2017
|
» |
16GT: a fast and sensitive variant caller using a 16-genotype probabilistic model June 15, 2017 |
|
» |
In pursuit of perfect genome sequencing May 22, 2017 |
|
» |
Recurrent noncoding regulatory mutations in pancreatic ductal adenocarcinoma May 8, 2017 |
|
» |
GenomeScope: Fast reference-free genome profiling from short reads April 4, 2017 |
|
» |
Nanopore sequencing meets epigenetics March 31, 2017 |
|
» |
Proceedings of the IEEE: Bioinformatics of DNA March 1, 2017 |
|
» |
Preprint on 16GT: a fast and sensitive variant caller using a 16-genotype probabilistic model Feb 24, 2017 |
|
» |
Personalized Phased Diploid Genomes of the EN-Tex Samples @ AGBT Feb 15, 2017 |
|
» |
LRSim: a Linked Reads Simulator generating insights for better genome partitioning Jan 26, 2017 |
|
» |
TGF-β reduces DNA ds-break repair mechanisms to heighten genetic diversity and adaptability of CD44+/CD24- cancer cells Jan 16, 2017 |
|
» |
NanoBLASTer: Fast alignment and characterization of Oxford Nanopore single molecule sequencing reads Jan 2, 2017 |
|
2016
|
» |
Indel variant analysis of short-read sequencing data with Scalpel Dec 8, 2016 |
|
» |
The evolution of inflorescence diversity in the nightshades and heterochrony during meristem maturation Nov 7, 2016 |
|
» |
Phased diploid genome assembly with single-molecule real-time sequencing Oct 17, 2016 |
|
» |
Preprint on GenomeScope: Fast reference-free genome profiling from short reads Sept 20, 2016 |
|
» |
CS 600.226 Data Structures Begins! Sept 2, 2016 |
|
» |
Complete telomere-to-telomere de novo assembly of the Plasmodium falciparum genome through long-read sequencing June 26, 2016 |
|
» |
Assemblytics: a web analytics tool for the detection of variants from an assembly June 17, 2016 |
|
» |
Preprint on Phased Diploid Genome Assembly with Single Molecule Real-Time Sequencing June 3, 2016 |
|
» |
Insight into the evolution of the Solanaceae from the parental genomes of Petunia hybrida May 27, 2016 |
|
» |
Computational biologist Michael Schatz named 21st Bloomberg Professor at Johns Hopkins May 26, 2016 |
|
» |
Chromosomal-Level Assembly of the Asian Seabass Genome Using Long Sequence Reads and Multi-layered Scaffolding April 22, 2016 |
|
» |
Preprint on Third-generation sequencing and the future of genomics April 13, 2016 |
|
» |
Preprint on Assemblytics: a web analytics tool for the detection of assembly-based variants March 20, 2016 |
|
» |
Three presentations and two posters at Advances in Genome Biology and Technology (AGBT) 2016 Feb 12, 2016 |
|
» |
Genome assembly and geospatial phylogenomics of the bed bug Cimex lectularius Feb 2, 2016 |
|
» |
Frontiers of Sequencing: Putting Long Reads and Graph Assemblies to Work Jan 28, 2016 |
|
» |
Two presentations at Plant and Animal Genomes Conference Jan 12, 2016 |
|
2015
|
» |
Three presentations and four posters at Genome Informatics 2015 Nov 3, 2015 |
|
» |
The pineapple genome and the evolution of CAM photosynthesis Nov 2, 2015 |
|
» |
Teaser: Individualized benchmarking and optimization of read mapping results for NGS data Oct 23, 2015 |
|
» |
Oxford Nanopore sequencing, hybrid error correction, and de novo assembly of a eukaryotic genome Oct 8, 2015 |
|
» |
Biological data sciences in genome research Oct 1, 2015 |
|
» |
Metassembler: merging and optimizing de novo genome assemblies Sept 24, 2015 |
|
» |
Genome and transcriptome of the regeneration-competent flatworm, Macrostomum lignano [Press Release] Sept 21, 2015 |
|
» |
Interactive analysis and assessment of single-cell copy-number variations [Press Release] Sept 7, 2015 |
