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• The anti-leprosy drug clofazimine reduces polyQ toxicity through activation of PPARγ

  Xuexin Li, et al., bioRxiv - Neuroscience 2023

  Quote: ... Lentiviral packaging vectors pMD2.G (Addgene, #12259) and psPAX2 (Addgene ...
• The anti-leprosy drug clofazimine reduces polyQ toxicity through activation of PPARγ

  Xuexin Li, et al., bioRxiv - Neuroscience 2023

  Quote: ... pLVX-UbC-rtTA-polyQ94-CFP was cloned by SK-polyQ94-CFP and pLVX-UbC-rtTA-Ngn2:2A:Ascl1 (Addgene, #127289) using the dual NotI sites ...
• Regulation of parvalbumin interneuron plasticity by neuropeptide-encoding genes

  Martijn Selten, et al., bioRxiv - Neuroscience 2023

  Quote: ... AAV8-hSyn-DIO-mCherry (Addgene 50459), AAV8-hSyn-DIO-hM4D(Gi)-mCherry (Addgene 44362) ...
• Regulation of parvalbumin interneuron plasticity by neuropeptide-encoding genes

  Martijn Selten, et al., bioRxiv - Neuroscience 2023

  Quote: The following viruses were used in this study: AAV8-hSyn-DIO-hM3D(Gq)-mCherry (Addgene 44361), AAV8-hSyn-DIO-mCherry (Addgene 50459) ...
• Optogenetic recruitment of hypothalamic corticotrophin-releasing-hormone (CRH) neurons reduces motivational drive

  Caitlin S Mitchell, et al., bioRxiv - Neuroscience 2023

  Quote: ... Mice received stereotaxic PVN-directed injections of either AAV5-DIO-ChR2-YFP or AAV5-DIO-YFP (Addgene; anteroposterior (AP): −0.7 ...
• Nucleus Accumbens Local Circuit for Cue-Dependent Aversive Learning

  Andrew Belilos, et al., bioRxiv - Neuroscience 2023

  Quote: ... resulting in plasmid pOTTC1642 (Addgene #195018). All cloning reactions used PCR amplification and ligation-independent cloning (In-Fusion ...
• Ethyl Maltol Disrupts Iron Homeostasis in SH-SY5Y Neuroblastoma Cell Line

  Yuchen Sun, Joseph Bressler, bioRxiv - Pharmacology and Toxicology 2023

  Quote: Transient transfection was performed with pEGFP-n1-APP (69924, Addgene) using the jetOPTIMUS transfection reagent (Polyplus ...
• The FIBRILLIN multigene family in tomato, their roles in plastoglobuli structure and metabolism

  Juliana Almeida, et al., bioRxiv - Plant Biology 2023

  Quote: ... BsaI recognition site and compatible vector overhang was used to generate specific gRNA amplicons by PCR from an gRNA scaffold template (AddGene no ...
• The MOM1 complex recruits the RdDM machinery via MORC6 to establish de novo DNA methylation

  Zheng Li, et al., bioRxiv - Plant Biology 2023

  Quote: ... and MOM1 CMM2 domain (aa1660-aa1860)5 were first cloned into gateway entry vectors followed by LR reaction with pGBKT7-GW (Addgene 61703) and pGADT7-GW (Addgene 61702 ...
• The MOM1 complex recruits the RdDM machinery via MORC6 to establish de novo DNA methylation

  Zheng Li, et al., bioRxiv - Plant Biology 2023

  Quote: ... and pGADT7-GW (Addgene 61702) destination vectors ...
• Transcript-specific induction of stop codon readthrough using CRISPR-dCas13 system

  Lekha E. Manjunath, et al., bioRxiv - Molecular Biology 2023

  Quote: ... pC015-dLwCas13a-NF expressing the catalytically inactive mutant of Cas13 (dCas13) and pC016-LwCas13a guide expression backbone (with U6 promoter) were a gift from Feng Zhang (Addgene plasmids #91902, #91905 and #91906)(Abudayyeh et al. ...
• Transcript-specific induction of stop codon readthrough using CRISPR-dCas13 system

  Lekha E. Manjunath, et al., bioRxiv - Molecular Biology 2023

  Quote: ... a gift from Daniel Liebler (Addgene plasmid #72850) (Halvey et al ...
• Transcript-specific induction of stop codon readthrough using CRISPR-dCas13 system

  Lekha E. Manjunath, et al., bioRxiv - Molecular Biology 2023

  Quote: ... pLentiRNACRISPR_001-hU6-DR_BsmBI-EFS-PguCas13b-NLS-2A-Puro -WPRE expressing PguCas13b was a gift from Neville Sanjana (Addgene plasmid # 138143) (Wessels et al ...
• RTF2 controls replication repriming and ribonucleotide excision at the replisome

