WeFaceNano: a user-friendly pipeline for complete ONT sequence assembly and detection of antibiotic resistance in multi-plasmid bacterial isolates

heraeus-targets

Background: Bacterial plasmids typically carry antibiotic resistance genes and are a big issue within the unfold of antibiotic resistance. The flexibility to utterly assemble plasmid sequences would facilitate the localization of antibiotic resistance genes, the identification of genes that promote plasmid transmission and the correct monitoring of plasmid mobility. Nonetheless, the whole meeting of plasmid sequences utilizing the at present most generally used sequencing platform (Illumina-based sequencing) is restricted as a result of era of quick sequence lengths. The long-read Oxford Nanopore Applied sciences (ONT) sequencing platform overcomes this limitation. Nonetheless, the meeting of plasmid sequence knowledge stays difficult resulting from software program incompatibility with long-reads and the error fee generated utilizing ONT sequencing. Bioinformatics pipelines have been developed for ONT-generated sequencing however require computational expertise that regularly are past the skills of scientific researchers.

 

To beat this problem, the authors developed ‘WeFaceNano’, a user-friendly Net interFace for fast meeting and evaluation of plasmid DNA sequences generated utilizing the ONT platform. WeFaceNano contains: a learn statistics report; two assemblers (Miniasm and Flye); BLAST looking out; the detection of antibiotic resistance- and replicon genes and several other plasmid visualizations. A user-friendly interface shows the primary options of WeFaceNano and offers entry to the evaluation instruments.

Outcomes: Publicly out there ONT sequence knowledge of 21 plasmids have been used to validate WeFaceNano, with plasmid assemblages and anti-microbial resistance gene detection being concordant with the printed outcomes. Curiously, the “Flye” assembler with “meta” settings generated essentially the most full plasmids.

Conclusions: WeFaceNano is a user-friendly open-source software program pipeline appropriate for correct plasmid meeting and the detection of anti-microbial resistance genes in (scientific) samples the place a number of plasmids could be current.

Antibiotic resistance and plasmid evaluation of Enterobacteriaceae remoted from retail meat in Lagos Nigeria

 

Background: The presence of antibiotic resistant microorganisms in meals is of nice concern globally. This analysis was carried out to detect and characterize plasmid carriage and profiles amongst members of Enterobacteriaceae from completely different meat sorts in Nigeria.

Technique: From a complete of 80 meat samples comprising of mutton,pork, beef and rooster, organisms belonging to the household Enterobacteriaceae wereisolated by commonplace procedures and recognized by API 20E system. Antibiotics susceptibilities testing (AST) againstselected courses of antimicrobial brokers and plasmid extraction was carried outby disc diffusion and alkaline lysis strategies respectively.

Outcomes: One-hundred and ten Enterobacteriaceae have been remoted,species identification revealed isolates belonging to 7 genera comprising of Escherichia, Enterobacter, Klebsiella,Citrobacter, Proteus, Salmonella and Serratia. Total resistance of theorganisms to amoxycillin/clavulanic acid was 91 (82.7%), streptomycin 85(75.7%) and perfloxacin 74 (67.2%) whereas ofloxacin had the highestsusceptibility fee (91.8%). Plasmids profiling revealed ranges of plasmids from1 to three copies with estimated sizes vary of 700bp to 1.1kb amongst E. coli, Okay. pneumoniae, E. aerogenesand Proteus mirabilis. All theisolates with plasmids have been multidrug resistant and have been remoted from rooster excepta pressure of E. coli from pork whichharboured a single plasmid copy suggesting these meat as reservoirs forantibiotic resistant micro organism.

Conclusion: Our findings revealed excessive stage of meat contamination with antibioticresistant Enterobacteriaceae harbouring resistant plasmids. An integratedsurveillance system and security follow should be ensured among the many processorsand retailers.

Identification of a novel plasmid-mediated carbapenemase-encoding gene blaVMB-2 in Vibrio diabolicus

 

We characterised a carbapenem-resistant Vibrio diabolicus pressure of shrimp origin with numerous experiments and bioinformatics evaluation. A novel metallo-β-lactamase gene blaVMB-2, conferring resistance to β-lactams together with meropenem and cephalosporins, was recognized on a plasmid-borne composite transposon ISShfr9-ISCR1blaVMB-2blaCARB-12aadA1-ISShfr9 able to producing blaVMB-2-bearing round intermediate. ISShfr9 was discovered disseminated on MDR pathogens, arousing the priority of additional transmission of blaVMB-2-bearing round intermediate to scientific Enterobacterales through such insertion sequence, which warrants additional investigations.

