Characterization via a Metagenomic
  113. PubMed: Exploring Microbial Diversity and Taxonomy Using SSU rRNA Hypervariable Tag S
  114. PubMed: Design and analysis of ChIP-seq experiments for DNA-binding proteins.
  115. PubMed: A large genome center's improvements to the Illumina sequencing system.
  116. PubMed: High-resolution mapping of copy-number alterations with massively parallel se
  117. Syndicate posts to this Forum?
  118. New human genome analysis papers?
  119. PubMed: Dye-Free Gene Expression Detection by Sequence-Tagged Reverse-Transcription P
  120. PubMed: Transcriptome-wide identification of novel imprinted genes in neonatal mouse
  121. PubMed: Advantages and limitations of next-generation sequencing technologies: A comp
  122. PubMed: A sequence-level map of chromosomal breakpoints in the MCF-7 breast cancer ce
  123. PubMed: Brazilian genome sequencing projects: state of the art.
  124. PubMed: Statistical Distributions of Pyrosequencing.
  125. PubMed: High quality draft sequences for prokaryotic genomes using a mix of new seque
  126. PubMed: Utility of Pyrosequencing in Identifying Bacteria Directly from Positive Bloo
  127. PubMed: Comparing Platforms for C. elegans Mutant Identification Using High-Throughpu
  128. PubMed: Epigenetic control of differential expression of specific ERG isoforms in acu
  129. PubMed: High-resolution analysis of the 5'-end transcriptome using a next generation
  130. Genome-wide detection and analysis of hippocampus core promoters using DeepCAGE.
  131. PeakSeq enables systematic scoring of ChIP-seq experiments relative to controls.
  132. PubMed: Detailed transcriptome atlas of the pancreatic beta cell.
  133. PubMed: Perspectives of DNA microarray and next-generation DNA sequencing technologie
  134. PubMed: Decline in genomic DNA methylation through aging in a cohort of elderly subje
  135. PubMed: Gene Body Hypermethylation of ATM in Peripheral Blood DNA of Bilateral Breast
  136. Sequencing of natural strains of Arabidopsis thaliana with short reads.
  137. PubMed: Next is now: new technologies for sequencing of genomes, transcriptomes, and
  138. PubMed: Genome-wide analysis of transcription factor binding sites based on ChIP-Seq
  139. PubMed: Nano-sized bacterial magnetic particles displaying pyruvate phosphate dikinas
  140. PubMed: Solution hybrid selection with ultra-long oligonucleotides for massively para
  141. PubMed: Massively parallel sequencing of the poly-adenylated transcriptome of C. eleg
  142. De novo fragment assembly with short mate-paired reads, Does the read length matter?
  143. Nature: Genome sequencing: the third generation
  144. Nature Biotech: Sequencing in real time
  145. PubMed: Ab initio construction of a eukaryotic transcriptome by massively parallel mR
  146. The Short Read Headache
  147. 'Bioinformatics for Next Generation Sequencing' virtual issue
  148. Oxford Nanopore publishes proof-of-concept paper
  149. PubMed: Next-Generation Sequencing: From Basic Research to Diagnostics.
  150. PubMed: ABySS: A parallel assembler for short read sequence data.
  151. PubMed: Metagenomic Pyrosequencing and Microbial Identification.
  152. PubMed: The effects of experimental choices and analysis noise on surveys of the rare
  153. PubMed: Bilateral periprosthetic joint infection caused by Salmonella enterica seroty
  154. Bowtie: Ultrafast and memory-efficient alignment of short reads to the human genome
  155. A pair end sequencing paper
  156. Yeast Population Genomics - Sequencing vs Tiling arrays
  157. PubMed: Digital PCR provides sensitive and absolute calibration for high throughput s
  158. PubMed: Flow cytometry for enrichment and titration in massively parallel DNA sequenc
  159. CNV-seq, to detect Copy Number Variation using next-generation sequencing
  160. PubMed: A novel nano-material for pyrosequencing.
  161. PubMed: Unique archaeal assemblages in the Arctic Ocean unveiled by massively paralle
  162. PubMed: High throughput sequencing of microRNAs in chicken somites.
  163. PubMed: Expression profiling of microRNAs by deep sequencing.
  164. PubMed: The Expansion of the Microbiological Spectrum of Brain Abscesses with Use of
  165. PubMed: RNA-Seq - Quantitative measurement of expression through massively parallel R
  166. PubMed: Bias in assessments of marine microbial biodiversity in fosmid libraries as e
  167. Cost of human full genome sequencing....
  168. PubMed: Methods for generating shotgun and mixed shotgun/paired-end libraries for the
  169. PubMed: Next-generation sequencing approaches in genetic rodent model systems to stud
  170. PubMed: Preparation of genome-wide DNA fragment-libraries using bisulfite in polyacry
  171. PubMed: A transcriptional sketch of a primary human breast cancer by 454 deep sequenc
  172. deepCAGE in expression quantification and modeling
  173. PubMed: Comparative metagenomics of Daphnia symbionts.
  174. Evaluation of next generation sequencing platforms for population targeted sequencing
  175. PubMed: High-resolution genome-wide cytosine methylation profiling with simultaneous
  176. NGS of paired-end tags (PET) for transcriptome and genome analyses
  177. mRNA-Seq whole-transcriptome analysis of a single cell.