|
» |
Dual functions of Macpiwi1 in transposon silencing and stem cell maintenance in the flatworm Macrostomum lignano Aug 31, 2015 |
|
» |
Big Data: Astronomical or Genomical? [Press Release] July 7, 2015 |
|
» |
Rebooting the human genome in the MIT Tech Review June 3, 2015 |
|
» |
Preprint on The next 20 years of genome research June 2, 2015 |
|
» |
Pint-sized DNA sequencer impresses first users May 5, 2015 |
|
» |
Molecular genetic diversity and characterization of conjugation genes in the fish parasite Ichthyophthirius multifiliis March 12, 2015 |
|
» |
Preprint on Metassembler: Merging and optimizing de novo genome assemblies March 10, 2015 |
|
» |
Two Schatzlab talks at AGBT Feb 28, 2015 |
|
» |
Schatz named a 2015 Sloan Research Fellow Feb 23, 2015 |
|
» |
Extending reference assembly models Jan 28, 2015 |
|
» |
CSHL Scientists Sequence Yeast Genome with Oxford Nanopore MinIon Jan 14, 2015 |
|
» |
Three Schatzlab talks at PAGXXIII Jan 13, 2015 |
|
» |
The challenge of small-scale repeats for indel discovery Jan 7, 2015 |
|
2014
|
» |
Whole genome assemblies of 3 divergent strains of rice used to discover their novel genes Dec 3, 2014 |
|
» |
Lecture Notes from the Advanced Sequencing Course Nov 22, 2014 |
|
» |
SplitMEM: A graphical algorithm for pan-genome analysis with suffix skips Nov 14, 2014 |
|
» |
The contribution of de novo coding mutations to autism spectrum disorder Oct 29, 2014 |
|
» |
Reducing INDEL calling errors in whole-genome and exome sequencing data Oct 27, 2014 |
|
» |
Schatz promoted to assoicate professor of quantitative biology Sept 30, 2014 |
|
» |
New algorithm detects DNA insertions and deletions Sept 10, 2014 |
|
» |
Accurate de novo and transmitted indel detection in exome-capture data using microassembly [Press Release] Aug 17, 2014 |
|
» |
Lecture notes from our undergraduate research program in bioinformatics Aug 14, 2014 |
|
» |
101 questions with a bioinformatician @ ACGT Aug 7, 2014 |
|
» |
CSHL quantitative biologist Michael Schatz wins prestigious NSF Early CAREER Award July 30, 2014 |
|
» |
High-coverage sequencing and annotated assemblies of the budgerigar genome July 8, 2014 |
|
» |
Preprint on Error correction and assembly complexity of single molecule sequencing reads. June 18, 2014 |
|
» |
Preprint on Reducing INDEL errors in whole-genome and exome sequencing. June 18, 2014 |
|
» |
Schatz receives prestiguous NSF CAREER award to develop Algorithms for single molecule sequencing analysis June 7, 2014 |
|
» |
Accepted Preprint on the Algorithmic Complexity of the Biomolecular Sequence Assembly Problem April 7, 2014 |
|
» |
Preprint on SplitMEM: Graphical pan-genome analysis with suffix skips April 6, 2014 |
|
» |
Preprint on New whole genome de novo assemblies of three divergent strains of rice (O. sativa) documents novel gene space of aus and indica March 31, 2014 |
|
» |
Genome Sequencing and Assembly @ Genome Access Course March 31, 2014 |
|
» |
The next 10 years of quantitative biology @ Keystone Symposia on Big Data in Biology March 25, 2014 |
|
» |
Genome Assembly and Disease Analytics @ Brown Feb 19, 2014 |
|
» |
A near perfect assembly of a eukaryotic genome @ AGBT Feb 14, 2014 |
|
» |
Is the $1000 genome for real? Jan 15, 2014 |
|
» |
De novo assembly of complex genomes using single molecule sequencing at PAG Jan 14, 2014 |
|
2013
|
» |
Preprint on Accurate detection of de novo and transmitted INDELs within exome-capture data Dec 13, 2013 |
|
» |
Genome Assembly with iPlant [Video] Dec 4, 2013 |
|
» |
CSHL Advanced Sequencing Course Nov 20, 2013 |
|
» |
Cultivation and Complete Genome Sequencing of Gloeobacter kilaueensis Oct 23, 2013 |
|
» |
Our Bodies, Our Data [@Wired] Oct 8, 2013 |
|
» |
Transcriptome Assembly, No Reference Required! Oct 8, 2013 |
|
» |
Beyond the Genome Informatics Challenge Oct 3, 2013 |
|
» |
WSBS QB Bootcamp Sept 3-5, 2013 |
|
» |
CSHL Undergraduate Research Program in Bioinformatics June 4 - Aug 9, 2013 |
|
» |
Results from Assemblathon 2 competition published in GigaScience July 22, 2013 |
|
» |
The advantages of SMRT sequencing July 3, 2013 |
|
» |
The DNA60IFX Contest [blog] June 28, 2013 |
|
» |
The DNA Data Deluge in IEEE Spectrum June 27, 2013 |
|
» |
Hybrid de novo assembly of eukaryotic genomes June 18, 2013 |
|
» |
Genomics puzzles and prizes May 29, 2013 |
|
» |
Genome of the sacred lotus published in Genome Biology May 10, 2013 |
|
» |
HMP Webinar on Microbiome Asembly [slides] May 2, 2013 |
|
» |
Sixty years of genome biology April 25, 2013 |
|
» |
DNA60 Bioinformatics Challenge Begins April 22, 2013 |
|
» |
Genome Access: Sequencing and Assembly April 21, 2013 |
|
» |
De novo assembly of complex genomes @ UVA April 10, 2013 |
|
» |
Companies 'going long' generate sequencing buzz at Marco Island April 5, 2013 |
|
» |
Selling your most personal item: You March 27, 2013 |
|
» |
Cloud-scale Sequence Analysis @ NY Genome Center/AWS Meetup Mar 18, 2013 |
|
» |
Aluminum tolerance in maize is associated with higher MATE1 gene copy number March 12, 2013 |
|
» |
Assembling Crop Genomes with Single Molecule Sequencing Feb 22, 2013 |
|
» |
Wired magazine on big data challenges in genomics Feb 20, 2013 |
|
» |
Gene sequencing leaves the laboratory Feb 19, 2013 |
|
» |
Searching for GATTACA: Notes on the BWT Feb 6, 2013 |
|
» |
Schatz comments on using Knome for genomics in the NY Times Feb 2, 2013 |
|
» |
Computer Science and Genetics at Cold Spring Harbor High School Jan 8, 2013 |
|
2012
|
» |
Genome sequencing's big fix in the CSHL Harbor Transcript Dec 15, 2012 |
|
» |
CSHL Quantitative Biology Bioinformatics Slides. Dec 4, 2012 |
|
» |
Computational thinking in the era of big data biology Nov 29, 2012 |
|
» |
Human Genetics and Plant Genomics: The long and the short of it. Nov 22, 2012 |
|
» |
SBU Graduate Genetics slides. Nov 6, 2012 |
|
» |
Assembling crop genomes with 2nd and 3rd gen sequencing. Oct 8, 2012 |
|
» |
Answering the demands of digital genomics. Oct 4, 2012 |
|
» |
F1000 review on the Interdependence of cell growth and gene expression: origins and consequences. Sept 26, 2012 |
|
» |
Genotyping in the Cloud with Crossbow Sept 6, 2012 |
|
» |
WSBS Quantitative Biology Bootcamp 2012 August 30, 2012 |
|
» |
Lectures posted from CSHL undergraduate research program July 27, 2012 |
|
» |
The rise of a digital immune system July 12, 2012 |
|
» |
Hybrid error correction and de novo assembly of single-molecule sequencing reads July 1, 2012 |
|
» |
Schatz joins the editorial board at Genome Biology June 29, 2012 |
|
» |
Genomic Dark Matter: The reliability of short read mapping illustrated by the Genome Mappability Score June 6, 2012 |
|
» |
Current challenges in de novo plant genome sequencing and assembly April 27, 2012 |
|
» |
De novo gene disruptions in children on the autistic spectrum [Watch] April 25, 2012 |
|
» |
Classic paper on precise biophysical modeling of transcriptional regulation April 3, 2012 |
|
» |
De novo genome assembly: what every biologist should know March 27, 2012 |
|
» |
Meeting report from AGBT March 27, 2012 |
|
» |
