Pen slides

Manufactured by Leica

PEN slides are a type of laboratory slide used for microscopy. They are designed to hold and display specimens for examination under a microscope. The slides are made of a durable, transparent material and feature a printed grid or scale to aid in the analysis of the specimen.

Automatically generated - may contain errors

Lab products found in correlation

Nanozoomer s60 slide scanner, by Hamamatsu Photonics (3 mentions) View2, by Hamamatsu Photonics (2 mentions) Paxgene tissue fix, by Qiagen (2 mentions) Microm hm 560, by Thermo Fisher Scientific (1 mentions) Lmd7000 laser microdissection microscope, by Leica (1 mentions) Lmd6500, by Leica (1 mentions) Rnalater, by Merck Group (1 mentions) High pure ffpet rna isolation kit, by Roche (1 mentions) Eosin y, by Thermo Fisher Scientific (1 mentions) As lmd laser capture microscope, by Leica (1 mentions) Lcm staining kit, by Thermo Fisher Scientific (1 mentions) Nextera xt kit, by Illumina (1 mentions) Rnalater, by Thermo Fisher Scientific (1 mentions) Hiseq 2500, by Illumina (1 mentions) Ndp view2, by Hamamatsu Photonics (1 mentions)

Spelling variants of this product

PEN membrane slides (66 citations) PEN-membrane glass slides (7 citations) RNase free PEN-membrane slides (5 citations) PEN) foil slides (3 citations) Leica RNase-free PEN slides (3 citations) PEN-coated slides (3 citations) PEN glass slides (2 citations) PEN-membrane Membrane Slides (2 citations) PEN slides for LMD (2 citations)

11 protocols using pen slides

Tissue Harvesting and Cryopreservation

Check if the same lab product or an alternative is used in the 5 most similar protocols

Mice were euthanized with CO₂. Tissues were collected and washed with phosphate-buffered saline (PBS) to remove remaining blood or feces. Tissues used for COX/SDH staining were frozen in isopentane (15 s) that was previously cooled to −160°C in liquid nitrogen. Tissues used in other analyses were snap-frozen in liquid nitrogen. Tissues were cryosectioned at −12°C (14 μm for colon and quadriceps, 10 μm for heart; Thermo Scientific Microm HM560). The sections used for histochemistry were cut on permanent coated slides (VWR) and the sections for laser capture dissection (14 μm) on to polyethylenenaphthalate (PEN) slides (Leica Microsystems). Both types of sections were stored at −80°C before further analysis.

Filograna R., Koolmeister C., Upadhyay M., Pajak A., Clemente P., Wibom R., Simard M.L., Wredenberg A., Freyer C., Stewart J.B, & Larsson N.G. (2019). Modulation of mtDNA copy number ameliorates the pathological consequences of a heteroplasmic mtDNA mutation in the mouse. Science Advances, 5(4), eaav9824.

+ Open protocol

+ Expand

Laser-Capture Microdissection for DNA Extraction and Analysis

Check if the same lab product or an alternative is used in the 5 most similar protocols

Laser-capture-microdissected tissues were cut to 15 μm thickness, mounted on PEN slides (Leica Microsystems), and air-dried at room temperature for 1 hr. Slides were stored in sealed slide mailers at −80°C until use. Microdissection was carried out on a Leica Microsystems LMD7000 laser microdissection microscope, sorting a single colonic crypt section or five smooth muscle fibers into single tubes for further analysis. Captured colonic crypts or muscle fiber sections were settled to the bottom of the tube by centrifugation at 7,000 rcf for 10 min. DNA was extracted in 10 μl lysis buffer (50 mM Tris-HCl [pH 8.5], 1% Tween-20, and 20 mg/ml proteinase K) for at least 2 hr and 55°C, with a heat-inactivation step at 95°C for 10 min (Taylor et al., 2003 (link)). The extraction was used directly in PCR reactions for mutation level quantification or diluted in 30 μl water for PCR and sequencing.

Kauppila J.H., Baines H.L., Bratic A., Simard M.L., Freyer C., Mourier A., Stamp C., Filograna R., Larsson N.G., Greaves L.C, & Stewart J.B. (2016). A Phenotype-Driven Approach to Generate Mouse Models with Pathogenic mtDNA Mutations Causing Mitochondrial Disease. Cell Reports, 16(11), 2980-2990.

+ Open protocol

+ Expand

Microdissection and Analysis of Plasmablast Patches

Check if the same lab product or an alternative is used in the 5 most similar protocols

7 µm spleen sections were prepared from OCT-frozen tissues on the membrane-coated PEN slides (Leica). Plasmablast patches were detected using anti-CD138 and GC-like structures using PNA and anti-IgD in immunohistochemistry as reported in Supplemental Information. Microdissections were performed using a Leica LMD6500 instrument equipped with an optical microscope. Dissected patches were collected in the cap of PCR microtubes in 10 ml of digestion buffer (50 mM Tris-HCl, 50 mM KCl, 0.63 mM EDTA, 0.22% Igepal, 0.22% Tween20, 0.8 mg/ml proteinase K). Patches were digested at 55°C for 2 hr, then at 90°C for 5 min, and used for PCR amplification of Ab genes. Primers, PCR procedures, and data analysis are described in Supplemental Information.

Di Niro R., Lee S.J., Vander Heiden J.A., Elsner R.A., Trivedi N., Bannock J.M., Gupta N.T., Kleinstein S.H., Vigneault F., Gilbert T.J., Meffre E., McSorley S.J, & Shlomchik M.J. (2015). Salmonella Infection Drives Promiscuous B Cell Activation Followed by Extrafollicular Affinity Maturation. Immunity, 43(1), 120-131.

+ Open protocol

+ Expand

Histological Tissue Processing and Staining

Check if the same lab product or an alternative is used in the 5 most similar protocols

Tissues were embedded in Optimal Cutting Temperature compound, and frozen histological sections were cut at 30 µm, mounted on polyethylene naphthalate (PEN) slides and fixed in 70% ethanol for 5 min, followed by two washes with PBS for 1 min each. Slides were manually stained in hematoxylin and eosin (H&E) using a conventional staining protocol. A subset of samples (PD44594c–h and PD44589f) were fixed in PAXgene Tissue FIX (Qiagen) according to the manufacturer’s instructions. Fixed tissue samples were embedded in paraffin using a Tissue-Tek tissue-processing machine (Sakura). No formalin was used in the preparation, storage, fixation or processing of samples. Processed tissue blocks were embedded in paraffin wax, sectioned to 10-µm thickness and mounted onto PEN slides (Leica). Tissue slides were stained using a standard H&E protocol. Slides were temporarily coverslipped and scanned on a NanoZoomer S60 Slide Scanner (Hamamatsu); images were viewed using NDP.View2 software (Hamamatsu).

Robinson P.S., Coorens T.H., Palles C., Mitchell E., Abascal F., Olafsson S., Lee B.C., Lawson A.R., Lee-Six H., Moore L., Sanders M.A., Hewinson J., Martin L., Pinna C.M., Galavotti S., Rahbari R., Campbell P.J., Martincorena I., Tomlinson I, & Stratton M.R. (2021). Increased somatic mutation burdens in normal human cells due to defective DNA polymerases. Nature Genetics, 53(10), 1434-1442.

+ Open protocol

+ Expand

Tissue Preparation and Staining Protocol

Check if the same lab product or an alternative is used in the 5 most similar protocols

Tissues were embedded in Optimal Cutting Temperature (OCT) compound, frozen histological sections were cut at 25–30 µm and mounted on polyethylene naphthalate (PEN) slides and fixed in 70% ethanol for 5 minutes followed by two washes with phosphate buffered saline for 1 min each. Slides were manually stained in haematoxylin and eosin using a conventional staining protocol. A subset of samples were fixed in RNAlater (Sigma Aldrich) according to manufacturer’s instructions. Fixed tissue samples were embedded in paraffin using a Tissue-Tek tissue processing machine (Sakura). No formalin was used in the preparation, storage, fixation or processing of samples. Processed tissue blocks were embedded in paraffin wax, sectioned to 10 µm thickness and mounted onto PEN slides (Leica). Tissue slides were stained using a standard haematoxylin and eosin (H&E) protocol. Slides were temporarily cover-slipped and scanned on a NanoZoomer S60 Slide Scanner (Hamamatsu), images were viewed with NDP.View2 software (Hamamatsu).

