Luca Pinello: search on Z-Library

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1

Integrated design, execution, and analysis of arrayed and pooled CRISPR genome-editing experiments

Canver, Matthew C, Haeussler, Maximilian, Bauer, Daniel E, Orkin, Stuart H, Sanjana, Neville E, Shalem, Ophir, Yuan, Guo-Cheng, Zhang, Feng, Concordet, Jean-Paul, Pinello, Luca

Journal:

Nature Protocols

Year:

2018

Language:

english

File:

PDF, 1.00 MB

english, 2018

2

Impact of Genetic Variation on CRISPR-Cas Targeting

Canver, Matthew C., Joung, J. Keith, Pinello, Luca

Journal:

The CRISPR Journal

Year:

2018

Language:

english

File:

PDF, 697 KB

english, 2018

3

CRISPResso2 provides accurate and rapid genome editing sequence analysis

Clement, Kendell, Rees, Holly, Canver, Matthew C., Gehrke, Jason M., Farouni, Rick, Hsu, Jonathan Y., Cole, Mitchel A., Liu, David R., Joung, J. Keith, Bauer, Daniel E., Pinello, Luca

Journal:

Nature Biotechnology

Year:

2019

Language:

english

File:

PDF, 777 KB

english, 2019

4

Analyzing CRISPR genome-editing experiments with CRISPResso

Pinello, Luca, Canver, Matthew C, Hoban, Megan D, Orkin, Stuart H, Kohn, Donald B, Bauer, Daniel E, Yuan, Guo-Cheng

Journal:

Nature Biotechnology

Year:

2016

Language:

english

File:

PDF, 410 KB

english, 2016

5

An APOBEC3A-Cas9 base editor with minimized bystander and off-target activities

Gehrke, Jason M, Cervantes, Oliver, Clement, M Kendell, Wu, Yuxuan, Zeng, Jing, Bauer, Daniel E, Pinello, Luca, Joung, J Keith

Journal:

Nature Biotechnology

Year:

2018

Language:

english

File:

PDF, 1.36 MB

english, 2018

6

High-fat diet enhances stemness and tumorigenicity of intestinal progenitors

Beyaz, Semir, Mana, Miyeko D., Roper, Jatin, Kedrin, Dmitriy, Saadatpour, Assieh, Hong, Sue-Jean, Bauer-Rowe, Khristian E., Xifaras, Michael E., Akkad, Adam, Arias, Erika, Pinello, Luca, Katz, Yarden,

Journal:

Year:

2016

Language:

english

File:

PDF, 10.42 MB

english, 2016

7

Assessment of computational methods for the analysis of single-cell ATAC-seq data

Chen, Huidong, Lareau, Caleb, Andreani, Tommaso, Vinyard, Michael E., Garcia, Sara P., Clement, Kendell, Andrade-Navarro, Miguel A., Buenrostro, Jason D., Pinello, Luca

Journal:

Year:

2019

Language:

english

File:

PDF, 4.44 MB

english, 2019

8

The role of Cdx2 as a lineage specific transcriptional repressor for pluripotent network during the first developmental cell lineage segregation

Huang, Daosheng, Guo, Guoji, Yuan, Ping, Ralston, Amy, Sun, Lingang, Huss, Mikael, Mistri, Tapan, Pinello, Luca, Ng, Huck Hui, Yuan, Guocheng, Ji, Junfeng, Rossant, Janet, Robson, Paul, Han, Xiaoping

Journal:

Scientific Reports

Year:

2017

Language:

english

File:

PDF, 5.18 MB

english, 2017

9

Combinatorial Assembly of Developmental Stage-Specific Enhancers Controls Gene Expression Programs during Human Erythropoiesis

Xu, Jian, Shao, Zhen, Glass, Kimberly, Bauer, Daniel E., Pinello, Luca, Van Handel, Ben, Hou, Serena, Stamatoyannopoulos, John A., Mikkola, Hanna K.A., Yuan, Guo-Cheng, Orkin, Stuart H.

