P1 costs and material
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This spreadsheet gives an estimation of running the P1 lab for 1 month
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The cost estimation is based on the following assumptions:
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1) We take the consumption of a 22 scientist lab working full time in protein engineering as a comparison when possible
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2) We will use very similar methods during our manipulations in Hackuarium
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3) We will then calculate a price range making an estimation of the usage
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4) The initial cash amount will be calculated as well (i.e. if we have to invest to buy all consumables for the first time)
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All the explanations on the why of the what will be used is explained on the wiki
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Scale measurement
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Hackuariummodel lab
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max occupancy at same time
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time usage / day [h]
38scaling factorsafe side
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151760.085227272730.1
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weekly exp / occupant
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experiments / month:
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General Items
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Item name
m[g] / V[L] / N[-]
batch price
amount / batch
unit price
usage in model lab / month
scaling factor
usage / experiment
#experiment / month
usage / month
price / month
price sourceremark
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1000ul tips2504.722500.018884400.1440.83072
https://www.huberlab.ch/Assortiment/Recherche-%26-d%C3%A9veloppement/Liquid-handling/pipeter/pointes-pour-micropipettes/Pointes-universelles-1000-%CE%BCl-Greiner-Bio-One/p/cat_9736
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200ul tips100018.910000.01894400.1440.8316
https://www.huberlab.ch/Assortiment/Recherche-%26-d%C3%A9veloppement/Liquid-handling/pipeter/pointes-pour-micropipettes/pointes-avec-rebord%2C-en-sachet-Trefflab/p/cat_52130
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1ul tips200086.920000.043451100.1110.47795
https://www.huberlab.ch/Assortiment/Recherche-%26-d%C3%A9veloppement/Liquid-handling/pipeter/pointes-pour-micropipettes/Pointes-PLASTIBRAND%2C-en-vrac%2C-non-st%C3%A9riles-Brand/p/cat_52108
25
standard plate (empty)48081.624800.1700416667
https://www.huberlab.ch/Assortiment/Alimentation-%26-Cuisine/Technologie-alimentaire/analyse-des-aliments/bo%C3%AEtes-de-Petri/Bo%C3%AEtes-de-Petri-Greiner-Bio-One/p/cat_10186
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LB-Agar100012014000.08571428571
https://www.carlroth.com/en/en/Chemicals/A-Z-Chemicals/L/LB-Agar-%28Lennox%29/LB-Agar-%28Lennox%29/p/0000000400027c4400010023_en
35g / 1L =~ 28L, 20ml / plate -> 28*1000/20 = 1400
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standard plate with medium0.2557559524
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Ampicillin 10465000000.000092
https://www.carlroth.com/en/en/Life-Science/Microbiology/Antibiotics-Antimycotics/Antibiotics/Ampicillin-sodium-salt/p/000000090000a63f00040023_en
0.001g / L -> 20ml / plate -> 0.05g / plate -> 500000 plates
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standard plate with medium + Ampicillin 0.2558479524
https://www.carlroth.com/fr/fr/Life-Science/Microbiologie/Milieux-de-culture-%28anhydre%29/Vue-d%27ensemble-de-milieux-de-culture/LB%2C-bouillon-%28Lennox%29/p/0000000400027c0c00010023_fr
20g / L so 500/20 = 25
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LB-Medium powder50058252.32
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Liquid LB Medium12.32
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Liquid LB Medium + Ampicillin12.3246
ampi : 0.01g / L so 0.01g needed
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0.2ml microtube10005510000.0552000.1201.1
https://www.huberlab.ch/Assortiment/Recherche-%26-d%C3%A9veloppement/Sciences-de-la-vie/biologie-mol%C3%A9culaire/microtubes-PCR/Tubes-PCR-Eppendorf%C2%AE/p/cat_60047
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1.5ml microtube300093.7530000.0312540000.140012.5
https://www.huberlab.ch/Assortiment/Mat%C3%A9riel-de-base/Consommables-de-laboratoire/r%C3%A9cipients/tubes/microtubes-%26-tubes-%C3%A0-r%C3%A9action/Microtubes-Greiner-Bio-One/p/cat_12673
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15ml tube1000251.7510000.251754000.14010.07
https://www.huberlab.ch/Assortiment/Recherche-%26-d%C3%A9veloppement/Microbiologie/pr%C3%A9l%C3%A8vement-d%27%C3%A9chantillons/contenants/Tubes-%C3%A0-centrifuger-Polypropyl%C3%A8ne-CELLSTAR-Greiner-Bio-One-/p/cat_760