  Brooke A. Conti, et al., bioRxiv - Molecular Biology 2023

  Quote: ... ppyCAG_RNaseH1_D210N was a gift from Xiang-Dong Fu (Addgene plasmid # 111904; http://n2t.net/addgene:111904 ; RRID:Addgene_111904). pcDNA5-FRT-TO-EGFP-AID was a gift from Andrew Holland (Addgene plasmid # 80075 ...
• RTF2 controls replication repriming and ribonucleotide excision at the replisome

  Brooke A. Conti, et al., bioRxiv - Molecular Biology 2023

  Quote: ... ppyCAG_RNaseH1_WT was a gift from Xiang-Dong Fu (Addgene plasmid# 111906; http://n2t.net/addgene:111906; RRID:Addgene_111906). ppyCAG_RNaseH1_D210N was a gift from Xiang-Dong Fu (Addgene plasmid # 111904 ...
• RTF2 controls replication repriming and ribonucleotide excision at the replisome

  Brooke A. Conti, et al., bioRxiv - Molecular Biology 2023

  Quote: ... psPAX2 was a gift from Didier Trono (Addgene plasmid # 12260 ...
• RTF2 controls replication repriming and ribonucleotide excision at the replisome

  Brooke A. Conti, et al., bioRxiv - Molecular Biology 2023

  Quote: ... pGEX6P1-hsRNASEH2BCA was a gift from Andrew Jackson & Martin Reijns (Addgene plasmid # 108692 ...
• RTF2 controls replication repriming and ribonucleotide excision at the replisome

  Brooke A. Conti, et al., bioRxiv - Molecular Biology 2023

  Quote: ... pMD2.G was a gift from Didier Trono (Addgene plasmid # 12259 ...
• RTF2 controls replication repriming and ribonucleotide excision at the replisome

  Brooke A. Conti, et al., bioRxiv - Molecular Biology 2023

  Quote: ... pMD2.G was a gift from Didier Trono (Addgene plasmid # 12259; http://n2t.net/addgene:12259; RRID:Addgene_12259). psPAX2 was a gift from Didier Trono (Addgene plasmid # 12260 ...
• RTF2 controls replication repriming and ribonucleotide excision at the replisome

  Brooke A. Conti, et al., bioRxiv - Molecular Biology 2023

  Quote: ... pcDNA5-FRT-TO-EGFP-AID was a gift from Andrew Holland (Addgene plasmid # 80075; http://n2t.net/addgene:80075; RRID:Addgene_80075). MLM3636 was a gift from Keith Joung (Addgene plasmid # 43860 ...
• RTF2 controls replication repriming and ribonucleotide excision at the replisome

  Brooke A. Conti, et al., bioRxiv - Molecular Biology 2023

  Quote: ... pX330-U6-Chimeric_BB-CBh-hSpCas9 was a gift from Feng Zhang (Addgene plasmid # 42230; http://n2t.net/addgene:42230; RRID:Addgene_42230). pGEX6P1-hsRNASEH2BCA was a gift from Andrew Jackson & Martin Reijns (Addgene plasmid # 108692 ...
• RTF2 controls replication repriming and ribonucleotide excision at the replisome

  Brooke A. Conti, et al., bioRxiv - Molecular Biology 2023

  Quote: ... MLM3636 was a gift from Keith Joung (Addgene plasmid # 43860; http://n2t.net/addgene:43860; RRID:Addgene_43860). pX330-U6-Chimeric_BB-CBh-hSpCas9 was a gift from Feng Zhang (Addgene plasmid # 42230 ...
• Construction of Fosmid-based SARS-CoV-2 replicons for antiviral drug screening and replication analyses in biosafety level 2 facilities

  Shunta Takazawa, et al., bioRxiv - Microbiology 2023

  Quote: ... the puromycin N-acetyltransferase (PAC) gene was amplified from pLenti CMV Puro DEST (w118-1) (Addgene #17452) by PCR ...
• Machine learning on large scale perturbation screens for SARS-CoV-2 host factors identifies β-catenin/CBP inhibitor PRI-724 as a potent antiviral

  Maximilian A. Kelch, et al., bioRxiv - Microbiology 2023

  Quote: ... or M51 Super 8x FOPFlash (TOPFlash mutant) (Addgene; #12457) using TransIT®-LT1 Transfection Reagent (Mirus Bio LLC ...
• mt-LAF3 is a pseudouridine synthase ortholog required for mitochondrial rRNA and mRNA gene expression in Trypanosoma brucei

