Journal: Molecular cell

Article Title: Phosphorylation of EZH2 by AMPK Suppresses PRC2 Methyltransferase Activity and Oncogenic Function

doi: 10.1016/j.molcel.2017.12.024

Figure Lengend Snippet: KEY RESOURCES TABLE

Article Snippet: Human: MDA-MB-231 cells , ATCC , CRM-HTB-26.

Techniques: Virus, Recombinant, Purification, Sample Prep, Sequencing, Software

Journal: Cell

Article Title: Promoter of lncRNA gene PVT1 is a tumor suppressor DNA boundary element

doi: 10.1016/j.cell.2018.03.068

Figure Lengend Snippet: Key Resources Table

Article Snippet: Human: MCF-7 cell line , ATCC , HTB-22.

Techniques: Virus, Recombinant, Ligation, Transfection, Immunoprecipitation, Bradford Assay, Reverse Transcription, Membrane, Blocking Assay, SYBR Green Assay, Sample Prep, Luciferase, Reporter Assay, Clone Assay, Northern Blot, Plasmid Preparation, Cloning, Software

Journal: Cancer Cell

Article Title: Metabolic Imaging Detects Resistance to PI3Kα Inhibition Mediated by Persistent FOXM1 Expression in ER + Breast Cancer

doi: 10.1016/j.ccell.2020.08.016

Figure Lengend Snippet:

Article Snippet: Human: MDAMB468 , ATCC/CRUKCI Biorepository , Cat# HTB-26; RRID: CVCL_0419.

Techniques: Recombinant, In Vivo, Protease Inhibitor, Plasmid Preparation, Purification, Sample Prep, Sequencing, RNA Sequencing Assay, shRNA, Software

Journal: Aging (Albany NY)

Article Title: Naturally occurring mitochondrial-derived peptides are age-dependent regulators of apoptosis, insulin sensitivity, and inflammatory markers

doi: 10.18632/aging.100943

Figure Lengend Snippet: NIT-1 β and 22Rv1 cells were cultured in serum-free (SF) media with 100 nM SHLP or control peptides and assessed for ( A ) cell viability (using the MTS assay) after 72 h; ( B ) apoptosis after 24 h; and ( C ) cell proliferation by BrdU incorporation after 24 h. All data are presented as means ± SEM, and significance was determined by Student's t -tests. * P < 0.05; ** P < 0.01; *** P < 0.001.

Article Snippet: All cell lines (22RV1, NIT-1 murine β-cells, and 3T3-L1 murine pre-adipocytes) were purchased from ATCC (American tissue culture collection) (Manassas, VA).

Techniques: Cell Culture, Control, MTS Assay, BrdU Incorporation Assay

Journal: Aging (Albany NY)

Article Title: Naturally occurring mitochondrial-derived peptides are age-dependent regulators of apoptosis, insulin sensitivity, and inflammatory markers

doi: 10.18632/aging.100943

Figure Lengend Snippet: The effects of exogenous SHLP2 and SHLP3 on mitochondria were assessed in 22Rv1 cells incubated with 100 nM control peptide, SHLP2, or SHLP3 for 24 h by measuring ( A ) oxygen consumption rate (OCR) performed on a Seahorse XF24 Extracellular Flux Analyzer and ( B ) ATP production. ( C ) Reactive oxygen species (ROS) production as assessed by DHE (dihydroethidium) fluorescence in NIT-1 (top) and 22RV1 (bottom) cells after incubation with 100 nM control peptide, SHLP2, or SHLP3 overnight. All data are presented as means ± SEM. ( D ) NIT-1 β cells were pre-incubated with 100 nM SHLP2 or SHLP3 for 5 h, followed by incubation with 10 μM staurosporine (STS) for 24 h. Apoptosis (pre-G1 peak) was assessed by FACS (fluorescence-activated cell sorting) analysis. * P < 0.05; ** P < 0.01; *** P < 0.001.

