In a normal computational context for biomedical information evaluation, DNA sequence classification is a vital problem. A number of machine studying methods have used to finish this job lately efficiently. Identification and classification of viruses are important to keep away from an outbreak like COVID-19. Regardless, the characteristic choice course of stays probably the most difficult side of the problem. Probably the most generally used representations worsen the case of excessive dimensionality, and sequences lack specific options. It additionally helps in detecting the impact of viruses and drug design.
In current days, deep studying (DL) fashions can robotically extract the options from the enter. On this work, we employed CNN, CNN-LSTM, and CNN-Bidirectional LSTM architectures utilizing Label and Ok-mer encoding for DNA sequence classification. The fashions are evaluated on completely different classification metrics. From the experimental outcomes, the CNN and CNN-Bidirectional LSTM with Ok-mer encoding affords excessive accuracy with 93.16% and 93.13%, respectively, on testing information.
Complexes have been totally characterised and their constructions have been decided by X-ray diffraction. Their organic exercise was assessed for a number of chosen human tumor cell traces: Jurkat (human leukaemic T-cell lymphoma), HCT-116 (human colorectal carcinoma), HeLa (human cervix epitheloid carcinoma), MCF-7 (human breast adenocarcinoma), MDA-MB-231 (human mammary gland adenocarcinoma), A549 (human alveolar adenocarcinoma), Caco-2 (human colorectal carcinoma), and for non-cancerous 3T3 cells (murine fibroblasts).
DNA sequence-dependent positioning of the linker histone in a nucleosome: a single-pair FRET examine
Linker histones (LH) bind to nucleosomes with their globular area (gH) positioned in both an on- or an off-dyad binding mode. Right here, we examine the impact of the linker DNA (L-DNA) sequence on the binding of a full-length LH, Xenopus laevis H1.0b, to a Widom 601 nucleosome core particle (NCP) flanked by two 40 bp lengthy L-DNA arms, by single-pair FRET spectroscopy. We different the sequence of the 11 bp of L-DNA adjoining the NCP on both facet, making the sequence both A-tract, purely GC, or combined, with 64% AT. The labelled gH persistently exhibited greater FRET effectivity with the labelled L-DNA containing the A-tract, than that with the pure-GC stretch, even when the stretches have been swapped.
Nevertheless, it didn’t exhibit greater FRET effectivity with the L-DNA containing 64% AT-rich combined DNA when in comparison with the pure-GC stretch. We clarify our observations with a mannequin that reveals that the gH binds on-dyad and that two arginines mediate recognition of the A-tract by way of its characteristically slender minor groove. To analyze whether or not this on-dyad minor groove-based recognition was distinct from beforehand recognized off-dyad main groove-based recognition, a nucleosome was designed with A-tracts on each the L-DNA arms. One A-tract was complementary to thymine and the opposite to deoxyuridine. The most important groove of the thymine-tract was lined with methyl teams that have been absent from the main groove of the deoxyuridine tract.
The gH exhibited comparable FRET for each these A-tracts, suggesting that it doesn’t work together with the thymine methyl teams uncovered on the main groove. Our observations thus complement earlier research that counsel that completely different LH isoforms might make use of other ways of recognizing AT-rich DNA and A-tracts. This adaptability might allow the LH to universally compact scaffold-associated areas and constitutive heterochromatin, that are wealthy in such sequences.
INSIDER: alignment-free detection of overseas DNA sequences
Exterior DNA sequences might be inserted into an organism’s genome both via pure processes corresponding to gene switch, or via focused genome engineering methods. Having the ability to robustly establish such overseas DNA is a vital functionality for well being and biosecurity functions, corresponding to anti-microbial resistance (AMR) detection or monitoring gene drives. This functionality doesn’t exist for poorly characterised host genomes or with restricted details about the built-in sequence. To deal with this, we developed the INserted Sequence Info DEtectoR (INSIDER). INSIDER analyses entire genome sequencing information and identifies segments of doubtless overseas origin by their vital shift in k-mer signatures.
We display the ability of INSIDER to separate built-in DNA sequences from regular genomic sequences on an artificial dataset simulating the insertion of a CRISPR-Cas gene drive into wild-type yeast. As a proof-of-concept, we use INSIDER to detect the precise AMR plasmid in entire genome sequencing information from a Citrobacter freundii affected person isolate. INSIDER streamlines the method of figuring out built-in DNA in poorly characterised wild species or when the insert is of unknown origin, thus enhancing the monitoring of rising biosecurity threats.