DNA in the Cloud at Big Think Feb 18, 2012 |
|
» |
Improving de novo genome assembler with Metassembler at AGBT Feb 17, 2012 |
|
» |
Feature-by-Feature: Evaluating De Novo Sequence Assembly Feb 14, 2012 |
|
» |
F1000 review of Cortex Feb 12, 2012 |
|
» |
The DNA Storage Saga Jan 24, 2012 |
|
» |
De novo assembly of complex genomes using 3rd generation sequencing (GenomeWeb report) Jan 15, 2012 |
|
2011
|
» |
Lippman, Schatz lab collaboration uncovers a molecular "maturation clock" that modulates branching architecture in tomato plants Dec 27, 2011 |
|
» |
Visualizing and assessing the quality of genome assemblies Dec 24, 2011 |
|
» |
Applications of micro-, mega- and meta- assembly Dec 12, 2011 |
|
» |
Slides from 2011 Quantitative Biology class posted Dec 12, 2011 |
|
» |
Genome Research paper on GAGE: A critical evaluation of genome assemblies and assembly algorithms. Dec 6, 2011 |
|
» |
Schatz, McCombie interviewed by NY Times on the DNA Data Deluge Dec 1, 2011 |
|
» |
PNAS paper on the sea squirt microbiome and the cancer-fighting agents in creates Nov 28, 2011 |
|
» |
Giuseppe Narzisi joins the lab Oct 28, 2011 |
|
» |
Meeting report from Beyond the Genome Oct 24, 2011 |
|
» |
Frontiers in genomics: computational genomics Oct 4-5, 2011 |
|
» |
Beyond the Genome: Keynote, Demo, and Panel Sept 20, 2011 |
|
» |
Assemblathon 1 paper published in Genome Research Sept 16, 2011 |
|
» |
Schatz quoted in Reuters on the future of funding of genomic research Sept 12, 2011 |
|
» |
SMRT-Assembly Approaches: De Novo Assembly with 3rd Generation Sequencing Sept 7, 2011 |
|
» |
Got Hadoop? Commentary in Genome Technology Sept 1, 2011 |
|
» |
New paper on the comparative genomics of the deadly plant pathogen Xanthomonas July 26, 2011 |
|
» |
Schatz and Ware awarded $5M DOE grant to assemble knowledgebase to aid biofuels and environmental efforts July 15, 2011 |
|
» |
Lecture from undergraduate research program on bioinformatics posted July 6, 2011 |
|
» |
Schatz quoted in article on future of GPUs for genomics July 1, 2011 |
|
» |
New Paper Published on Genome Indexing with MapReduce June 19, 2011 |
|
» |
Slides posted from joint ECMLS/3DAPAS Keynote and MapReduce'11 June 8, 2011 |
|
» |
Schatz appointed as associate member of the Laufer Center for Quantitative Biology at SBU May 25, 2011 |
|
» |
Schatz awarded 2011 CSHL Winship Herr Award for Excellence in Teaching May 1, 2011 |
|
» |
Proceedings from Data-Intensive Analysis Conference Available Online April 18, 2011 |
|
» |
Computational Postdoc position posted April 12, 2011 |
|
» |
Will Computers Crash Genomics? Feb. 11 2011 |
|
2010
|
» |
Schatz credited for putting Hadoop "on-the-map" in bioinformatics Dec. 21, 2010 |
|
» |
Call for papers announced for MapReduce 2011 Dec. 21, 2010 |
|
» |
Report on the Beyond the Genome Conference Dec. 9, 2010 |
|
» |
Schatz selected as a Young Investigator of the Year Dec. 1, 2010 |
|
» |
Quake error correction method published in Genome Biology Nov. 29, 2010 |
|
» |
Efficient Large-Scale Graph Analysis with Hadoop & Part 2 Nov. 18, 2010 |
|
» |
Lecture notes from 2010 CSHL QB & Bioinformatics course Oct. 29, 2010 |
|
» |
Genome Assembly of the honey bee pest Varroa destructor Oct. 25, 2010 |
|
» |
Research Highlight on Hydra published on F1000. Sept. 16, 2010 |
|
» |
Turkey genome assembled from NGS reads published in PLoS Biology. Sept. 7, 2010 |
|
» |
Research Highlight on Galaxy published in Genome Biology. Aug 25, 2010 |
|
» |
Commentary on Cloud Computing published in Nature Biotechnology. July 1, 2010. |
|