(Q36298062)

17 October 2017

Prediction of potent shRNAs with a sequential classification algorithm (English)

1 reference

17 October 2017

classification algorithm

1 reference

15

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17 October 2017

19

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17 October 2017

Johannes Zuber

16

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author name string

Raphael Pelossof

1

1 reference

17 October 2017

Lauren Fairchild

2

1 reference

17 October 2017

Chun-Hao Huang

3

1 reference

17 October 2017

Christian Widmer

4

1 reference

17 October 2017

Vipin T Sreedharan

5

1 reference

17 October 2017

Nishi Sinha

6

1 reference

17 October 2017

Dan-Yu Lai

7

1 reference

17 October 2017

Yuanzhe Guan

8

1 reference

17 October 2017

Prem K Premsrirut

9

1 reference

17 October 2017

Darjus F Tschaharganeh

10

1 reference

17 October 2017

Thomas Hoffmann

11

1 reference

17 October 2017

Vishal Thapar

12

1 reference

17 October 2017

Qing Xiang

13

1 reference

17 October 2017

Ralph J Garippa

14

1 reference

17 October 2017

Scott W Lowe

17

1 reference

17 October 2017

Christina S Leslie

18

1 reference

17 October 2017

6 March 2017

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17 October 2017

1 reference

17 October 2017

35

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17 October 2017

350-353

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17 October 2017

4

1 reference

https://scigraph.springernature.com/pub.10.1038/nbt.3807

17 October 2017

0 references

cites work

Systematic comparison of CRISPR/Cas9 and RNAi screens for essential genes

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5416823

Quantitative evaluation of first, second, and third generation hairpin systems reveals the limit of mammalian vector-based RNAi.

29 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5416823

miRNA-embedded shRNAs for Lineage-specific BCL11A Knockdown and Hemoglobin F Induction

29 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5416823

Next-generation libraries for robust RNA interference-based genome-wide screens.

29 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5416823

Orchestrating high-throughput genomic analysis with Bioconductor

29 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5416823

A computational algorithm to predict shRNA potency.

29 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5416823

CRISPR-Cas9 knockin mice for genome editing and cancer modeling

29 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5416823

Development of siRNA payloads to target KRAS-mutant cancer

29 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5416823

Measuring error rates in genomic perturbation screens: gold standards for human functional genomics

29 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5416823

Off-target effect of doublecortin family shRNA on neuronal migration associated with endogenous microRNA dysregulation

29 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5416823

Stable RNA interference rules for silencing

29 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5416823

An optimized microRNA backbone for effective single-copy RNAi

29 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5416823

Ubiquitously transcribed genes use alternative polyadenylation to achieve tissue-specific expression

29 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5416823

3' UTR-isoform choice has limited influence on the stability and translational efficiency of most mRNAs in mouse fibroblasts

29 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5416823

Software for computing and annotating genomic ranges

29 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5416823

Integrated platform for genome-wide screening and construction of high-density genetic interaction maps in mammalian cells

29 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5416823

Beyond secondary structure: primary-sequence determinants license pri-miRNA hairpins for processing.

29 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5416823

The loop position of shRNAs and pre-miRNAs is critical for the accuracy of dicer processing in vivo

29 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5416823

DSIR: assessing the design of highly potent siRNA by testing a set of cancer-relevant target genes

29 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5416823

Optimized models for design of efficient miR30-based shRNAs

29 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5416823

A quantitative atlas of polyadenylation in five mammals

29 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5416823

A bioinformatics method identifies prominent off-targeted transcripts in RNAi screens

29 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5416823

A pipeline for the generation of shRNA transgenic mice

29 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5416823

Functional identification of optimized RNAi triggers using a massively parallel sensor assay

29 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5416823

Toolkit for evaluating genes required for proliferation and survival using tetracycline-regulated RNAi

29 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5416823

Artificial microRNAs as siRNA shuttles: improved safety as compared to shRNAs in vitro and in vivo

29 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5416823

Artificial miRNAs mitigate shRNA-mediated toxicity in the brain: implications for the therapeutic development of RNAi

29 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5416823

An accurate and interpretable model for siRNA efficacy prediction

29 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5416823

Fatality in mice due to oversaturation of cellular microRNA/short hairpin RNA pathways

29 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5416823

Criteria for effective design, construction, and gene knockdown by shRNA vectors

29 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5416823

Design of a genome-wide siRNA library using an artificial neural network

29 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5416823

Ectopic expression of Oct-4 blocks progenitor-cell differentiation and causes dysplasia in epithelial tissues

29 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5416823

Overexpression of exportin 5 enhances RNA interference mediated by short hairpin RNAs and microRNAs

29 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5416823

Rational siRNA design for RNA interference

29 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5416823

Functional siRNAs and miRNAs Exhibit Strand Bias

29 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5416823

Asymmetry in the assembly of the RNAi enzyme complex

29 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5416823

A comparison of siRNA efficacy predictors.

29 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5416823

The spectrum kernel: a string kernel for SVM protein classification.

22 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5416823

22 September 2018

Identifiers

DOI

10.1038/NBT.3807

1 reference

17 October 2017

1 reference

17 October 2017

1 reference