A deep studying mannequin for predicting next-generation sequencing depth from DNA sequence
Focused high-throughput DNA sequencing is a main strategy for genomics and molecular diagnostics, and extra just lately as a readout for DNA data storage. Oligonucleotide probes used to counterpoint gene loci of curiosity have completely different hybridization kinetics, leading to non-uniform protection that will increase sequencing prices and reduces sequencing sensitivities. Right here, we current a deep studying mannequin (DLM) for predicting Subsequent-Era Sequencing (NGS) depth from DNA probe sequences. Our DLM features a bidirectional recurrent neural community that takes as enter each DNA nucleotide identities in addition to the calculated likelihood of the nucleotide being unpaired.
Anti-HA Magnetic Beads |
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| HY-K0201 | MedChemExpress | 1 mL | EUR 334.8 |
Protein A Magnetic Beads |
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| HY-K0203 | MedChemExpress | 1 mL | EUR 148.8 |
Protein G Magnetic Beads |
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| HY-K0204 | MedChemExpress | 5 mL | EUR 445.2 |
Anti-Flag Magnetic Beads |
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| HY-K0207 | MedChemExpress | 1 mL | EUR 570 |
Protein A Magnetic Beads |
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| 6507-1 | Biovision | each | EUR 314.4 |
Protein G Magnetic Beads |
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| 6517-1 | Biovision | each | EUR 314.4 |
Protein L Magnetic Beads |
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| 6537-1 | Biovision | each | EUR 352.8 |
Magnetic Beads for DNA Purification |
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| M1502-5 | Biovision | 5 ml | EUR 332.4 |
Protein A/G Magnetic Beads |
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| HY-K0202 | MedChemExpress | 1 mL | EUR 157.2 |
Anti-c-Myc Magnetic Beads |
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| HY-K0206 | MedChemExpress | 5 mL | EUR 1368 |
Protein A/G Magnetic Beads |
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| 6527-1 | Biovision | each | EUR 352.8 |
Protein A/G/L Magnetic Beads |
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| 6547-1 | Biovision | each | EUR 405.6 |
Protein A/G Magnetic Beads for IP |
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| B23201 | Bimake | 1 ml | EUR 158.4 |
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Description: Protein A/G Magnetic Beads for immunoprecipitation (IP) are based on a biological nanosurface technology (S-TEC). Protein A/G coats the surface of super paramagnetic microspheres with high coating density up to 9.3 × 10^13 molecules/cm2. Compared to similar immune magnetic beads, our Protein A/G beads display much more antibody binding sites therefore using less magnetic beads per reaction and ultimately achiving greater cost-efficiency. Non-specific binding is reduced to an absolute low eliminating any detectable interference with your IP assays. The large, specific surface area of the beads greatly shortens the adsorption time and achieves complete antibody/antigen adsorption process in 10 minutes and complete total purification and precipitation in just 30 minutes. This product can be used on a wide variety of samples, such as in cell lysates, supernatants collected from cell secretion, serum, ascites, and other immune antigens. |
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Protein A/G Magnetic Beads for IP |
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| B23202 | Bimake | 5 ml | EUR 558 |
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Description: Protein A/G Magnetic Beads for immunoprecipitation (IP) are based on a biological nanosurface technology (S-TEC). Protein A/G coats the surface of super paramagnetic microspheres with high coating density up to 9.3 × 10^13 molecules/cm2. Compared to similar immune magnetic beads, our Protein A/G beads display much more antibody binding sites therefore using less magnetic beads per reaction and ultimately achiving greater cost-efficiency. Non-specific binding is reduced to an absolute low eliminating any detectable interference with your IP assays. The large, specific surface area of the beads greatly shortens the adsorption time and achieves complete antibody/antigen adsorption process in 10 minutes and complete total purification and precipitation in just 30 minutes. This product can be used on a wide variety of samples, such as in cell lysates, supernatants collected from cell secretion, serum, ascites, and other immune antigens. |
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FFPE Tissue DNA Extraction Kit - Magnetic Beads |
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| K5011450 | Biochain | 1 kit | EUR 307.2 |
Magnetic Beads-conjugated Mouse anti DDDDK-Tag mAb |
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| AE037 | Abclonal | 50 ul | EUR 211.2 |
FAB & Beads(Ballotini Beads) |
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| MED1042 | Scientific Laboratory Supplies | PK50 | EUR 91.2 |
Latex Beads |
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| abx291003-1L | Abbexa | 1 L | EUR 2798.4 |
RNA Beads |
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| 20-abx298002 | Abbexa |
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Bulk Beads |
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| D1131-01 | Benchmark Scientific | 1 PC | EUR 285.76 |
Bulk Beads |
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| D1131-05 | Benchmark Scientific | 1 PC | EUR 285.76 |
Bulk Beads |
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| D1131-10 | Benchmark Scientific | 1 PC | EUR 492.47 |
Bulk Beads |
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| D1132-01TP | Benchmark Scientific | 1 PC | EUR 492.47 |
Bulk Beads |
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| D1132-05TP | Benchmark Scientific | 1 PC | EUR 492.47 |
Bulk Beads |
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| D1132-10TP | Benchmark Scientific | 1 PC | EUR 492.47 |
Bulk Beads |
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| D1132-15TP | Benchmark Scientific | 1 PC | EUR 492.47 |
Bulk Beads |
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| D1132-30TP | Benchmark Scientific | 1 PC | EUR 492.47 |
Bulk Beads |
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| D1132-60 | Benchmark Scientific | 1 PC | EUR 289.93 |
Bulk Beads |
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| D1133-28 | Benchmark Scientific | 1 PC | EUR 112.45 |
Exorose Beads |
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| EXOB-100 | ABTBeads | 100 ml | EUR 127.2 |
Exorose Beads |
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| EXOB-25 | ABTBeads | 25 ml | EUR 69.6 |
Exorose Beads |
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| EXOB-250 | ABTBeads | 250 ml | EUR 225.6 |
Saline & Beads |
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| MED1064 | Scientific Laboratory Supplies | PK50 | EUR 91.2 |
Refill Glass Beads |
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| B1201-BEAD | Benchmark Scientific | 1 PC | EUR 141.34 |
V5 agarose beads |
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| AE029-100ul | Abclonal | 100 ul | Ask for price |
V5 agarose beads |
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| AE029-200ul | Abclonal | 200 ul | EUR 273.6 |
V5 agarose beads |
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| AE029-20ul | Abclonal | 20 ul | Ask for price |
V5 agarose beads |
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| AE029-50ul | Abclonal | 50 ul | Ask for price |
Glass Beads 0.1mm |
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| GB01 | Next Advance | 1pack | EUR 129.6 |
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Description: Glass beads. 0.1mm. 1 lb. Non-sterile. |
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Glass Beads 0.5mm |
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| GB05 | Next Advance | 1pack | EUR 123.6 |
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Description: Glass beads. 0.5mm. 1 lb. Non-sterile. |
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Glass Beads 1.0mm |
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| GB10 | Next Advance | 1pack | EUR 123.6 |
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Description: Glass beads. 1.0mm. 1 lb. Non-sterile. |
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Sodium hydroxide, Beads |
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| SB6789 | Bio Basic | 500g | EUR 73.21 |
RanBP1 Agarose Beads |
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| STA-421 | Cell Biolabs | 400 µg | EUR 686.4 |
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Description: RanBP1 Agarose Beads selectively pull down the active form of Ran. Beads are colored to allow for a visual check. These are the same beads supplied with our Small GTPase Activation Assays. 400 µg. |
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Protect beads green |
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| SWA1151 | Scientific Laboratory Supplies | PK80 | EUR 103.74 |
Protect Beads White |
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| SWA1155 | Scientific Laboratory Supplies | PK80 | EUR 103.74 |
Protect Beads Blue |
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| SWA1158 | Scientific Laboratory Supplies | PK80 | EUR 103.74 |
Thrombin Sepharose Beads |
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| 7925-1 | Biovision | each | EUR 261.6 |
Thrombin Sepharose Beads |
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| 7925-25 | Biovision | each | EUR 2114.4 |
Thrombin Sepharose Beads |
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| 7925-5 | Biovision | each | EUR 836.4 |
Plasmin Sepharose Beads |
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| 7926-1 | Biovision | each | EUR 261.6 |
Plasmin Sepharose Beads |
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| 7926-25 | Biovision | each | EUR 2114.4 |
Plasmin Sepharose Beads |
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| 7926-5 | Biovision | each | EUR 836.4 |
Urokinase Sepharose Beads |
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| 7927-1 | Biovision | each | EUR 261.6 |
Urokinase Sepharose Beads |
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| 7927-25 | Biovision | each | EUR 2114.4 |
Urokinase Sepharose Beads |
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| 7927-5 | Biovision | each | EUR 836.4 |
Immobilized Catalase Beads |
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| 7931-1 | Biovision | each | EUR 183.6 |
Immobilized Catalase Beads |
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| 7931-10 | Biovision | each | EUR 705.6 |
Calmodulin-Sepharose Beads |
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| 7934-1 | Biovision | each | EUR 183.6 |
Calmodulin-Sepharose Beads |
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| 7934-10 | Biovision | each | EUR 574.8 |
Calmodulin-Sepharose Beads |
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| 7934-5 | Biovision | each | EUR 405.6 |
Streptavidin-Sepharose Beads |
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| 6565-10 | Biovision | each | EUR 836.4 |
Streptavidin-Sepharose Beads |
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| 6565-100 | Biovision | each | Ask for price |
Streptavidin-Sepharose Beads |
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| 6565-2 | Biovision | each | EUR 274.8 |
Streptavidin-Sepharose Beads |
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| 6565-5 | Biovision | each | EUR 483.6 |
EZEnrich? Polyubiquitin Beads |
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| 6568-300 | Biovision | each | EUR 444 |
Size Selection DNA Beads |
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| 20-abx298001 | Abbexa |
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VAHTS mRNA Capture Beads |
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| N401-01 | Vazyme | 24 rxn | EUR 171.6 |
VAHTS mRNA Capture Beads |
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| N401-02 | Vazyme | 96 rxn | EUR 306 |
VAHTS DNA Clean Beads |
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| N411-01 | Vazyme | 5 ml | EUR 259.2 |
VAHTS DNA Clean Beads |
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| N411-02 | Vazyme | 60 ml | EUR 634.8 |
VAHTS DNA Clean Beads |
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| N411-03 | Vazyme | 450 ml | EUR 3055.2 |
VAHTS RNA Clean Beads |
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| N412-01 | Vazyme | 5 ml | EUR 286.8 |
VAHTS RNA Clean Beads |
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| N412-02 | Vazyme | 40 ml | EUR 495.6 |
VAHTS RNA Clean Beads |
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| N412-03 | Vazyme | 450 ml | EUR 4860 |
Stainless Steel Beads 0.2mm |
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| SSB02 | Next Advance | 1pack | EUR 229.2 |
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Description: Stainless steel beads. 0.2mm. 1 lb. Non-sterile. |
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Stainless Steel Beads 0.5mm |
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| SSB05 | Next Advance | 1pack | EUR 229.2 |
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Description: Stainless steel beads. 0.5mm. 1 lb. Non-sterile. |
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Stainless Steel Beads 1.6mm |
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| SSB16 | Next Advance | 1pack | EUR 304.8 |
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Description: Stainless steel beads. 1.6mm. 1 lb. Non-sterile. |
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Stainless Steel Beads 2.3mm |
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| SSB23 | Next Advance | 1pack | EUR 260.4 |
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Description: Stainless steel beads. 2.3mm. 1 lb. Non-sterile. |
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Stainless Steel Beads 3.2mm |
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| SSB32 | Next Advance | 1pack | EUR 220.8 |
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Description: Stainless steel beads. 3.2mm. 1 lb. Non-sterile. |
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Stainless Steel Beads 4.8mm |
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| SSB48 | Next Advance | 1pack | EUR 220.8 |
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Description: Stainless steel beads. 4.8mm. 1 lb. Non-sterile. |
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Stainless Steel Beads 6.0mm |
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| SSB60 | Next Advance | 1pack | EUR 223.2 |
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Description: Stainless steel beads. 6.0mm. 1 lb. Non-sterile. |
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PAK1 PBD Agarose Beads |
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| STA-411 | Cell Biolabs | 400 ?g | EUR 686.4 |
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Description: PAK1 PBD Agarose Beads selectively pull down the active form of Rac and Cdc42. Beads are colored to allow for a visual check. These are the same beads supplied with our Small GTPase Activation Assays. 400 µg. |
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Rhotekin RBD Agarose Beads |