Outcomes of Dynamic Distinction-Enhanced Ultrasound Correlate With Therapy Final result in Canine Neoplasia Handled With Electrochemotherapy and Interleukin-12 Plasmid Electrotransfer

 

Electrochemotherapy (ECT) and/or gene electrotransfer of plasmid DNA encoding interleukin-12 (GET pIL-12) are efficient remedies for canine cutaneous, subcutaneous, and maxillofacial tumors. Regardless of the scientific efficacy of the mixed remedies of ECT and GET, knowledge on parameters which may predict the result of the remedies are nonetheless missing. This research aimed to research whether or not dynamic contrast-enhanced ultrasound (DCE-US) outcomes of subcutaneous tumors differ between tumors with full response (CR) and tumors with out full response (non-CR) in canine handled with ECT and GET pIL-12. Eight canine with a complete of 12 tumor nodules handled with ECT and GET pIL-12 have been included. DCE-US examinations have been carried out in all animals earlier than and instantly after remedy in addition to Eight h and 1, 3, and seven days later.

Medical follow-up examinations have been carried out 7 and 14 days, 1 and 6 months, and 1 yr after therapy. Quite a few vital variations in DCE-US parameters have been famous between tumors with CR and non-CR tumors; perfusion and perfusion heterogeneity have been decrease in CR tumors than in non-CR tumors. Due to this fact, research with bigger numbers of sufferers are wanted to research whether or not DCE-US outcomes can be utilized to foretell therapy outcomes and to make efficient choices in regards to the want for repeated remedy or completely different therapy mixtures in particular person sufferers.

heraeus-targets

heraeus-targets

Excessive-throughput analysis of polymeric nanoparticles for tissue-targeted gene expression utilizing barcoded plasmid DNA

More and more, analysis laboratories are fabricating libraries of novel nanoparticles, engineering each new biomaterial constructions and composition ratios of multicomponent methods. But, strategies for screening gene supply automobiles straight in vivo are typically low-throughout, limiting the variety of candidate nanoparticles that may be investigated. Right here, we report a complete, high-throughput technique to judge a library of polymeric nanoparticles in vivo for tissue-specific gene supply. The tactic entails pairing every nanoparticle formulation with a plasmid DNA (pDNA) that harbors a novel nucleotide sequence serving because the figuring out “barcode”. Utilizing actual time quantitative PCR (qPCR) for detection of the barcoded pDNA and quantitative reverse transcription PCR (RT-qPCR) for transcribed barcoded mRNA, we are able to quantify accumulation and transfection in tissues of curiosity. The barcode pDNA and primers have been designed with adequate sensitivity and specificity to judge a number of nanoparticle formulations per mouse, enhancing screening effectivity.

Utilizing this platform, we evaluated the biodistribution and transfection of Eight intravenously administered poly(beta-amino ester) (PBAE) nanoparticle formulations, every with a PBAE polymer of differential construction. Important ranges of nanoparticle accumulation and gene transfection have been noticed primarily in organs concerned in clearance, together with spleen, liver, and kidneys. Curiously, increased ranges of transfection of choose organs didn’t essentially correlate with increased ranges of tissue accumulation, highlighting the significance of straight measuring in vivo transfection effectivity as the important thing barcoded parameter in gene supply vector optimization. To validate this technique, nanoparticle formulations have been used individually for luciferase pDNA supply in vivo. The distribution of luciferase expression in tissues matched the transfection evaluation by the barcode qPCR technique, confirming that this platform can be utilized to precisely consider systemic gene supply.