Robinson P.S., Thomas L.E., Abascal F., Jung H., Harvey L.M., West H.D., Olafsson S., Lee B.C., Coorens T.H., Lee-Six H., Butlin L., Lander N., Truscott R., Sanders M.A., Lensing S.V., Buczacki S.J., ten Hoopen R., Coleman N., Brunton-Sim R., Rushbrook S., Saeb-Parsy K., Lalloo F., Campbell P.J., Martincorena I., Sampson J.R, & Stratton M.R. (2022). Inherited MUTYH mutations cause elevated somatic mutation rates and distinctive mutational signatures in normal human cells. Nature Communications, 13, 3949.

+ Open protocol

+ Expand

Profiling UVB-Induced Transcriptional Changes

Check if the same lab product or an alternative is used in the 5 most similar protocols

Six millimetre punch biopsies were taken from psoriatic plaques or adjacent non-lesional skin at 6 h (± 2 h) or 18 h (± 1 h) after irradiation with 311 nm or 290 nm UVB and from unirradiated psoriatic plaque skin. A maximum of four biopsies were taken per patient. Biopsies were snap frozen, set in OCT embedding medium (Raymond A Lamb) and stored at -80 °C. 35 μm cryosections were cut, collected on PEN slides (Leica, Milton Keynes) and kept frozen until microdissection. Slides were fixed in ethanol and stained with toluidine blue, and then the epidermis was micro-dissected with a scalpel using a dissection microscope. RNA was extracted using a Picopure TM RNA Isolation kit (Arcturus Biosciences, USA) using the manufacturers standard protocol, and stored at -80 °C.

Addison R., Weatherhead S.C., Pawitri A., Smith G.R., Rider A., Grantham H.J., Cockell S.J, & Reynolds N.J. (2021). Therapeutic wavelengths of ultraviolet B radiation activate apoptotic, circadian rhythm, redox signalling and key canonical pathways in psoriatic epidermis. Redox Biology, 41, 101924.

+ Open protocol

+ Expand

Laser Capture Microdissection of Cerebellum

Check if the same lab product or an alternative is used in the 5 most similar protocols

10 µm-thick sections for normal (n=2) and DWM (n=2) cerebella embedded in paraffin were collected on 2.0 µm PEN slides (Leica No.11505189). These were subsequently stained with 1% Cresyl Violet after deparaffinization with Xylene and washes in Ethanol. Laser capture microdissection was performed as described previously [18 (link)]. The microdissected tissue was transferred into RNA tissue lysis buffer provided in the High Pure FFPET RNA Isolation Kit (Roche , ref.06650775001) and RNA extraction performed using manufacturer-recommended protocols. The Agilent Bioanalyzer 600 Pico Kit was used to assess RNA quality (DV200 > 74 for all samples).

Haldipur P., Bernardo S., Aldinger K.A., Sivakumar T., Millman J., Sjoboen A.H., Dang D., Dubocanin D., Deng M., Timms A.E., Davis B.D., Plummer J.T., Mankad K., Oztekin O., Manganaro L., Guimiot F., Adle-Biassette H., Russo R., Siebert J.R., Kidron D., Petrilli G., Roux N., Razavi F., Glass I.A., Di Gioia C., Silvestri E, & Millen K.J. (2021). Evidence of disrupted rhombic lip development in the pathogenesis of Dandy-Walker malformation. Acta neuropathologica, 142(4), 761-776.

