Journal: Neuron

Article Title: Acute MeCP2 loss in adult mice reveals transcriptional and chromatin changes that precede neurological dysfunction and inform pathogenic cascade

doi: 10.1016/j.neuron.2024.11.006

Figure Lengend Snippet: LIFE SCIENCES

Article Snippet: S. cerevisiae: Strain background: W303 , ATCC , ATTC: 208353.

Techniques: Virus, Isolation, Cell Culture, Recombinant, Labeling, Sample Prep, Mass Spectrometry, Sequencing, Plasmid Preparation, shRNA, Software

Journal: Nanomedicine : nanotechnology, biology, and medicine

Article Title: Simultaneous silencing of lysophosphatidylcholine acyltransferases 1-4 by nucleic acid nanoparticles (NANPs) improves radiation response of melanoma cells.

doi: 10.1016/j.nano.2021.102418

Figure Lengend Snippet: Figure 3. Compensatory effect of LPCAT1 mRNA increase upon the simultaneous silencing of LPCAT2, LPCAT3, and LPCAT4 by RNA ring. Metabolic pathway mediated by acyltransferase and acetyltransferase activity of LPCATs enzymes (A). Melanoma cells (A375) were transfected with RNA rings functionalized with siRNAs targeting LPCAT2, LPCAT3, and LPCAT4 (B) or all four LPCATs (C). Forty-eight hours after transfection, LPCAT 1-4 mRNA levels were evaluated by quantitative reverse transcription polymerase chain reaction (qRT-PCR) and RNA rings functionalized with 3 or 4 siRNAs against GFP (Green Fluorescence Protein) were used as a control. Lyso-PAF quantification by high resolution mass spectrometry in LPCAT1-4 silenced and irradiated melanoma cells. Melanoma cells (A375) were transfected with RNA rings (control or LPCAT1-4) and 15 min after radiation exposure (2.5 Gy), cells were collected and lipid extraction was performed. Mass spectrometry was operated in both positive and negative ionization modes for the identification and quantification of Lyso-PAFs (16:0 and 18:0) (D and E, respectively). Total amounts of Lyso-PAFs are expressed in pmol/106 cells. One-way ANOVA followed by Bonferroni post hoc test. *P < 0.05, **P < 0.01, *** P < 0.001. Legend: phosphatidylcholine (PC), Lyso-platelet activating factor (Lyso-PAF), platelet activating factor (PAF), PAF-acetylhydrolase (PAF-AH), lysophosphatidylcholine acyltransferase (LPCAT).

Article Snippet: Cell lines and culture conditions Human melanoma cells A375 were purchased from ATCC and SK-MEL-05 were kindly donated by Lloyd J.

Techniques: Activity Assay, Transfection, Reverse Transcription, Polymerase Chain Reaction, Quantitative RT-PCR, Fluorescence, Control, Mass Spectrometry, Irradiation, Extraction

Journal: Nanomedicine : nanotechnology, biology, and medicine

Article Title: Simultaneous silencing of lysophosphatidylcholine acyltransferases 1-4 by nucleic acid nanoparticles (NANPs) improves radiation response of melanoma cells.

doi: 10.1016/j.nano.2021.102418

Figure Lengend Snippet: Figure 4. LPCAT silencing sensitizes melanoma cells to irradiation-induced cell death. A375 melanoma cells were transfected with RNA rings functionalized with different combinations of siRNAs against LPCAT1-4 or GFP genes. 48 h post-transfection, cells were irradiated with 2.5 Gy X-rays. Cell death was evaluated by propidium iodide (PI) staining 48 h post-irradiation (A). Cell death was measured as the percentage of total cell population with the subG1 DNA content before and after irradiation. (B) Phase-contrast images were captured from each condition. One-way ANOVA followed by Bonferroni post hoc test. (*) significantly different from control. (#) significantly different from GFP Ring. */#P < 0.05, **/##P < 0.01, ***/### P < 0.001.

Article Snippet: Cell lines and culture conditions Human melanoma cells A375 were purchased from ATCC and SK-MEL-05 were kindly donated by Lloyd J.