Journal:

Developmental Cell

Year:

2012

Language:

english

File:

PDF, 4.65 MB

english, 2012

10

Forward genetic screen of human transposase genomic rearrangements

Henssen, Anton G., Jiang, Eileen, Zhuang, Jiali, Pinello, Luca, Socci, Nicholas D., Koche, Richard, Gonen, Mithat, Villasante, Camila M., Armstrong, Scott A., Bauer, Daniel E., Weng, Zhiping, Kentsis,

Journal:

Year:

2016

Language:

english

File:

PDF, 2.04 MB

english, 2016

11

A methodology to assess the intrinsic discriminative ability of a distance function and its interplay with clustering algorithms for microarray data analysis

Raffaele Giancarlo, Giosué Lo Bosco, Luca Pinello, Filippo Utro

Journal:

BMC Bioinformatics

Year:

2013

Language:

english

File:

PDF, 2.28 MB

english, 2013

12

Robust and Scalable Learning of Complex Intrinsic Dataset Geometry via ElPiGraph

Albergante, Luca, Mirkes, Evgeny, Bac, Jonathan, Chen, Huidong, Martin, Alexis, Faure, Louis, Barillot, Emmanuel, Pinello, Luca, Gorban, Alexander, Zinovyev, Andrei

Journal:

Year:

2020

File:

PDF, 4.99 MB

2020

13

A multi-layer method to study genome-scale positions of nucleosomes

Vito Di Gesù, Giosuè Lo Bosco, Luca Pinello, Guo-Cheng Yuan, Davide F.V. Corona

Journal:

Year:

2009

Language:

english

File:

PDF, 508 KB

english, 2009

14

A molecular roadmap for induced multi-lineage trans-differentiation of fibroblasts by chemical combinations

Han, Xiaoping, Yu, Hao, Huang, Daosheng, Xu, Yang, Saadatpour, Assieh, Li, Xia, Wang, Lengmei, Yu, Jie, Pinello, Luca, Lai, Shujing, Jiang, Mengmeng, Tian, Xueying, Zhang, Fen, Cen, Yanhong, Fujiwara,

Journal:

Year:

2017

Language:

english

File:

PDF, 3.50 MB

english, 2017

15

Haystack: systematic analysis of the variation of epigenetic states and cell-type specific regulatory elements

Pinello, Luca, Farouni, Rick, Yuan, Guo-Cheng

Journal:

Year:

2018

Language:

english

File:

PDF, 377 KB

english, 2018

16

Author Correction: High-fat diet enhances stemness and tumorigenicity of intestinal progenitors

Beyaz, Semir, Mana, Miyeko D., Roper, Jatin, Kedrin, Dmitriy, Saadatpour, Assieh, Hong, Sue-Jean, Bauer-Rowe, Khristian E., Xifaras, Michael E., Akkad, Adam, Arias, Erika, Pinello, Luca, Katz, Yarden,

Journal:

Year:

2018

Language:

english

File:

PDF, 331 KB

english, 2018

17

Predicting chromatin organization using histone marks

Huang, Jialiang, Marco, Eugenio, Pinello, Luca, Yuan, Guo-Cheng

Journal:

Year:

2015

Language:

english

File:

PDF, 1.35 MB

english, 2015

18

GiniClust: detecting rare cell types from single-cell gene expression data with Gini index

Jiang, Lan, Chen, Huidong, Pinello, Luca, Yuan, Guo-Cheng

Journal:

Year:

2016

Language:

english

File:

PDF, 2.21 MB

english, 2016

19

Variant-aware saturating mutagenesis using multiple Cas9 nucleases identifies regulatory elements at trait-associated loci

Canver, Matthew C, Lessard, Samuel, Pinello, Luca, Wu, Yuxuan, Ilboudo, Yann, Stern, Emily N, Needleman, Austen J, Galactéros, Frédéric, Brugnara, Carlo, Kutlar, Abdullah, McKenzie, Colin, Reid, Marvi

Journal:

Nature Genetics

Year:

2017

Language:

english

File:

PDF, 1.48 MB

english, 2017

20

A molecular roadmap for induced multi-lineage trans-differentiation of fibroblasts by chemical combinations

Han, Xiaoping, Yu, Hao, Huang, Daosheng, Xu, Yang, Saadatpour, Assieh, Li, Xia, Wang, Lengmei, Yu, Jie, Pinello, Luca, Lai, Shujing, Jiang, Mengmeng, Tian, Xueying, Zhang, Fen, Cen, Yanhong, Fujiwara,

Journal:

Year:

2017

Language:

english

File:

PDF, 632 KB

english, 2017

21

BCL11A enhancer dissection by Cas9-mediated in situ saturating mutagenesis

Canver, Matthew C., Smith, Elenoe C., Sher, Falak, Pinello, Luca, Sanjana, Neville E., Shalem, Ophir, Chen, Diane D., Schupp, Patrick G., Vinjamur, Divya S., Garcia, Sara P., Luc, Sidinh, Kurita, Ryo,

Journal:

Year:

2015

Language:

english

File:

PDF, 2.88 MB

english, 2015

22

BRCA1 Recruitment to Transcriptional Pause Sites Is Required for R-Loop-Driven DNA Damage Repair

Hatchi, Elodie, Skourti-Stathaki, Konstantina, Ventz, Steffen, Pinello, Luca, Yen, Angela, Kamieniarz-Gdula, Kinga, Dimitrov, Stoil, Pathania, Shailja, McKinney, Kristine M., Eaton, Matthew L., Kellis

Journal:

Year:

2015

Language:

english

File:

PDF, 2.76 MB

english, 2015

23

Response to “Unexpected mutations after CRISPR–Cas9 editing in vivo”

Lareau, Caleb A, Clement, Kendell, Hsu, Jonathan Y, Pattanayak, Vikram, Joung, J Keith, Aryee, Martin J, Pinello, Luca

Journal:

Year:

2018

Language:

english

File:

PDF, 148 KB

english, 2018

24

AmpUMI: design and analysis of unique molecular identifiers for deep amplicon sequencing

Clement, Kendell, Farouni, Rick, Bauer, Daniel E, Pinello, Luca

Journal:

Year:

2018

Language:

english

File:

PDF, 370 KB

english, 2018

25

Genome-wide characterization of chromatin binding and nucleosome spacing activity of the nucleosome remodelling ATPase ISWI

Sala, Anna, Toto, Maria, Pinello, Luca, Gabriele, Alessandra, Di Benedetto, Valeria, Ingrassia, Antonia M R, Lo Bosco, Giosuè, Di Gesù, Vito, Giancarlo, Raffaele, Corona, Davide F V

Journal:

The EMBO Journal

Year:

2011

Language:

english

File:

PDF, 2.05 MB

english, 2011

26

Developmental Control of Polycomb Subunit Composition by GATA Factors Mediates a Switch to Non-Canonical Functions

Xu, Jian, Shao, Zhen, Li, Dan, Xie, Huafeng, Kim, Woojin, Huang, Jialiang, Taylor, Jordan E., Pinello, Luca, Glass, Kimberly, Jaffe, Jacob D., Yuan, Guo-Cheng, Orkin, Stuart H.

Journal:

Year:

2015

Language:

english

File:

PDF, 6.47 MB

english, 2015

27

The cohesin-associated protein Wapal is required for proper Polycomb-mediated gene silencing

Stelloh, Cary, Reimer, Michael H., Pulakanti, Kirthi, Blinka, Steven, Peterson, Jonathan, Pinello, Luca, Jia, Shuang, Roumiantsev, Sergei, Hessner, Martin J., Milanovich, Samuel, Yuan, Guo-Cheng, Rao,

Journal:

Epigenetics & Chromatin

Year:

2016

Language:

english

File:

PDF, 2.26 MB

english, 2016

28

Multi-scale chromatin state annotation using a hierarchical hidden Markov model

Marco, Eugenio, Meuleman, Wouter, Huang, Jialiang, Glass, Kimberly, Pinello, Luca, Wang, Jianrong, Kellis, Manolis, Yuan, Guo-Cheng

Journal:

Nature Communications

Year:

2017

Language:

english

File:

PDF, 691 KB

english, 2017

29

CRISPRO: identification of functional protein coding sequences based on genome editing dense mutagenesis

Schoonenberg, Vivien A. C., Cole, Mitchel A., Yao, Qiuming, Macias-Treviño, Claudio, Sher, Falak, Schupp, Patrick G., Canver, Matthew C., Maeda, Takahiro, Pinello, Luca, Bauer, Daniel E.