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| STA-412 | Cell Biolabs | 400 ?g | EUR 686.4 |
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Description: Rhotekin RBD Agarose Beads selectively pull down the active form of Rho. Beads are colored to allow for a visual check. These are the same beads supplied with our Small GTPase Activation Assays. 400 µg. |
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RalGDS RBD Agarose Beads |
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| STA-418 | Cell Biolabs | 400 µg | EUR 686.4 |
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Description: RalGDS RBD Agarose Beads selectively pull down the active form of Rap. Beads are colored to allow for a visual check. These are the same beads supplied with our Small GTPase Activation Assays. 400 µg. |
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GGA3 PBD Agarose Beads |
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| STA-419 | Cell Biolabs | 400 µg | EUR 686.4 |
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Description: GGA3 PBD Agarose Beads selectively pull down the active form of Arf. Beads are colored to allow for a visual check. These are the same beads supplied with our Small GTPase Activation Assays. 400 µg. |
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RalBP1 PBD Agarose Beads |
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| STA-420 | Cell Biolabs | 400 µg | EUR 686.4 |
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Description: RalBP1 RBD Agarose Beads selectively pull down the active form of Ral. Beads are colored to allow for a visual check. These are the same beads supplied with our Small GTPase Activation Assays. 400 µg. |
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Zirconium Oxide Beads 0.15mm |
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| ZrOB015 | Next Advance | 1pack | EUR 189.6 |
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Description: Fused Zirconium Oxide beads . 0.15mm. 1 lb. Non-sterile. |
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Zirconium Oxide Beads 0.5mm |
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| ZrOB05 | Next Advance | 1pack | EUR 189.6 |
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Description: Zirconium Oxide beads . 0.5mm. 1 lb. Non-sterile. |
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Zirconium Oxide Beads 1.0mm |
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| ZrOB10 | Next Advance | 1pack | EUR 189.6 |
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Description: Zirconium Oxide beads . 1.0mm. 1 lb. Non-sterile. |
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Zirconium Oxide Beads 2.0mm |
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| ZrOB20 | Next Advance | 1pack | EUR 189.6 |
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Description: Zirconium Oxide beads . 2.0mm. 1 lb. Non-sterile. |
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Zirconium Oxide Beads 2.5mm |
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| ZrOB25 | Next Advance | 1pack | EUR 189.6 |
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Description: Zirconium Oxide beads . 2.5mm. 1 lb. Non-sterile. |
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Zirconium Silicate Beads 0.5mm |
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| ZSB05 | Next Advance | 1pack | EUR 146.4 |
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Description: Zirconium Silicate beads . 0.5mm. 1 lb. Non-sterile. |
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Zirconium Silicate Beads 1.0mm |
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| ZSB10 | Next Advance | 1pack | EUR 146.4 |
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Description: Zirconium Silicate beads . 1.0mm. 1 lb. Non-sterile. |
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Rtg Rapd Analysis Beads |
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| 27950001 | Scientific Laboratory Supplies | EACH | EUR 804.84 |
Glass Calibration Beads 4mm |
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| SV144 | Scientific Laboratory Supplies | 500G | EUR 14.71 |
Protect Beads Mixed Colours |
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| SWA1147 | Scientific Laboratory Supplies | PK80 | EUR 103.74 |
Calibration Beads for MoFlo |
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| B28479 | Spherotech | each | EUR 346.8 |
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Description: Please reffer to the technical data sheet for more detail information for this item. Our dedicated team would be happy to assist you via live chat, email or phone. |
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Magnetic Stirrer |
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| abx725038-1Unit | Abbexa | 1 Unit | EUR 518.4 |
Magnetic Stand |
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| abx799001-1Unit | Abbexa | 1 Unit | EUR 309.6 |
Magnetic Separator |
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| B23803 | Bimake | 2 mL/200 uL/15 mL | EUR 291.6 |
