Journal: International Journal of Molecular Sciences

Article Title: Identification of Actionable Gene Variants in Pulmonary Large-Cell Neuroendocrine Carcinoma: A Real-World Analysis of a Polish Cohort

doi: 10.3390/ijms27072939

Figure Lengend Snippet: The graphic representation of TMEM79::NTRK1 fusion, including exonic (TMEM79 NM_032323.3 exon 3; NTRK1 NM_002529.3 exon 2) and chromosomal (chr1:156256264, chr1:156834146) breakpoint positions based on the output data from the Archer Analysis software version 7.2 (ArcherDX, Inc., Boulder, CO, USA; ( A )) and on the variant visualization by the Alamut Visual Plus v1.12 software (SOPHiA GENETICS, Inc., Boston, MA, USA; ( B )).

Article Snippet: Gene fusion variants were further evaluated using Alamut Visual Plus (v1.12; SOPHiA GENETICS, Inc., Boston, MA, USA).

Techniques: Software, Variant Assay

Journal: Cell & Bioscience

Article Title: NOTCH2NLC GGC repeat expansions cause retinal neurodegeneration in neuronal intranuclear inclusion disease mouse model

doi: 10.1186/s13578-026-01542-x

Figure Lengend Snippet: Expression of NOTCH2NLC-polyG in the retina of NIID mice. A – F Co-immunostaining on retinas of NIID and control mice using anti-Flag (indicating NOTCH2NLC-polyG) with anti-VSX2 ( A ), anti-PAX6 ( B ), anti-RBPMS ( C ), anti-Rhodopsin ( D ), anti-Arrestin C ( E ), or anti-RPE65 ( F ). Red: VSX2 ( A ), PAX6 ( B ), RBPMS ( C ), Rhodopsin ( D ), Arrestin C ( E ) or RPE65 ( F ); Green: NOTCH2NLC-polyG; Blue: DAPI. Scale bar = 50 μm. The yellow dashed box indicates the region shown at higher magnification. G The percentage of cells co-expressing PolyG and VSX2, PAX6 or RBPMS. H The quantification of the number of VSX2-, PAX6-, and RBPMS-positive cells in NIID and control mice. Data are presented as mean ± SEM. N = 6 per group, ** P = 0.0012 (PAX6), ** P = 0.0021 (RBPMS), ns = no significance, two-tailed t-test. I Transmission electron microscopy images of intranuclear inclusions in the INL and RGC layer of the retinas of NIID mice. The yellow dashed box indicates the region shown at higher magnification. The yellow arrows indicate the round-shaped, filamentous, non-membranous intranuclear inclusions. Scale bar = 1 μm

Article Snippet: Primary antibodies used in this study include: RBPMS (Thermo Fisher Scientific, PA5-31231, 1/300), VSX2 (Proteintech, 25825-1-AP, 1/300), PAX6 (Abcam, ab195045, 1/300), Rhodopsin (Proteintech, 30438-1-AP, 1/200), Arrestin C (Proteintech, 85067-1-AP, 1/200), Flag (Sigma, F1804, 1/300), Flag (Thermo Fisher Scientific, PA5-31231, 1/300), Tuj1 (Sigma, MAB5564, 1/300), GFAP (Cell Signaling Technology, 3670S, 1/300), IBA1 (Wako, 019-19741, 1/300), GFP (Thermo Fisher Scientific, MA5-15256, 1/300).

Techniques: Expressing, Immunostaining, Control, Two Tailed Test, Transmission Assay, Electron Microscopy

Journal: The FASEB Journal

Article Title: Mks6 mutations reveal tissue‐ and cell type‐specific roles for the cilia transition zone

doi: 10.1096/fj.201801149r

Figure Lengend Snippet: Figure 6. Analysis of phototransduction protein localization in Mks6D retinas. A) Transducin staining (green) is similar between Mks6D mutants and Mks6FL controls in both the light and dark conditions. B) Rhodopsin staining (green) in both light- and dark- adapted conditions reveals slight mislocalization in the IS (arrows) in juvenile Mks6D mutants compared with Mks6FL controls. C) Arrestin staining (green) is present in the OS and is mislocalized to the IS and ONL in the light-adapted Mks6D mutant retinas (asterisk). One-way ANOVA was used for quantification of the average fluorescence intensity distribution indicated for each protein in the graphs (right). DAPI-stained nuclei are blue. Original scale bar, 25 mm.

Article Snippet: Primary antibodies included the following: antiacetylateda-tubulin (T-6793,1:1000;MilliporeSigma), fluoresceinconjugatedLotus lectin (LTA;FL-1321, 1:500;VectorLaboratories, Burlingame, CA, USA), rhodamine-conjugated Dolichos biflorus agglutinin (DBA; RL-1032, 1:250; Vector Laboratories), Aquaporin 1 (AQP11-A, 1:50; Alpha Diagnostics, San Antonio, TX, USA), Aquaporin 2 (sc-9882, 1:50; Santa Cruz Biotechnology, Dallas, TX, USA), ADP-ribosylation factor-like protein 13B (Arl13b; 1:2000, kind gift from Tamara Caspary; Emory University, Atlanta, GA, USA), rhodopsin [1D4 1:2000, courtesy of Robert Molday (University of British Columbia, Vancouver, BC, Canada) (24–29)], visual arrestin (sc-67130, 1:250; Santa Cruz Biotechnology), transducin (K-20, 1:250; Santa Cruz Biotechnology), olfactory marker protein (OMP; 544-10001, 1:1000; Wako Chemicals, Neuss, Germany), rabbit polyclonal antibody-adenylyl cyclase III (ACIII; 1:2000; EnCor Biotechnology,Gainesville, FL,USA), and tyrosine hydroxylase (TH; MAB318, 1:1000; MilliporeSigma, Darmstadt, Germany).

Techniques: Staining, Mutagenesis

Journal: Biomedical Optics Express

Article Title: Combined autofluorescence and diffuse reflectance spectroscopy for rapid metabolic and vascular characterizations of orthotopic tongue tumors in vivo

doi: 10.1364/BOE.589203

Figure Lengend Snippet: (A) Schematic of the dual-modal label-free optical spectroscopy platform. (B) The actual photo of the portable optical spectroscopy platform. (C) The potential use for optical measurements on a mouse tongue.

Article Snippet: The optical spectroscopy system consisted of a white LED (MNWHL4, Thorlabs), a blue LED (M405L4, Thorlabs), a compact spectrometer (SR-4VN500-100, Ocean Optics), and a low-cost fiber probe (BF19Y2HS02, Thorlabs).

Techniques: Spectroscopy