 

DC MEDIUM

D04-117-2kg 2kg
EUR 458.4

DC MEDIUM

D04-117-500g 500 g
EUR 168

A Medium

DJ1018 100g
EUR 101.76
  • Product category: Culture Media/Medium

EC MEDIUM

E05-100-10kg 10 kg
EUR 976.8

EC MEDIUM

E05-100-2Kg 2 Kg
EUR 259.2

EC MEDIUM

E05-100-500g 500 g
EUR 114

OF Medium

MED1664 500G
EUR 79.2

M9 Medium

SD7024 250g
EUR 86.1
  • Product category: Culture Media/Medium

YM Medium

SD7031 250g
EUR 84.54
  • Product category: Culture Media/Medium

HLP MEDIUM

H08-107-10kg 10 kg
EUR 2733.6

HLP MEDIUM

H08-107-2Kg 2 Kg
EUR 640.8

HLP MEDIUM

H08-107-500g 500 g
EUR 218.4

M63 Medium

SD7033 250g
EUR 86.1
  • Product category: Culture Media/Medium

SIM MEDIUM

S19-110-10kg 10 kg
EUR 1225.2

SIM MEDIUM

S19-110-2kg 2kg
EUR 313.2

SIM MEDIUM

S19-110-500g 500 g
EUR 128.4

SOB MEDIUM

S19-124-10kg 10 kg
EUR 1158

SOB MEDIUM

S19-124-2kg 2kg
EUR 298.8

SOB MEDIUM

S19-124-500g 500 g
EUR 124.8

TCBS Medium

MED1188 PK10
EUR 9.6

M9CA Medium

SD7025 250g
EUR 86.1
  • Product category: Culture Media/Medium

DNase Medium

MED1196 PK10
EUR 10.8

TYGPN Medium

SD7032 250g
EUR 84.01
  • Product category: Culture Media/Medium

Heller's Medium

CP014-010 10X1L
EUR 118.8

Heller's Medium

CP014-500 50L
EUR 151.2

Ec Medium 500gm

231430 EACH
EUR 176.4

Sob Medium 500gm

244310 EACH
EUR 261.6

Mounting Medium

4300 3 ml
EUR 216.6
Description: This is Mounting medium (non-fading) used for maintaining optimal conditions needed to obtain the maximum fluorescence emission from Fluorescein.

Advanced Medium

C0003-04 RT 500 mL Bottle
EUR 123.6

COLIFORM MEDIUM

C03-127-10kg 10 kg
EUR 1588.8

COLIFORM MEDIUM

C03-127-2kg 2kg
EUR 392.4

COLIFORM MEDIUM

C03-127-500g 500 g
EUR 150

Hoagland's Medium

CP015-010 10X1L
EUR 118.8

Hoagland's Medium

CP015-500 50L
EUR 151.2

Rat Cartilage Growth Medium PrimaCell: Normal Articular Cartilage Growth Medium

9-25023 5 x 100 ml Ask for price

Insect Cell Medium: TNM-FH Insect Culture Medium

ABP-MED-10001 1 liter Ask for price
    • Product line: Cell Culture Reagents
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Human Cartilage Growth Medium PrimaCell: Normal Articular Cartilage Growth Medium

9-46043 5 x 100 ml Ask for price

Insect Cell Medium: Serum-Free Insect Culture Medium

ABP-MED-10002 1 liter Ask for price
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RPMI 1640 Medium

abx098879-500ml 500 ml
EUR 210
  • Shipped within 5-10 working days.

A-1 MEDIUM

A01-116-10kg 10 kg
EUR 1240.8

A-1 MEDIUM

A01-116-2Kg 2 Kg
EUR 316.8

A-1 MEDIUM

A01-116-500g 500 g
EUR 129.6

MCDB 131 Medium

CM034-050 500ml
EUR 102

MCDB 131 Medium

CM034-300 6x500ml
EUR 198

MCDB 131 Medium

CM034-310 10x500ml
EUR 262.8

MCDB 131 Medium

CM034-320 20x500ml
EUR 408

MCDB 131 Medium

CM034-350 50x500ml
EUR 702

Insect Cell Medium: Grace?s Insect Medium (Unsupplemented)

ABP-MED-10004 1 liter Ask for price
    • Product line: Cell Culture Reagents
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BPS Medium 1

79259 100 ml
EUR 120
Description: This liquid BPS Medium is optimized for use with many BPS Reporter Kits including_x000D_ • 60612: AP1 Reporter Kit (JNK Pathway)_x000D_ • 60514: ARE Reporter Kit (Nrf2 Antioxidant Pathway)_x000D_ • 60611: CRE/CREB Reporter Kit (cAMP/PKA Signaling Pathway)_x000D_ • 60614: NF-κB Reporter Kit (NF-κB Signaling Pathway)_x000D_ • 60509: Notch1/CSL Reporter Kit (Notch Signaling Pathway)_x000D_ • 60654: SBE Reporter Kit (TGFβ/SMAD signaling pathway)_x000D_ • 60511: SRE Reporter Kit (MAPK/ERK Signaling Pathway)_x000D_ • 60500: TCF/LEF Reporter Kit (Wnt Signaling Pathway)

BPS Medium 7

79260 100 ml
EUR 120
Description: This liquid BPS Medium is optimized for use with select BPS reporter kits.

BPS Medium 8

79385 100 ml
EUR 120
Description: This liquid BPS Medium is optimized for use with the CSF1R/SRE Reporter Kit (BPS Bioscience, #79379).

NeuroProgenitor Medium

NM42400 125 ml
EUR 364.8

Thaw Medium 8

79652-1 100 ml
EUR 140
Description: This liquid Cell Thawing Medium is optimized for thawing and plating select BPS Bioscience recombinant cell lines including NF- κB Reporter (Luc) – THP-1 Cell Line, #79645

Thaw Medium 8

79652-2 500 ml
EUR 600
Description: This liquid Cell Thawing Medium is optimized for thawing and plating select BPS Bioscience recombinant cell lines including NF- κB Reporter (Luc) – THP-1 Cell Line, #79645

Thaw Medium 9

79665-1 100 ml
EUR 140
Description: This liquid Cell Thawing Medium is optimized for thawing and plating select BPS Bioscience cell lines, including_x000D_• CRE/CREB Reporter Lentivirus #79580 _x000D_• NF-κB Reporter Luciferase Reporter Lentivirus #79564

Thaw Medium 9

79665-2 500 ml
EUR 600
Description: This liquid Cell Thawing Medium is optimized for thawing and plating select BPS Bioscience cell lines, using • CRE/CREB Reporter Lentivirus #79580 _x000D_• NF-κB Reporter Luciferase Reporter Lentivirus #79564

Thaw Medium 10

79704-1 100 ml
EUR 140
Description: This liquid medium is optimized to culture select BPS Bioscience cell lines.

Thaw Medium 10

79704-2 500 ml
EUR 600
Description: This liquid medium is optimized to culture select BPS Bioscience cell lines.

Thaw Medium 11

79976-1 100 ml
EUR 140
Description: This liquid medium is optimized to culture select BPS Bioscience cell lines._x000D_Optimized for Use With:_x000D_NF- κB Reporter (Luc) - Raw 264.7 Cell line (BPS Bioscience 79978)

Thaw Medium 11

79976-2 500 ml
EUR 600
Description: This liquid medium is optimized to culture select BPS Bioscience cell lines._x000D_Optimized for Use With:_x000D_NF- κB Reporter (Luc) - Raw 264.7 Cell line (BPS Bioscience 79978)

Thaw Medium 12

78074-1 100 ml
EUR 140
Description: This liquid Cell Thawing Medium is optimized for thawing and plating select BPS Bioscience recombinant cell lines, including: • Cas9-expressing MDA-MB-231 cells (BPS Bioscience #78069)

Thaw Medium 12

78074-2 500 ml
EUR 600
Description: This liquid Cell Thawing Medium is optimized for thawing and plating select BPS Bioscience recombinant cell lines, including: • Cas9-expressing MDA-MB-231 cells (BPS Bioscience #78069)

Thaw Medium 14

78397-1 100 ml
EUR 140
Description: This liquid Cell Thawing Medium is optimized for thawing and plating select BPS Bioscience recombinant cell lines.

Thaw Medium 14

78397-2 500 ml
EUR 600
Description: This liquid Cell Thawing Medium is optimized for thawing and plating select BPS Bioscience recombinant cell lines.

Thaw Medium 15

78412-1 100 ml
EUR 140
Description: This liquid Cell Thawing Medium is optimized for thawing and plating select BPS Bioscience recombinant cell lines.

Thaw Medium 15

78412-2 500 ml
EUR 600
Description: This liquid Cell Thawing Medium is optimized for thawing and plating select BPS Bioscience recombinant cell lines.

Thaw Medium 16

78647-1 100 ml
EUR 140
Description: This liquid Cell Thawing Medium is optimized for use with tetracycline-inducible system.

Thaw Medium 16

78647-2 500 ml
EUR 600
Description: This liquid Cell Thawing Medium is optimized for use with tetracycline-inducible system.

Thaw Medium 4

60181-1 100 ml
EUR 140
Description: This liquid Cell Thawing Medium is optimized for thawing and plating select BPS Bioscience cell lines, including• CFTR - HEK 293 Recombinant Cell Line #60506• Nav1.8/β2 - HEK293 Recombinant Cell Line #60521• NaV1.7-HEK293 Recombinant Cell Line #60607

Thaw Medium 4

60181-2 500 ml
EUR 600
Description: This liquid Cell Thawing Medium is optimized for thawing and plating select BPS Bioscience cell lines, including• CFTR - HEK 293 Recombinant Cell Line #60506• Nav1.8/β2 - HEK293 Recombinant Cell Line #60521• NaV1.7-HEK293 Recombinant Cell Line #60607

Thaw Medium 5

60182-1 100 ml
EUR 140
Description: This liquid Cell Thawing Medium is optimized for thawing and plating select BPS Bioscience cell lines, including• Gli Reporter - NIH3T3 Recombinant Cell line (Hedgehog Pathway) #60409

Thaw Medium 5

60182-2 500 ml
EUR 600
Description: This liquid Cell Thawing Medium is optimized for thawing and plating select BPS Bioscience cell lines, including• Gli Reporter - NIH3T3 Recombinant Cell line (Hedgehog Pathway) #60409

Thaw Medium 6

60183-1 100 ml
EUR 140
Description: This liquid Cell Thawing Medium is optimized for thawing and plating select BPS Bioscience cell lines, including• Myc Reporter (Luc) - HCT116 Recombinant Cell Line (Myc Signaling Pathway) #60520• NF-κB Reporter (Luc) - HCT116 Recombinant Cell Line #60623 • RARα Reporter - HEK293 Recombinant Cell Line #60503 • RARβ Reporter - HEK293 Recombinant Cell Line #60603 • RARγ Reporter - HEK293 Reporter Cell Line #60604

Thaw Medium 6

60183-2 500 ml
EUR 600
Description: This liquid Cell Thawing Medium is optimized for thawing and plating select BPS Bioscience cell lines, including• Myc Reporter (Luc) - HCT116 Recombinant Cell Line (Myc Signaling Pathway) #60520• NF-κB Reporter (Luc) - HCT116 Recombinant Cell Line #60623 • RARα Reporter - HEK293 Recombinant Cell Line #60503 • RARβ Reporter - HEK293 Recombinant Cell Line #60603 • RARγ Reporter - HEK293 Reporter Cell Line #60604

Thaw Medium 2

60184-1 100 ml
EUR 150
Description: This liquid Cell Thawing Medium is optimized for thawing and plating BPS Bioscience's Jurkat-based cell lines, including• PD-1/NFAT Reporter-Jurkat cell #60535• NFAT Reporter (Luc) - Jurkat Cell Line #60621• NF-κB-Luciferase Reporter (Luc) - Jurkat Cell Line #60651• ADCC Bioassay Effector Cell F variant (Low Affinity) #60540• ADCC Bioassay Effector Cell V variant (High Affinity) #60541Note: once cells are well-established, switch to the appropriate cell growth medium.

Thaw Medium 2

60184-2 500 ml
EUR 675
Description: This liquid Cell Thawing Medium is optimized for thawing and plating select BPS Bioscience cell lines, including_x000D__x000D_• PD-1/NFAT Reporter-Jurkat cell #60535_x000D__x000D_• NFAT Reporter (Luc) - Jurkat Cell Line #60621_x000D__x000D_• NF-ĸB-Luciferase Reporter (Luc) - Jurkat Cell Line #60651_x000D__x000D_• ADCC Bioassay Effector Cell F variant (Low Affinity) #60540_x000D__x000D_• ADCC Bioassay Effector Cell V variant (High Affinity) #60541_x000D__x000D_Note: once cells are well-established, switch to the appropriate cell growth medium.

Thaw Medium 7

60185-1 100 ml
EUR 140
Description: This liquid Cell Thawing Medium is optimized for thawing and plating select BPS Bioscience cell lines, including• Myc Reporter (Luc) - HCT116 Recombinant Cell Line (Myc Signaling Pathway) #60520 • NF-κB Reporter (Luc) - HCT116 Recombinant Cell Line #60623

Thaw Medium 7

60185-2 500 ml
EUR 600
Description: This liquid Cell Thawing Medium is optimized for thawing and plating select BPS Bioscience recombinant cell lines, including • Myc Reporter (Luc) - HCT116 Recombinant Cell Line (Myc Signaling Pathway) #60520 • NF-κB Reporter (Luc) - HCT116 Recombinant Cell Line #60623

Thaw Medium 3

60186-1 100 ml
EUR 150
Description: This liquid Cell Thaw Medium is optimized for thawing and plating BPS Bioscience's CHO cell-based recombinant cell lines, including• TCR Activator - CHO Recombinant Cell line #60539 • TCR activator / PD-L1 - CHO Recombinant Cell line #60536 It is designed for use in a 37°C incubator with an atmosphere of 5% CO2/95% air. Note: once cells are well established, switch to an appropriate cell growth medium.

Thaw Medium 3

60186-2 500 ml
EUR 645
Description: This liquid thaw medium is optimized for thawing and plating select BPS Bioscience recombinant cell lines, including_x000D__x000D_• TCR Activator - CHO Recombinant Cell line #60539 _x000D_• TCR activator / PD-L1 - CHO Recombinant Cell line #60536 _x000D__x000D_• CD27 CHO-K1 Stable Recombiant Cell Line #60624 _x000D__x000D_• PD-L1 - CHO Recombinant Cell Line #60543 _x000D__x000D_• NF-κB Reporter (Luc) - CHO-K1 Recombinant Cell Line #60622_x000D_• CD137L (4-1BBL) CHO-K1 Recombinant Cell Line #60523_x000D__x000D_It is designed for use in a 37°C incubator with an atmosphere of 5% CO2/95% air. _x000D_Note: once cells are well established, switch to an appropriate cell growth medium._x000D_

Thaw Medium 1

60187-1 100 ml
EUR 155
Description: This liquid HEK293 Cell Thawing Medium is optimized for thawing and plating BPS Bioscience's HEK293 recombinant cell lines.

Thaw Medium 1

60187-2 500 ml
EUR 695
Description: This liquid Thaw Medium is optimized for thawing and plating BPS Bioscience's HEK293 recombinant cell lines.

10mL S.O.C. Medium

46-003-CR PK10
EUR 122.4

Medium 199/BCDB 105

C0012-02 RT 500 mL Bottle
EUR 181.2

Assay Medium 1B

79617-1 100 ml
EUR 135
Description: This liquid Assay Medium is optimized for use in cellular assays in select BPS Bioscience's cell lines, including:_x000D_• TGF/SMAD Signaling Pathway SBE Reporter - HEK293 Cell Line #60653 _x000D_• AP-1 Reporter - HEK293 Recombinant Cell Line (JNK signaling pathway) #60405

Assay Medium 1B

79617-2 500 ml
EUR 675
Description: This liquid assay medium is optimized for use in cellular assays in select BPS Bioscience's cell lines, including:_x000D_• TGF/SMAD Signaling Pathway SBE Reporter - HEK293 Cell Line #60653 _x000D_• AP-1 Reporter - HEK293 Recombinant Cell Line (JNK signaling pathway) #60405

Assay Medium 2B

79619-1 100 ml
EUR 120
Description: This liquid assay medium is optimized for use in cellular assays in select BPS Bioscience's cell lines, including:_x000D_• Foxp3 Reporter (Luc) - Jurkat Recombinant Cell Line -#60628

Assay Medium 2B

79619-2 500 ml
EUR 600
Description: This liquid assay medium is optimized for use in cellular assays in select BPS Bioscience's cell lines, including:_x000D_• Foxp3 Reporter (Luc) - Jurkat Recombinant Cell Line -#60628

Assay Medium 5A

79620-1 100 ml
EUR 120
Description: This liquid Assay Medium is optimized for use in cellular assays in select BPS Bioscience cell lines.

Assay Medium 5A

79620-2 500 ml
EUR 600
Description: This liquid Assay Medium is optimized for use in cellular assays in select BPS Bioscience cell lines.
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