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Description: This Magnetic Separator is a proprietary machine, supportinga the magnetic beads series of products. A core tenent is the use of a superior magnetic, to ensure that magnetic separation step can be completed in a short time. |
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Magnetic Separator |
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| MagSep1-1 | ABTBeads | 1/pk | EUR 132 |
Magnetic Stirrer |
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| H3760-SE | Benchmark Scientific | 1 PC | EUR 121.85 |
Magnetic Stirrer |
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| H4000-S-E | Benchmark Scientific | 1 PC | EUR 97.22 |
Magnetic Stand |
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| HY-K0200 | MedChemExpress | 200 μL-2 mL-15 mL | EUR 456 |
Beads-for-Seeds (24 glass beads, each in a 1.5 ml tube) |
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| M-CO-501 | MiTeGen | 24 glass beads | EUR 71 |
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Description: Beads-for-Seeds (24 glass beads, each in a 1.5 ml tube) |
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Glass Beads 0.1mm RNase Free |
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| GB01-RNA | Next Advance | 1pack | EUR 115.2 |
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Description: Glass beads. 0.1mm. 4mL. RNase free. |
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Glass Beads 0.5mm RNase Free |
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| GB05-RNA | Next Advance | 1pack | EUR 115.2 |
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Description: Glass beads. 0.5mm. 4mL. RNase free. |
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Stainless Steel UFO Beads 3.5mm |
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| SSUFO35 | Next Advance | 1pack | EUR 229.2 |
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Description: Stainless steel UFO beads. 3.5mm. 50mL. Non-sterile. |
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Stainless Steel UFO Beads 5.6mm |
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| SSUFO56 | Next Advance | 1pack | EUR 225.6 |
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Description: Stainless steel UFO beads. 5.6mm. 50mL. Non-sterile. |
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Raf-1 RBD Agarose Beads |
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| STA-410 | Cell Biolabs | 400 ?g | EUR 686.4 |
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Description: Raf-1 RBD Agarose Beads selectively pull down the active form of Ras. Beads are colored to allow for a visual check. These are the same beads supplied with our Ras Activation Assays. 400 µg. |
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Flexi-Block + Beads Double Width |
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| BLO2162 | Scientific Laboratory Supplies | EACH | EUR 283.86 |
Flexi-Block + Beads Triple Width |
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| BLO2163 | Scientific Laboratory Supplies | EACH | EUR 428.64 |
500GM Glass beads 2mm 500gm |
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| GS/2 | Scientific Laboratory Supplies | 500G | EUR 15.28 |
Protect Beads Green PP Tray |
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| SWA1164 | Scientific Laboratory Supplies | PK100 | EUR 166.44 |
Protect Beads Red PP Tray |
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| SWA1166 | Scientific Laboratory Supplies | PK100 | EUR 166.44 |
Protect Beads White PP Tray |
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| SWA1168 | Scientific Laboratory Supplies | PK100 | EUR 166.44 |
Protect Beads Blue PP Tray |
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| SWA1170 | Scientific Laboratory Supplies | PK100 | EUR 166.44 |
Protect Beads Yellow Bulk Pack |
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| SWA1174 | Scientific Laboratory Supplies | PK1000 | EUR 956.46 |
Protect Beads Green Bulk Pack |
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| SWA1176 | Scientific Laboratory Supplies | PK1000 | EUR 956.46 |
Protect Beads Red Bulk Pack |
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| SWA1178 | Scientific Laboratory Supplies | PK1000 | EUR 956.46 |
Protect Beads White Bulk Pack |
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| SWA1180 | Scientific Laboratory Supplies | PK1000 | EUR 956.46 |
Protect Beads Blue Bulk Pack |
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| SWA1182 | Scientific Laboratory Supplies | PK1000 | EUR 956.46 |
We apply our DLM to a few completely different NGS panels: a 39,145-plex panel for human single nucleotide polymorphisms (SNP), a 2000-plex panel for human lengthy non-coding RNA (lncRNA), and a 7373-plex panel focusing on non-human sequences for DNA data storage. In cross-validation, our DLM predicts sequencing depth to inside an element of three with 93% accuracy for the SNP panel, and 99% accuracy for the non-human panel. In unbiased testing, the DLM predicts the lncRNA panel with 89% accuracy when educated on the SNP panel. The identical mannequin can also be efficient at predicting the measured single-plex kinetic price constants of DNA hybridization and strand displacement.