Journal:

Year:

2018

Language:

english

File:

PDF, 4.01 MB

english, 2018

30

Serum-Based Culture Conditions Provoke Gene Expression Variability in Mouse Embryonic Stem Cells as Revealed by Single-Cell Analysis

Guo, Guoji, Pinello, Luca, Han, Xiaoping, Lai, Shujing, Shen, Li, Lin, Ta-Wei, Zou, Keyong, Yuan, Guo-Cheng, Orkin, Stuart H.

Journal:

Year:

2016

Language:

english

File:

PDF, 4.82 MB

english, 2016

31

Acquired Tissue-Specific Promoter Bivalency Is a Basis for PRC2 Necessity in Adult Cells

Jadhav, Unmesh, Nalapareddy, Kodandaramireddy, Saxena, Madhurima, O’Neill, Nicholas K., Pinello, Luca, Yuan, Guo-Cheng, Orkin, Stuart H., Shivdasani, Ramesh A.

Journal:

Year:

2016

Language:

english

File:

PDF, 4.58 MB

english, 2016

32

Parallel Single-Cell RNA-Seq and Genetic Recording Reveals Lineage Decisions in Developing Embryoid Bodies

Kim, Ik Soo, Wu, Jingyi, Rahme, Gilbert J., Battaglia, Sofia, Dixit, Atray, Gaskell, Elizabeth, Chen, Huidong, Pinello, Luca, Bernstein, Bradley E.

Journal:

Year:

2020

File:

PDF, 5.72 MB

2020

33

Distinct and Combinatorial Functions of Jmjd2b/Kdm4b and Jmjd2c/Kdm4c in Mouse Embryonic Stem Cell Identity

Das, Partha Pratim, Shao, Zhen, Beyaz, Semir, Apostolou, Eftychia, Pinello, Luca, Angeles, Alejandro De Los, O’Brien, Kassandra, Atsma, Jennifer Marino, Fujiwara, Yuko, Nguyen, Minh, Ljuboja, Damir, G

Journal:

Year:

2014

Language:

english

File:

PDF, 3.17 MB

english, 2014

34

Impact of the N-terminal domain of STAT3 in STAT3-dependent transcriptional activity

Hu, Tiancen, Yeh, Jennifer E., Pinello, Luca, Jacob, Jaison, Chakravarthy, Srinivas, Yuan, Guo-Cheng, Chopra, Rajiv, Frank, David A.

Journal:

Molecular and Cellular Biology

Year:

2015

Language:

english

File:

PDF, 1.24 MB

english, 2015

35

A one class KNN for signal identification: a biological case study

Gesu, Vito Di, Bosco, Giosue Lo, Pinello, Luca

Journal:

International Journal of Knowledge Engineering and Soft Data Paradigms

Year:

2009

Language:

english

File:

PDF, 268 KB

english, 2009

36

Testing the visual field of children and adults with Rarebit: The role of task repetition on sensitivity

Tachyla, Iryna, Battaglini, Luca, Barollo, Michele, Cosentino, Simone, Contemori, Giulio, Pinello, Luisa, Ciavarelli, Ambra, Casco, Clara, Maiello, Guido

Journal:

Year:

2019

File:

PDF, 935 KB

2019

37

The histone demethylase UTX regulates the lineage-specific epigenetic program of invariant natural killer T cells

