Searching journal content for articles similar to Wilkinson et al. 4 (6): 363.

Displaying results 1-10 of 4740

For checked items

view abstracts
download to citation manager

Select this article
Method: Defining TP53 pioneering capabilities with competitive nucleosome binding assays
- Xinyang Yu and
- Michael J. Buck
Genome Res. January 2019 29: 107-115; Published in Advance November 8, 2018, doi:10.1101/gr.234104.117
...was recovered, quantified by qPCR, and sequenced. (B) A 20-bp-long p53BS (low and high affinity) was placed at different positions 0, 5, 41, 46, 66, 71, and 81 bp away from the dyad. The superhelix location (SHL) is designated for each nucleosome sequence. (C) Within the nucleosome, three different positions...
Select this article
Method: Determining the impact of uncharacterized inversions in the human genome by droplet digital PCR
- Marta Puig,
- Jon Lerga-Jaso,
- Carla Giner-Delgado,
- Sarai Pacheco,
- David Izquierdo,
- Alejandra Delprat,
- Magdalena Gayà-Vidal,
- Jack F. Regan,
- George Karlin-Neumann,
- and Mario Cáceres
Genome Res. May 2020 30: 724-735; Published in Advance May 18, 2020, doi:10.1101/gr.255273.119
...Determining the impact of uncharacterized inversions in the human by droplet digital PCR Marta Puig1, Jon Lerga-Jaso1, Carla Giner-Delgado1, Sarai Pacheco1, David Izquierdo1, Alejandra Delprat1, Magdalena Gayà-Vidal2, Jack F. Regan3, George Karlin-Neumann3 and Mario Cáceres1,4 1Institut de...
OPEN ACCESS ARTICLE
Select this article
Research: A genome-wide long noncoding RNA CRISPRi screen identifies PRANCR as a novel regulator of epidermal homeostasis
- Pengfei Cai,
- Auke B.C. Otten,
- Binbin Cheng,
- Mitsuhiro A. Ishii,
- Wen Zhang,
- Beibei Huang,
- Kun Qu,
- and Bryan K. Sun
Genome Res. January 2020 30: 22-34; Published in Advance December 4, 2019, doi:10.1101/gr.251561.119
...Measurement of the abundance of nuclear and cytoplasmic mRNA was performed as described previously (Wang et al. 2006). In short, cells were lysed, nuclei were pelleted by centrifugation, and the supernatant was collected as cytoplasmic fraction. Next, RT-PCR was performed on both fractions, followed by qPCR quantification...
Select this article
Resource: A ChIP-exo screen of 887 Protein Capture Reagents Program transcription factor antibodies in human cells
- William K.M. Lai,
- Luca Mariani,
- Gerson Rothschild,
- Edwin R. Smith,
- Bryan J. Venters,
- Thomas R. Blanda,
- Prashant K. Kuntala,
- Kylie Bocklund,
- Joshua Mairose,
- Sarah N. Dweikat,
- Katelyn Mistretta,
- Matthew J. Rossi,
- Daniela James,
- James T. Anderson,
- Sabrina K. Phanor,
- Wanwei Zhang,
- Zibo Zhao,
- Avani P. Shah,
- Katherine Novitzky,
- Eileen McAnarney,
- Michael-C. Keogh,
- Ali Shilatifard,
- Uttiya Basu,
- Martha L. Bulyk,
- and B. Franklin Pugh
Genome Res. September 2021 31: 1663-1679; Published in Advance August 23, 2021, doi:10.1101/gr.275472.121
..., solubilized chromatin was incubated with pAG Dynabeads, preloaded with 3 ug of antibody overnight, then sequentially processed through A-tailing, first adapter ligation, Phi29 fill-in, lambda exonuclease digestion, cross-link reversal, second adapter ligation, and PCR for final high-throughput sequencing...
Select this article
Research: A CRISPR knockout screen identifies SETDB1-target retroelement silencing factors in embryonic stem cells
- Kei Fukuda,
- Akihiko Okuda,
- Kosuke Yusa,
- and Yoichi Shinkai
Genome Res. June 2018 28: 846-858; Published in Advance May 4, 2018, doi:10.1101/gr.227280.117
...conducted as described previously (Tzelepis et al. 2016).Additional information on cell culture, Native ChIP, crosslinked ChIP, DNA methylation analysis, FAIRE, Western blotting, immunofluorescence analysis, cDNA synthesis, qPCR, RNA-seq analysis, ChIP-seq analysis, knockdown analysis, peptide binding assay...
Select this article
Research: SARS-CoV-2 genomic diversity and the implications for qRT-PCR diagnostics and transmission
- Nicolae Sapoval,
- Medhat Mahmoud,
- Michael D. Jochum,
- Yunxi Liu,
- R.A. Leo Elworth,
- Qi Wang,
- Dreycey Albin,
- Huw A. Ogilvie,
- Michael D. Lee,
- Sonia Villapol,
- Kyle M. Hernandez,
- Irina Maljkovic Berry,
- Jonathan Foox,
- Afshin Beheshti,
- Krista Ternus,
- Kjersti M. Aagaard,
- David Posada,
- Christopher E. Mason,
- Fritz J. Sedlazeck,
- and Todd J. Treangen