  Suzanne M McDermott, et al., bioRxiv - Microbiology 2023

  Quote: The drug selection cassettes in the CN cell line were excised using transient expression of Cre recombinase from pLEW100Cre_del_tetO (Addgene plasmid 24019 ...
• Interferon inhibits a model RNA virus via a limited set of inducible effector genes

  Matthew B. McDougal, et al., bioRxiv - Microbiology 2023

  Quote: The human “Brunello” CRISPR knockout pooled library (#73179, Addgene) (Doench et al. ...
• Interferon inhibits a model RNA virus via a limited set of inducible effector genes

  Matthew B. McDougal, et al., bioRxiv - Microbiology 2023

  Quote: ... All LentiCRISPRv2 plasmids (expressing a selectable marker of resistance to puromycin, blasticidin, neomycin, or hygromycin) were purchased from Addgene and amplified according to instructions ...
• Interferon inhibits a model RNA virus via a limited set of inducible effector genes

  Matthew B. McDougal, et al., bioRxiv - Microbiology 2023

  Quote: ... and LentiCRISPRv2 blast were gifts from Brett Stringer (Addgene plasmids # 98291, 98292, 98293).
• Interferon inhibits a model RNA virus via a limited set of inducible effector genes

  Matthew B. McDougal, et al., bioRxiv - Microbiology 2023

  Quote: ... LentiCRISPRv2 (puro) was a gift from Feng Zhang (Addgene plasmid # 52961). LentiCRISPRv2 hygro ...
• Interferon inhibits a model RNA virus via a limited set of inducible effector genes

  Matthew B. McDougal, et al., bioRxiv - Microbiology 2023

  Quote: ... and Human Interferon-Stimulated Gene CRISPR Knockout pooled Library (#125753, Addgene) (OhAinle et al. ...
• Spike substitution T813S increases Sarbecovirus fusogenicity by enhancing the usage of TMPRSS2

  Yong Ma, et al., bioRxiv - Microbiology 2023

  Quote: pQCXIP-BSR-GFP11 and pQCXIP-GFP1-10 were from Addgene (68715,68716); Human TMPRSS2 was amplified from Caco2 cells and cloned into pcDNA3.1(+ ...
• Generation of a SARS-CoV-2 reverse genetics system and novel human lung cell lines that exhibit high virus-induced cytopathology

  Juveriya Qamar Khan, et al., bioRxiv - Molecular Biology 2023

  Quote: ... ACE2 lentiviruses were filtered through a 0.45-micron filter and used to transduce respective cell lines using the reverse transduction method (Addgene, 2019). Briefly ...
• Genome-scale CRISPR‒Cas9 screen identifies novel host factors as potential therapeutic targets for SARS-CoV-2 infection

  Madoka Sakai, et al., bioRxiv - Microbiology 2023

  Quote: ... including 1,004 nontargeting control sgRNAs (Addgene, 67989) (18) ...
• Genome-scale CRISPR‒Cas9 screen identifies novel host factors as potential therapeutic targets for SARS-CoV-2 infection

  Madoka Sakai, et al., bioRxiv - Microbiology 2023

  Quote: Cas9 and gRNA plasmids were purchased from Addgene (Watertown, MA, USA) (Cas9 vector ...
• Genome-scale CRISPR‒Cas9 screen identifies novel host factors as potential therapeutic targets for SARS-CoV-2 infection

  Madoka Sakai, et al., bioRxiv - Microbiology 2023

  Quote: 293T cells were transfected with pCMV-VSV-G (Addgene) expressing VSV-G or pEF4/HisA (Thermo ...
• Novel VCP activator reverses multisystem proteinopathy nuclear proteostasis defects and enhances TDP-43 aggregate clearance

  Jessica M. Phan, et al., bioRxiv - Molecular Biology 2023

  Quote: ... CRISPR gRNAs were designed using Benchling software (http://benchling.com/) and cloned into pSpCas9(BB)-2A-Puro (PX459) V2.0 vector (plasmid #62988, gift from Feng Zhang, Addgene, Cambridge, MA, USA) (Supplemental Table 1) ...
• RHINO restricts MMEJ activity to mitosis

  Alessandra Brambati, et al., bioRxiv - Molecular Biology 2023

  Quote: The gRNAs used to knock-out LIG4 were cloned in the pSpCas9(BB)-2A-GFP (pX458) (Addgene #48138). The gRNA used for IncucyteS3 experiments was cloned into a pLenti-gRNA-GFP-2A-PURO gift from Jordan Young from Repare Therapeutics ...
• RHINO restricts MMEJ activity to mitosis

  Alessandra Brambati, et al., bioRxiv - Molecular Biology 2023

  Quote: ... To tag endogenous POLQ at the N-terminus with a 3xFLAG-LoxP-SV40-Puro-Lox-HaloTag (Addgene #86843), ∼ 5 × 105 U2OS cells were transfected using FuGene6 (Promega ...
• RHINO restricts MMEJ activity to mitosis

  Alessandra Brambati, et al., bioRxiv - Molecular Biology 2023

  Quote: ... MEFs cells were infected with a pLKO.1-Puro plasmid encoding a scrambled shRNA sequence (Addgene plasmid #1864). A list of the shRNA sequences is provided in Supplementary Table 2.
• RHINO restricts MMEJ activity to mitosis

  Alessandra Brambati, et al., bioRxiv - Molecular Biology 2023

  Quote: ... The lentiviral Cas9-BLAST was purchased from Addgene (#52962). The shRNA that knocked down 9-1-1/RHNO1 ...
• Area postrema neurons mediate interleukin-6 function in cancer-associated cachexia

  Qingtao Sun, et al., bioRxiv - Neuroscience 2023

  Quote: psPAX2 was a gift from Didier Trono (Addgene plasmid # 12260; http://n2t.net/addgene:12260; RRID:Addgene_12260)
• Area postrema neurons mediate interleukin-6 function in cancer-associated cachexia

  Qingtao Sun, et al., bioRxiv - Neuroscience 2023

  Quote: ... and psPAX2 (Addgene #12260) were purified with the NucleoBond Xtra Midi EF kit (Takara 740420) ...
• Area postrema neurons mediate interleukin-6 function in cancer-associated cachexia

  Qingtao Sun, et al., bioRxiv - Neuroscience 2023

  Quote: ... and the two helper plasmids pCMV-VSV-G (Addgene #8454) and psPAX2 (Addgene #12260 ...
• Calcium signals tune AMPK activity and mitochondrial homeostasis in dendrites of developing neurons

  Akane Hatsuda, et al., bioRxiv - Neuroscience 2023

  Quote: ... The pX458-CAG-dCas9KRAB-2A-GFP plasmid was generated by subcloning the CAG promoter from pCAGGS and the dCas9KRAB sequence from CRISPR-dCas9KRAB (a gift from Kuniya Abe) into the pX458 vector (Addgene plasmid #48138). For CRISPR interference experiments ...
• A shift in the mechanisms controlling hippocampal engram formation during brain maturation

  Adam I. Ramsaran, et al., bioRxiv - Neuroscience 2023

  Quote: ... Bryan Roth (Addgene plasmid # 50459 ...
• A multicolor suite for deciphering population coding in calcium and cAMP in vivo

  Tatsushi Yokoyama, et al., bioRxiv - Neuroscience 2023

  Quote: ... and cpGFP and RSET domain were subcloned from GCaMP6f (Addgene plasmid # 52924). To enhance cytoplasmic localization of cAMPinG1 ...
• The Small GTPase Rab7 Regulates Release of Mitochondria in Extracellular Vesicles in Response to Lysosomal Dysfunction

  Wenjing Liang, et al., bioRxiv - Physiology 2023

  Quote: ... and mPlum-mito-3 (Addgene plasmid #55988) using Fugene6 (Promega Inc. ...
• De novo Design of a Polycarbonate Hydrolase

  Laura H. Holst, et al., bioRxiv - Synthetic Biology 2023

  Quote: ... TEV protease (Addgene, pRK793). Makrolon 2808 (gift from Covestro).
• Synthetic Circuits Based on Split CAS9 to Detect Cellular Events

  Alicja Przybyszewska-Podstawka, et al., bioRxiv - Synthetic Biology 2023

  Quote: ... pCAG-EGxxFP-Cetn1 was a gift from Masahito Ikawa (Addgene plasmid #50717; http://n2t.net/addgene:50717; RRID:Addgene_5071733), AmCyan-P2A-mCherry was previously created by us34 (Addgene plasmid #45350 ...
• Synthetic Circuits Based on Split CAS9 to Detect Cellular Events

  Alicja Przybyszewska-Podstawka, et al., bioRxiv - Synthetic Biology 2023

  Quote: ... AmCyan-P2A-mCherry was previously created by us34 (Addgene plasmid #45350; http://n2t.net/addgene:45350; RRID:Addgene_4535034). The TWIST1 binding domain (TBD ...