Beyaz, Semir, Kim, Ji Hyung, Pinello, Luca, Xifaras, Michael E, Hu, Yu, Huang, Jialiang, Kerenyi, Marc A, Das, Partha P, Barnitz, R Anthony, Herault, Aurelie, Dogum, Rizkullah, Haining, W Nicholas, Yi

Journal:

Nature Immunology

Year:

2016

Language:

english

File:

PDF, 3.10 MB

english, 2016

38

LSD1 suppresses invasion, migration and metastasis of luminal breast cancer cells via activation of GATA3 and repression of TRIM37 expression

Hu, Xin, Xiang, Dongxi, Xie, Ying, Tao, Luwei, Zhang, Yu, Jin, Yue, Pinello, Luca, Wan, Youzhong, Yuan, Guo-Cheng, Li, Zhe

Journal:

Year:

2019

File:

PDF, 3.86 MB

2019

39

Testing the visual field of children and adults with Rarebit: The role of task repetition on sensitivity

Tachyla, Iryna, Battaglini, Luca, Barollo, Michele, Cosentino, Simone, Contemori, Giulio, Pinello, Luisa, Ciavarelli, Ambra, Casco, Clara, Maiello, Guido

Journal:

Year:

2019

Language:

english

File:

PDF, 935 KB

english, 2019

40

A motif-independent metric for DNA sequence specificity

Luca Pinello, Giosuè Lo Bosco, Bret Hanlon, Guo-Cheng Yuan

Journal:

BMC Bioinformatics

Year:

2011

Language:

english

File:

PDF, 431 KB

english, 2011

41

Enhancer transcribed RNAs arise from hypomethylated, Tet-occupied genomic regions

Pulakanti, Kirthi, Pinello, Luca, Stelloh, Cary, Blinka, Steven, Allred, Jeremy, Milanovich, Samuel, Kiblawi, Sid, Peterson, Jonathan, Wang, Alexander, Yuan, Guo-Cheng, Rao, Sridhar

Journal:

Year:

2013

Language:

english

File:

PDF, 7.73 MB

english, 2013

42

Hyper-vision of mirror symmetry in patients with macular degenerationreflects parafoveal cortical reorganization

Clara, Casco, Elisa, DeStefani, Luisa, Pinello, Giovanni, Sato, Luca, Battaglini

Journal:

Restorative Neurology and Neuroscience

Year:

2015

Language:

english

File:

PDF, 621 KB

english, 2015

43

Epigenetic alterations in keratinocyte carcinoma

Yao, Qiuming, Epstein, Charles B., Banskota, Samridhi, Issner, Robbyn, Kim, Yuhree, Bernstein, Bradley E., Pinello, Luca, Asgari, Maryam M.

Journal:

The Journal of Investigative Dermatology

Year:

2020

File:

PDF, 12.41 MB

2020

44

CRISPR-Cas9 Screen Identifies XPO7 as a Novel Therapeutic Target for TP53-Mutated AML

Semba, Yuchiro, Yamauchi, Takuji, Nakao, Fumihiko, Nogami, Junpei, Yao, Qiuming, Canver, Matthew, Pinello, Luca, Bauer, Daniel, Akashi, Koichi, Takahiro, Maeda

Journal:

Clinical Lymphoma Myeloma and Leukemia

Year:

2019

Language:

english

File:

PDF, 93 KB

english, 2019

45

Functionally distinct patterns of nucleosome remodeling at enhancers in glucocorticoid-treated acute lymphoblastic leukemia

Wu, Jennifer N., Pinello, Luca, Yissachar, Elinor, Wischhusen, Jonathan W., Yuan, Guo-Cheng, Roberts, Charles W. M.

Journal:

Epigenetics & Chromatin

Year:

2015

Language:

english

File:

PDF, 4.51 MB

english, 2015

46

DrugThatGene: integrative analysis to streamline the identification of druggable genes, pathways, and protein complexes from CRISPR screens

Canver, Matthew C, Bauer, Daniel E, Maeda, Takahiro, Pinello, Luca, Wren, Jonathan

Journal:

Year:

2018

Language:

english

File:

PDF, 337 KB

english, 2018

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