Genome Res. April 2021 31: 635-644; Published in Advance February 18, 2021, doi:10.1101/gr.268961.120
...-CoV-2. In this setting, sensitivity determines how well the detection tests can capture the diversity of all SARS-CoV-2 variants. Lack of sensitivity leads to an increase in false-negative qRT-PCR results, because two or more mismatches can result in increases in CT values and degradation in accuracy...
OPEN ACCESS ARTICLE
Select this article
Method: A novel assay to screen siRNA libraries identifies protein kinases required for chromosome transmission
- Mikhail Liskovykh,
- Nikolay V. Goncharov,
- Nikolai Petrov,
- Vasilisa Aksenova,
- Gianluca Pegoraro,
- Laurent L. Ozbun,
- William C. Reinhold,
- Sudhir Varma,
- Mary Dasso,
- Vadim Kumeiko,
- Hiroshi Masumoto,
- William C. Earnshaw,
- Vladimir Larionov,
- and Natalay Kouprina
Genome Res. October 2019 29: 1719-1732; Published in Advance September 12, 2019, doi:10.1101/gr.254276.119
...-bp fragments of the cell cycle sensors, GFP-CDT1 and GFP-GMNN, containing the coding region of the GFP were PCR-amplified from GFP-CDT1 and GFP-GMNN synthetized gBlocks (Integrated DNA Technologies [IDT]) using the corresponding primers (Supplemental Table S7). The primers contain EcoRI restriction...
OPEN ACCESS ARTICLE
Select this article
Method: Quantitative mitochondrial DNA copy number determination using droplet digital PCR with single-cell resolution
- Ryan O'Hara,
- Enzo Tedone,
- Andrew Ludlow,
- Ejun Huang,
- Beatrice Arosio,
- Daniela Mari,
- and Jerry W. Shay
Genome Res. November 2019 29: 1878-1888; Published in Advance September 23, 2019, doi:10.1101/gr.250480.119
...of mtDNA as a biomarker highlights the need for a more high-throughput method of mtDNA quantification. The current standard employed in the measurement of mtDNA copy number is quantitative PCR (qPCR). Measurements by qPCR require the use of a reference gene and are often displayed as a ratio...
OPEN ACCESS ARTICLE
Select this article
Method: Arrayed CRISPR screen with image-based assay reliably uncovers host genes required for coxsackievirus infection
- Heon Seok Kim,
- Kyungjin Lee,
- Seong-Jun Kim,
- Sungchan Cho,
- Hye Jin Shin,
- Chonsaeng Kim,
- and Jin-Soo Kim
Genome Res. June 2018 28: 859-868; Published in Advance April 30, 2018, doi:10.1101/gr.230250.117
...pooled library was a gift from Feng Zhang (Addgene #1000000048) (Sanjana et al. 2014). The oligo pool for the focused library was purchased from CustomArray, Inc. The single-stranded oligos were amplified to double-stranded DNA by PCR and assembled to a lentiviral sgRNA plasmid using NEBuilder HiFi DNA...
OPEN ACCESS ARTICLE
Select this article
Method: Detection of long repeat expansions from PCR-free whole-genome sequence data
- Egor Dolzhenko,
- Joke J.F.A. van Vugt,
- Richard J. Shaw,
- Mitchell A. Bekritsky,
- Marka van Blitterswijk,
- Giuseppe Narzisi,
- Subramanian S. Ajay,
- Vani Rajan,
- Bryan R. Lajoie,
- Nathan H. Johnson,
- Zoya Kingsbury,
- Sean J. Humphray,
- Raymond D. Schellevis,
- William J. Brands,
- Matt Baker,
- Rosa Rademakers,
- Maarten Kooyman,
- Gijs H.P. Tazelaar,
- Michael A. van Es,
- Russell McLaughlin,
- William Sproviero,
- Aleksey Shatunov,
- Ashley Jones,
- Ahmad Al Khleifat,
- Alan Pittman,
- Sarah Morgan,
- Orla Hardiman,
- Ammar Al-Chalabi,
- Chris Shaw,
- Bradley Smith,
- Edmund J. Neo,
- Karen Morrison,
- Pamela J. Shaw,
- Catherine Reeves,
- Lara Winterkorn,
- Nancy S. Wexler,
- The US–Venezuela Collaborative Research Group,
- David E. Housman,
- Christopher W. Ng,
- Alina L. Li,
- Ryan J. Taft,
- Leonard H. van den Berg,
- David R. Bentley,
- Jan H. Veldink,
- and Michael A. Eberle
Genome Res. November 2017 27: 1895-1903; Published in Advance September 8, 2017, doi:10.1101/gr.225672.117
...indicate a homozygous variant or a pathogenic repeat expansion. Subjects with a single PCR fragment were selected for RP-PCR, and PCR products were analyzed with an ABI 3730 DNA Analyzer and GeneMapper software. If the RP-PCR revealed a characteristic stutter pattern, these individuals were screened using...
OPEN ACCESS ARTICLE

For checked items

view abstracts
download to citation manager

Searching journal content for articles similar to Wilkinson et al. 4 (6): 363.

Search Results

Modify Results

This search

Preprint Server

Current Issue

In This Issue

Citation format:
Results / page:
Results order: