Institution
Cold Spring Harbor Laboratory
Nonprofit•Cold Spring Harbor, New York, United States•
About: Cold Spring Harbor Laboratory is a nonprofit organization based out in Cold Spring Harbor, New York, United States. It is known for research contribution in the topics: Gene & Genome. The organization has 3772 authors who have published 6603 publications receiving 1010873 citations. The organization is also known as: CSHL.
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Papers
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TL;DR: These findings establish a cortical circuit for the enhancement of visual response by locomotion and provide a potential common Circuit for the modulation of sensory processing by behavioral state.
841 citations
TL;DR: Computational protocols that produce various output files, use different RNA‐seq datatypes, and utilize different mapping strategies are described, which provide scalability for emerging sequencing technologies.
Abstract: Mapping of large sets of high-throughput sequencing reads to a reference genome is one of the foundational steps in RNA-seq data analysis The STAR software package performs this task with high levels of accuracy and speed In addition to detecting annotated and novel splice junctions, STAR is capable of discovering more complex RNA sequence arrangements, such as chimeric and circular RNA STAR can align spliced sequences of any length with moderate error rates, providing scalability for emerging sequencing technologies STAR generates output files that can be used for many downstream analyses such as transcript/gene expression quantification, differential gene expression, novel isoform reconstruction, and signal visualization In this unit, we describe computational protocols that produce various output files, use different RNA-seq datatypes, and utilize different mapping strategies STAR is open source software that can be run on Unix, Linux, or Mac OS X systems
835 citations
Salk Institute for Biological Studies1, Cold Spring Harbor Laboratory2, University of California, San Francisco3, Leidos4, University of California, Los Angeles5, Tohoku University6, University of New South Wales7, Garvan Institute of Medical Research8, University of Sydney9, Westmead Hospital10, Hospital of the University of Pennsylvania11, University of Pennsylvania12, Howard Hughes Medical Institute13
TL;DR: It is shown that VDR acts as a master transcriptional regulator of PSCs to reprise the quiescent state, resulting in induced stromal remodeling, increased intratumoral gemcitabine, reduced tumor volume, and a 57% increase in survival compared to chemotherapy alone.
827 citations
TL;DR: Although enhancers can function in an orientation-independent manner in reporter assays, in the native chromosome context, the orientation of at least some enhancers carrying CBSs can determine both the architecture of topological chromatin domains and enhancer/promoter specificity.
821 citations
TL;DR: Biochemical studies, principally of plasmid DNAs containing the Simian Virus 40 origin of DNA replication, and yeast genetic studies have uncovered the fundamental mechanisms of replication fork progression.
Abstract: Replication of the two template strands at eukaryotic cell DNA replication forks is a highly coordinated process that ensures accurate and efficient genome duplication. Biochemical studies, principally of plasmid DNAs containing the Simian Virus 40 origin of DNA replication, and yeast genetic studies have uncovered the fundamental mechanisms of replication fork progression. At least two different DNA polymerases, a single-stranded DNA-binding protein, a clamp-loading complex, and a polymerase clamp combine to replicate DNA. Okazaki fragment synthesis involves a DNA polymerase-switching mechanism, and maturation occurs by the recruitment of specific nucleases, a helicase, and a ligase. The process of DNA replication is also coupled to cell-cycle progression and to DNA repair to maintain genome integrity.
818 citations
Authors
Showing all 3800 results
| Name | H-index | Papers | Citations |
|---|---|---|---|
| Phillip A. Sharp | 172 | 614 | 117126 |
| Gregory J. Hannon | 165 | 421 | 140456 |
| Ian A. Wilson | 158 | 971 | 98221 |
| Marco A. Marra | 153 | 620 | 184684 |
| Michael E. Greenberg | 148 | 316 | 114317 |
| Tom Maniatis | 143 | 318 | 299495 |
| Detlef Weigel | 142 | 516 | 84670 |
| Kim Nasmyth | 142 | 294 | 59231 |
| Arnold J. Levine | 139 | 485 | 116005 |
| Joseph E. LeDoux | 139 | 478 | 91500 |
| Gerald R. Fink | 138 | 316 | 70868 |
| Ramnik J. Xavier | 138 | 597 | 101879 |
| Harold E. Varmus | 137 | 496 | 76320 |
| David A. Jackson | 136 | 1095 | 68352 |
| Scott W. Lowe | 134 | 396 | 89376 |