Article Snippet: All cell lines (22RV1, NIT-1 murine β-cells, and 3T3-L1 murine pre-adipocytes) were purchased from ATCC (American tissue culture collection) (Manassas, VA).

Techniques: Incubation, Control, Fluorescence, FACS

Journal: bioRxiv

Article Title: Extracellular vesicles and co-isolated endogenous retroviruses differently affect dendritic cells

doi: 10.1101/2023.01.27.525863

Figure Lengend Snippet: Characterization of the EVs and ENPs from EO771 cell line: presence of virus-like particles (VLPs). (A) Scheme of the protocol of separation of 10k, 200k and ENPs. (B) NTA analysis of 10k, 200k and ENPs: particle quantification (left) and size distribution (right) in n=4. (C) Western blot showing total proteins (left) and various protein markers as indicated (right). Lysate from 2×10 5 EO771 cells, 10k, 200k and ENPs secreted by 20×10 6 EO771 cells were loaded on the gel. * indicates specific Hsp90 band of the expected size. ° indicates a shorter size band resulting from endogenous cleavage. (D) Cryo-EM of EO771 10k, 200k and ENPs. Arrows indicate typical capsid-like structures inside EVs. One such structure highlighted by a white square is shown in a zoom (below, right). (E) Quantification of size and presence (“enveloped capsids”) or absence (EVs) of a VLP structure in all particles of one representative sample of 200k analyzed by cryo-EM (from images at 50,000X magnification). (F) Proteomic identification of viral proteins in 200k pellets of EO771, 4T1 and MutuDC. Blue: proteins identified by specific proteotypic peptides. Green: proteins from our curated endogenous retrovirus database. (G) Western blot shown in C) incubated with antibodies anti-MLV proteins gag and env. (H) Infectivity capacity of the 200k from EO771 cells, shown by production of pseudotyped XG7 GFP-encoding virus from Mus Dunni- XG7 cells, 14 days after exposure to the EO771 200k. Pseudotyped virus in the supernatant of Mus Dunni -XG7 was evidenced by detection of GFP expression in parental Mus Dunni exposed to this supernatant (red), as compared to cells not exposed to the supernatant (blue).

Article Snippet: The Balb/c mammary carcinoma 4T1 (originating from ATCC and kindly provided by Dr S. Fiorentino) was cultured as described in ( ) in RPMI-1640-Glutamax medium (Gibco) supplemented with 10% FBS (Eurobio), 10 mM Hepes, 100 U/mL penicillin/streptomycin and 1 mM sodium pyruvate (Thermo Fisher Scientific).

Techniques: Virus, Western Blot, Cryo-EM Sample Prep, Incubation, Infection, Expressing

Journal: bioRxiv

Article Title: Extracellular vesicles and co-isolated endogenous retroviruses differently affect dendritic cells

doi: 10.1101/2023.01.27.525863

Figure Lengend Snippet: Characterization of the EVs from 4T1 and MutuDC cell lines, primary bone marrow-derived DCs (BMDC), and immortalized fibroblasts Pfa1. (A) Cryo-EM of 200k from MutuDC and primary BMDCs, showing presence of enveloped capsids in the former (arrows). (B) Western blot of cell lysate (Lys), 10k and 200k of 4T1, MutuDC and Pfa1, showing total proteins (top) and hybridization with antibodies against viral and endogenous proteins as indicated (bottom). Gag and env are detected in pellets from 4T1 and MutuDC, and env is detected in Pfa1. (C) infectivity assay performed as in , with the 200k pellets of MutuDC, showing presence of infectious virus.

Article Snippet: The Balb/c mammary carcinoma 4T1 (originating from ATCC and kindly provided by Dr S. Fiorentino) was cultured as described in ( ) in RPMI-1640-Glutamax medium (Gibco) supplemented with 10% FBS (Eurobio), 10 mM Hepes, 100 U/mL penicillin/streptomycin and 1 mM sodium pyruvate (Thermo Fisher Scientific).

Techniques: Derivative Assay, Cryo-EM Sample Prep, Western Blot, Hybridization, Infection, Virus