+ Open protocol

+ Expand

FFPE Tissue Preparation for Laser Capture

Check if the same lab product or an alternative is used in the 5 most similar protocols

Formalin-fixed paraffin-embedded (FFPE) tissue blocks were sectioned at (10 µm thick) and mounted onto Leica PEN slides (Cat No. 11505189). Slides were deparaffinized using 100% xylene (2x), 100% ethanol, 95% ethanol, 70% ethanol and 50% ethanol (3 min each). This preparation was followed by hematoxylin staining (Vector) for 1 min. Slides were then rinsed in de-ionized water (1 min) and stained in 1% eosin Y (Fisher scientific) and 1% calcium chloride (6 min). Slides were then left to air dry for laser capture microdissection.

Lam K.H., Leon A.J., Hui W., Lee S.C., Batruch I., Faust K., Klekner A., Hutóczki G., Koritzinsky M., Richer M., Djuric U, & Diamandis P. (2022). Topographic mapping of the glioblastoma proteome reveals a triple-axis model of intra-tumoral heterogeneity. Nature Communications, 13, 116.

+ Open protocol

+ Expand

Laser Capture Microscopy of Human Epidermis

Check if the same lab product or an alternative is used in the 5 most similar protocols

Clinically normal human epidermis of sun-protected truncal sites was collected from elective surgeries. Duplicate samples from unrelated adults were placed into RNALater (Ambion) and embedded into O.C.T. (Sakura), and 7-µM sections were mounted on PEN slides (Leica). Slides were stained using an LCM staining kit (Ambion), and sections were harvested with a Leica AS LMD laser capture microscope. Samples were processed with the SMART-Seq version 3 ultralow-input RNA kit (Clontech), and sequencing libraries were prepared with the Nextera XT kit (Illumina). Sequencing was performed on an Illumina HiSeq 2500 with 50-base-pair single-end reads. Sequence data have been deposited at National Institutes of Health Sequence Read Archive (SRA 064531, 064538, and 064547). Please see Supplemental Figure 6 for discussion of RNA-seq analysis methods.

Sun B.K., Boxer L.D., Ransohoff J.D., Siprashvili Z., Qu K., Lopez-Pajares V., Hollmig S.T, & Khavari P.A. (2015). CALML5 is a ZNF750- and TINCR-induced protein that binds stratifin to regulate epidermal differentiation. Genes & Development, 29(21), 2225-2230.

+ Open protocol

+ Expand

Single-Cell Laser Microdissection of GFP-Labeled Neurons

Check if the same lab product or an alternative is used in the 5 most similar protocols

A Leica Laser Microdissection system (LMD7000) was used to isolate single GFP-labeled PNs. We re-identified single target PNs that had been previously analyzed in 60 μm-thick slices in the re-sectioned 25 μm-thick sections, based on their relative spatial position and dendritic geometry. PEN slides (Leica) were loaded onto the microscope with a 63 × objective (HCX PL FLUOTAR NA: 0.7, Leica) and contours of target single cells were hand-drawn onto the slice image displayed on the computer monitor using a tablet and a stylus. The laser was directed along the border of single cell, and the isolated cell was collected into a lid of 0.5 mL tubes. Laser parameters were adjusted as follows: power 40, aperture 1, speed 1, specimen balance 25, head current 80%, pulse frequency 1019, and offset 210.

Steinecke A., Kurabayashi N., Hayano Y., Ishino Y, & Taniguchi H. (2019). In Vivo Single-Cell Genotyping of Mouse Cortical Neurons Transfected with CRISPR/Cas9. Cell reports, 28(2), 325-331.e4.

+ Open protocol

+ Expand

About PubCompare

Our mission is to provide scientists with the largest repository of trustworthy protocols and intelligent analytical tools, thereby offering them extensive information to design robust protocols aimed at minimizing the risk of failures.

We believe that the most crucial aspect is to grant scientists access to a wide range of reliable sources and new useful tools that surpass human capabilities.

However, we trust in allowing scientists to determine how to construct their own protocols based on this information, as they are the experts in their field.

Ready to get started?

Revolutionizing how scientists
search and build protocols!