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50ml tube500145.355000.29072000.1205.814
https://www.huberlab.ch/Assortiment/Recherche-%26-d%C3%A9veloppement/Microbiologie/pr%C3%A9l%C3%A8vement-d%27%C3%A9chantillons/contenants/Tubes-%C3%A0-centrifuger-Polypropyl%C3%A8ne-CELLSTAR-Greiner-Bio-One-/p/cat_760
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2ml pipette1000211.8510000.211851000.1102.1185
https://www.huberlab.ch/Assortiment/Recherche-%26-d%C3%A9veloppement/Microbiologie/liquid-handling/pipettes/Pipettes-s%C3%A9rologiques-CELLSTAR%C2%AE-Greiner-Bio-One/p/cat_625
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10ml pipette500197.55000.3952000.1207.9
https://www.huberlab.ch/Assortiment/Recherche-%26-d%C3%A9veloppement/Microbiologie/liquid-handling/pipettes/Pipettes-s%C3%A9rologiques-CELLSTAR%C2%AE-Greiner-Bio-One/p/cat_625
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25ml pipette20098.422000.49211000.1104.921
https://www.huberlab.ch/Assortiment/Recherche-%26-d%C3%A9veloppement/Microbiologie/liquid-handling/pipettes/Pipettes-s%C3%A9rologiques-CELLSTAR%C2%AE-Greiner-Bio-One/p/cat_625
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price to make a 1st stock:1469.76
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Waste Elimination
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Item name
mass[g] / vol[L]
batch price
amount / batch
unit price
usage in model lab / month
scaling factor
usage / experiment
#experiment / month
usage / month
price / month
price sourceremark
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Solids
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Autoclavable bag500218.45000.436850.10.50.2184
https://www.carlroth.com/ch/fr/Mat%C3%A9riel-de-Laboratoire/Protection-du-travail%2C-S%C3%A9curit%C3%A9/Sachets-d%27%C3%A9limination/Sachets-d%27%C3%A9limination-Sekuroka%3Csup%3E%C2%AE%3C-sup%3E/Sachets-d%27%C3%A9limination-Sekuroka%3Csup%3E%C2%AE%3C-sup%3E%2C-PP%2C-%C3%A9paisseur-50-%C2%B5m/p/000000050000d64300040023_fr
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Sturdy trash bag102.95100.29550.10.50.1475
https://produits.migros.ch/sacs-poubelle-cleverbag-rouleau-110-l
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Attaches 10061000.06100.110.06
http://www.cdiscount.com/maison/bricolage-outillage/sedea-100-colliers-de-serrage-plastique/f-117043403-sed3335350555106.html?idOffre=57659790#mpos=3|mp
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Liquids
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Will be done in glass bottles -
will be done with glass bottle, autoclaved then trashed. The bottles will be reused
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price to make a 1st stock:227.35
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Chemicals
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Item name
mass[g] / vol[L]
batch price
amount / batch
unit price
usage in model lab / month
scaling factor
usage / experiment
#experiment / month
usage / month
price / month
price sourceremark
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For Buffers
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Tris1000501500.20.10.021
https://www.carlroth.com/ch/fr/Life-Science/Biochimie/Tampons-biologiques/Tampons-biologiques/TRIS/p/0000000500030a6600010023_fr
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Hepes1000155.81155.80.20.10.023.116
https://www.carlroth.com/ch/fr/Produits-Chimiques/A-Z%2C-produits-chimiques/H/HEPES/HEPES/p/0000000a0000ac6a00020023_fr
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DMSO159.5159.50.050.10.0050.2975
https://www.carlroth.com/ch/fr/Produits-Chimiques/A-Z%2C-produits-chimiques/D/Dim%C3%A9thylsulfoxyde/Dim%C3%A9thylsulfoxyde/p/0000000a0001574500020023_fr
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NaCl100015.2115.20.20.10.020.304
https://www.carlroth.com/ch/fr/Produits-Chimiques/A-Z%2C-produits-chimiques/N/Sodium-chlorure/p/0000000100002ccd00020023_fr
Yes it's just salt... I guess we can use kitche salt as well for buffers
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HCl118.5118.50.050.10.0050.0925
https://www.carlroth.com/ch/fr/Produits-Chimiques/A-Z%2C-produits-chimiques/S/Acide-chlorhydrique-37-%25/p/000000100003431300010023_fr
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NaOH100017.5117.50.050.10.0050.0875
https://www.carlroth.com/ch/fr/Produits-Chimiques/A-Z%2C-produits-chimiques/S/Sodium-hydroxyde/Sodium-hydroxyde/p/0000000100007d8000020023_fr
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MeOH1251250.050.10.0050.125
https://www.carlroth.com/en/en/Chemicals/A-Z-Chemicals/M/Methanol/Methanol/p/0000000100001bb200090023_en
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AcOH1231230.050.10.0050.115
https://www.carlroth.com/en/en/Chemicals/A-Z-Chemicals/A/Acetic-acid-100-%25/Acetic-acid-100-%25/p/00000001000009bf00020023_en
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Bio grade EtOH1751750.050.10.0050.375
https://www.carlroth.com/en/en/Chemicals/A-Z-Chemicals/E/Ethanol-absolut/Ethanol/p/0000000100000da400020023_en
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Cleaning grade EtOH12.212.250.10.51.1
Migros or OBI can be bought as household chem
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glycero133.5133.50.010.10.0010.0335
https://www.carlroth.com/ch/fr/Produits-Chimiques/A-Z%2C-produits-chimiques/G/Glyc%C3%A9rol/Glyc%C3%A9rol/p/00000001000018cb00020023_fr
Used for any sort of -20°C storage for the sample not to freeze
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price to make a 1st stock:475.2
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Cloning
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We assume an assembly containing 1 vector and 1 insert
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Item name
mass[g] / vol[L]
batch price
amount / batch
unit price
usage in model lab / month
scaling factor
usage / experiment
#experiment / month
usage / month
price / month
price sourceremark
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DNA material
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30bp primer1011041560600http://www.microsynth.ch/
Can quickly become expensive if people fuck up their clone design! Introduce a standardized vector where people will always use the same overlaping segments ?
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plasmid (addgene)115
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sythetic gene 1kbp1110
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DNA amplification
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polymerase (openTaq)
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polymerase (Q5 HF HS)
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SYBR safe4.00E-041301500.86666666671151513
https://www.thermofisher.com/ch/en/home/life-science/dna-rna-purification-analysis/nucleic-acid-gel-electrophoresis/dna-stains/sybr-safe.html
we usually make 25ml agarose gels, 2.5ul is used per gel
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Ethidium Bromide0.171.24500.1582222222115152.373333333
http://www.sigmaaldrich.com/catalog/product/sigma/e1510?lang=fr&region=CH&gclid=CKSH3ZDFgs0CFQUq0wodd5wL9Q
amt / batch: 10ml, 10mg/ml, m_tot = 0.1g, Cf = 10ug/ml, Vf = 22ml, m_tot/exp = 0.22mg, amout =~ 450 exp
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Log2 ladder1.00E-03552000.275115154.125
https://www.neb.com/products/n3200-2-log-dna-ladder-01-100-kb
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Orange G Loading Dye25855.00E+061.70E-05115152.55E-04
http://www.sigmaaldrich.com/catalog/product/sigma/o3756?lang=fr&region=CH
The dye comes as a powder and can last for a long time
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SB (sodium borate)50038.814000.02771428571115150.4157142857
http://www.reactolab.ch/contents/fr/d4.html#p40
m_for_1L_20X_sol : 38g vol_for_1X_gel =~ 200ml so: (500/38)*20*(1000/200) = 1400
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Boric Acid1005026200.01908396947115150.286259542
http://www.reactolab.ch/contents/fr/d8_02.html#p5430
m_for_1L_20X_sol : 30g vol_for_1X_gel =~ 200ml so: (500/38)*20*(1000/200) = 5240
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Agarose100664000.165115152.475
https://www.carlroth.com/en/en/Life-Science/Electrophoresis/Agarose-and-Gelling-Reagents/Agarose/Agarose-Standard/p/0000000900023ad200030023_en
http://www.genomics.agilent.com/files/Mobio/Nucleic%20Acids_Gel_Electrophoresis.pdf
1% agarose w/w = 10g / L usage : 25ml / gel so 400 usages for 100g
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Purif dPNI & Kit version
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Quiagen PCR Purif Kit120502.41151536
https://www.qiagen.com/fr/shop/sample-technologies/dna/dna-clean-up/qiaquick-pcr-purification-kit/#orderinginformation
columns can be recycled, buffers can be home made
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dPNI Kit6210000.062215301.86
https://www.neb.com/products/r0176-dpni#tabselect0
will cleave the template DNA. Could be home produced
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Purif gel cut and purif
Electrophoresis chemicals are counted under the chemical section
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Gel purif kit108502.161151532.4
https://www.qiagen.com/fr/shop/sample-technologies/dna/dna-clean-up/qiaquick-gel-extraction-kit/#orderinginformation
Not my favorite personally but we get rid of the dpnI
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Gene assembly (Gibson home made)
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Phusion
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Exonuclease
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Ligase
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