  178. PubMed: Parallel DNA pyrosequencing unveils new zebrafish microRNAs.
  179. PubMed: Pyrosequencing analysis of endosymbiont population structure: co-occurrence o
  180. Transcript length bias in RNA-seq data confounds systems biology.
  181. PubMed: Identification and Prevention of Genotyping Errors Caused by G-Quadruplex- an
  182. PubMed: Comparative analysis of human saliva microbiome diversity by barcoded pyroseq
  183. PubMed: 16SrRNA bacterial tag-encoded amplicons pyrosequencing for rapid deciphering
  184. PubMed: ESPRIT: estimating species richness using large collections of 16S rRNA pyros
  185. PubMed: SNP detection for massively parallel whole-genome resequencing.
  186. PubMed: Implementation of Novel Pyrosequencing Assays to Screen for Common Mutations
  187. PubMed: Orphelia: predicting genes in metagenomic sequencing reads.
  188. PubMed: Barcoded Pyrosequencing Reveals Shared Bacterial Community Properties along T
  189. PubMed: Development of a novel real-time reverse-transcriptase PCR method for the det
  190. New strategies and emerging technologies for massively parallel sequencing
  191. Estimating accuracy of RNA-Seq and microarrays with proteomics.
  192. PubMed: Genome-wide massively parallel sequencing of formaldehyde fixed-paraffin embe
  193. PubMed: Efficient frequency-based de novo short read clustering for error trimming in
  194. PubMed: An improved method for genome wide DNA methylation profiling correlated to tr
  195. PubMed: Ribosomal footprints on a transcriptome landscape.
  196. PubMed: Hierarchical Hidden Markov Model with Application to Joint Analysis of ChIP-c
  197. PubMed: Gene discovery using massively parallel pyrosequencing to develop ESTs for th
  198. PubMed: Quantitative analysis of DNA methylation after whole bisulfitome amplificatio
  199. PubMed: High-throughput sequence-based epigenomic analysis of Alu repeats in human ce
  200. SHRiMP: Accurate Mapping of Short Color-space Reads
  201. PubMed: Preparing a re-sequencing DNA library of 2 cancer candidate genes using the l
  202. PubMed: Whole genome assembly from 454 sequencing output via modified DNA graph conce
  203. PubMed: Hybrid selection of discrete genomic intervals on custom-designed microarrays
  204. PubMed: Genome-wide identification of human RNA editing sites by parallel DNA capturi
  205. PubMed: Polymerase chain reaction preparation of template for massively parallel pyro
  206. PubMed: Soil pH as a predictor of soil bacterial community structure at the continent
  207. PubMed: Characterization of airborne microbial communities at a high elevation site a
  208. PubMed: A score system for quality evaluation of RNA sequence tags: an improvement fo
  209. Genome assembly reborn: recent computational challenges
  210. PubMed: Ultra-deep pyrosequencing detects complex patterns of CD8+ T-lymphocyte escap
  211. High-throughput genotyping by whole-genome resequencing
  212. PubMed: DNA methylation patterns of spermatozoa and two generations of offspring obta
  213. PubMed: Statistical distributions of sequencing by synthesis with probabilistic nucle
  214. PubMed: Advantages of next-generation sequencing versus the microarray in epigenetic
  215. PubMed: Filter-based hybridization capture of subgenomes enables resequencing and cop
  216. PubMed: Non-invasive prenatal diagnosis by single molecule counting technologies.
  217. PubMed: VarScan: Variant detection in massively parallel sequencing of individual and
  218. PubMed: Sequence and structural variation in a human genome uncovered by short-read,
  219. Sequence and structural variation in a human genome uncovered by short-read, massivel
  220. PubMed: Genomic Screening for Genes Silenced by DNA Methylation Revealed an Associati
  221. PubMed: Shedding light on an extremophile lifestyle through transcriptomics.
  222. PubMed: Swift: Primary Data Analysis for the Illumina Solexa Sequencing Platform.
  223. PubMed: Extracting transcription factor targets from ChIP-Seq data.
  224. SEQanswers second "publication": "How to map billions of short reads onto genomes"
  225. Efficient frequency-based de novo short-read clustering for error trimming in NGS
  226. Genomics: catch me if you can
  227. The number two-ome
  228. PubMed: High definition profiling of mammalian DNA methylation by array capture and s
  229. PubMed: Applications of Ultra-high-Throughput Sequencing.
  230. PubMed: Systematic artifacts in metagenomes from complex microbial communities.
  231. PubMed: Probabilistic resolution of multi-mapping reads in massively parallel sequenc
  232. Local alignment of two-base encoded DNA sequence.
  233. Mutation of FOXL2 in granulosa-cell tumors of the ovary.
  234. PubMed: Identification of differentially expressed sense and antisense transcript pai
  235. PubMed: Mutation discovery in the mouse using genetically guided array capture and re
  236. PubMed: Outcome prediction and risk assessment by quantitative pyrosequencing methyla
  237. PubMed: A method for studying protistan diversity using massively parallel sequencing
  238. PubMed: Methods for Genomic Partitioning.
  239. PubMed: Community-wide response of gut microbiota to enteropathogenic Citrobacter inf
  240. PubMed: Mapping accuracy of short reads from massively parallel sequencing and the im
  241. PubMed: Differential MSH2 promoter methylation in blood cells of Neurofibromatosis ty
  242. PubMed: Frameshift detection in prokaryotic genomic sequences.
  243. PubMed: Community analysis of chronic wound bacteria using 16S rRNA gene-based pyrose
  244. PubMed: Characterization of the Zoarces viviparus liver transcriptome using massively
  245. PubMed: Comparison of next generation sequencing technologies for transcriptome chara
  246. Recurring Mutations Found by Sequencing an Acute Myeloid Leukemia Genome.
  247. PubMed: Accurate determination of microbial diversity from 454 pyrosequencing data.
  248. PubMed: Deep-sequencing of plant viral small RNAs reveals effective and widespread ta
  249. intro/review recommendation
  250. PubMed: Analysis of splicing patterns by pyrosequencing.