Techniques: Irradiation, Transfection, Staining, Control

Journal: Nanomedicine : nanotechnology, biology, and medicine

Article Title: Simultaneous silencing of lysophosphatidylcholine acyltransferases 1-4 by nucleic acid nanoparticles (NANPs) improves radiation response of melanoma cells.

doi: 10.1016/j.nano.2021.102418

Figure Lengend Snippet: Figure 5. LPCAT 1-4 inhibition by RNA rings reduces colony formation ability upon irradiation. LPCAT1-4 genes were silenced with RNA rings functionalized with siRNAs against all four LPCATs in A375 melanoma cells. These cells were irradiated with 2.5 Gy X-rays and after 48 h they were seeded in a very low confluence and grown for about 2 weeks, then surviving colonies were stained with crystal violet. Bar graph quantification of colonies number in each experimental group (A). A representative photograph of Petri dishes containing colonies is shown (B). One-way ANOVA followed by Bonferroni post hoc test. (*) significantly different from control. (#) significantly different from GFP Ring. */# P < 0.05, **/## P < 0.01, ***/### P < 0.001. Legend: CTL (control).

Article Snippet: Cell lines and culture conditions Human melanoma cells A375 were purchased from ATCC and SK-MEL-05 were kindly donated by Lloyd J.

Techniques: Inhibition, Irradiation, Staining, Control

Journal: Nanomedicine : nanotechnology, biology, and medicine

Article Title: Simultaneous silencing of lysophosphatidylcholine acyltransferases 1-4 by nucleic acid nanoparticles (NANPs) improves radiation response of melanoma cells.

doi: 10.1016/j.nano.2021.102418

Figure Lengend Snippet: Figure 6. LPCATs silencing by RNA rings induces caspase 3/7 activation. LPCAT1-4 genes were silenced with RNA rings for 48 h in A375 melanoma cells. Following irradiation with 2.5 Gy X-rays, the percentage of activated caspase 3/7 was measured 48 h post-irradiation. One-way ANOVA followed by Bonferroni post hoc test. *P < 0.05, **P < 0.01, *** P < 0.001. Legend: neg: (unstained cells).

Article Snippet: Cell lines and culture conditions Human melanoma cells A375 were purchased from ATCC and SK-MEL-05 were kindly donated by Lloyd J.

Techniques: Activation Assay, Irradiation

Journal: Biomedical Optics Express

Article Title: Enrichment and ratiometric detection of circulating tumor cells using PSMA- and folate receptor-targeted magnetic and surface-enhanced Raman scattering nanoparticles

doi: 10.1364/BOE.410527

Figure Lengend Snippet: Schematic (A) and photograph (B) of Raman spectrometry system, diagram of trapping and detection scheme (C), SERS signatures of the nanoparticle variants used (D) and example output of spectrometer during trapping (E).

Article Snippet: Raman spectra were captured using a custom Raman imaging spectrometer (RASPPEC-785-HR, P&P Optica) which offers a spectral resolution of 10 cm − 1 with an f-number of 3.5.

Techniques:

Journal: Immunity

Article Title: Combined protein and nucleic acid imaging reveals virus-dependent B cell and macrophage immunosuppression of tissue microenvironments

doi: 10.1016/j.immuni.2022.03.020

Figure Lengend Snippet:

Article Snippet: Mass images were acquired on a custom alpha-iteration MIBI-TOF mass spectrometer equipped with a duoplasmatron ion source (Ionpath) running research grade oxygen (Airgas, OX R80).

Techniques: Infection, Recombinant, Avidin-Biotin Assay, Blocking Assay, Plasmid Preparation, Multiplex Assay, Labeling, Conjugation Assay, Software, Hybridization

Journal: Molecules

Article Title: Assessment of Raman Spectroscopy for Reducing Unnecessary Biopsies for Melanoma Screening

doi: 10.3390/molecules25122852

Figure Lengend Snippet: ( a ) Optical instrument system for clinical data acquisition in the clinic examination room. ( b ) The handheld fiber probe enables acquisition of Raman spectral data.

Article Snippet: The collected light travels to a custom configured Raman spectrometer with a full width at half maximum (FWHM) of 19 cm −1 (Stroker model from Wasatch Photonics, Morrisville, NC, USA), and LabVIEW (NI, Austin, TX, USA, 2015) is used for all components control and data acquisition. shows the optical instrument system and the probe.

Techniques:

Journal: Molecules

Article Title: Assessment of Raman Spectroscopy for Reducing Unnecessary Biopsies for Melanoma Screening

doi: 10.3390/molecules25122852

Figure Lengend Snippet: Data analysis pipeline. Principal component analysis (PCA) and logistic regression model with leave one lesion out cross validation are applied to classify melanoma and pigmented lesions based on normalized Raman spectral data. AUROC shows the classification accuracy.

Article Snippet: The collected light travels to a custom configured Raman spectrometer with a full width at half maximum (FWHM) of 19 cm −1 (Stroker model from Wasatch Photonics, Morrisville, NC, USA), and LabVIEW (NI, Austin, TX, USA, 2015) is used for all components control and data acquisition. shows the optical instrument system and the probe.

Techniques: Biomarker Discovery