Ryan Quan's notebook

From 2009.igem.org

(Difference between revisions)
Line 1: Line 1:
-
'''10/9/09
+
'''10/9/09'''
-
'''-miniprepped cultures from 10.7.09 and sent in for sequencing
+
-miniprepped cultures from 10.7.09 and sent in for sequencing
-
'''10/7/09
+
'''10/7/09'''
-
'''-set up cultures for 3
+
-set up cultures for 3
-
'''10/2/09
+
'''10/2/09'''
-
'''-checked sequences
+
-checked sequences
-
'''9/30/09
+
'''9/30/09'''
-
'''-miniprepped cultures for 1,3,4,5,6,8
+
-miniprepped cultures for 1,3,4,5,6,8
-sent in sample for sequencing
-sent in sample for sequencing
-
'''9/28/09
+
'''9/28/09'''
-
'''-ran gel for PCRs
+
-ran gel for PCRs
-set up cultures for 1,3,4,5,6,8
-set up cultures for 1,3,4,5,6,8
-
'''9/25/09
+
'''9/25/09'''
-
'''-Set up PCR for biobrick parts 2 and 9 with elongase
+
-Set up PCR for biobrick parts 2 and 9 with elongase
-
'''9/18/09
+
'''9/18/09'''
-
'''-ran PCR again for 2 and 9 using KOD
+
-ran PCR again for 2 and 9 using KOD
-ran gel for PCR
-ran gel for PCR
-
'''9/11/09
+
'''9/11/09'''
-
'''-ran gel again for PCRs
+
-ran gel again for PCRs
-
'''9/9/09
+
'''9/9/09'''
-
'''-ran a gel for PCRs
+
-ran a gel for PCRs
-set up BPGW for PCRs
-set up BPGW for PCRs
-xformed into dh5alpha
-xformed into dh5alpha
-
'''9/4/09
+
'''9/4/09'''
-
'''-set up PCR for biobricks
+
-set up PCR for biobricks
-DPN1 treated
-DPN1 treated
-PCR purified
-PCR purified
-
'''8/26/09
+
'''8/26/09'''
-
'''-set up test digest for ligations of 347-92,93 and FRB-FKBP-FKBP
+
-set up test digest for ligations of 347-92,93 and FRB-FKBP-FKBP
-ran a gel for test digests
-ran a gel for test digests
-
'''
 
-
8/21/09
 
-
'''-made movies of ho46,320,331,332,333,334,335
 
-
'''8/19/09
+
8/21/09'''
-
'''-set up cultures for ligations of pho347-93,92 and FRB-FKBP-FKBP
+
-made movies of ho46,320,331,332,333,334,335
 +
 
 +
'''8/19/09'''
 +
-set up cultures for ligations of pho347-93,92 and FRB-FKBP-FKBP
-
'''8/13/09
+
'''8/13/09'''
-
'''-heat inactivated Aar1 digest
+
-heat inactivated Aar1 digest
-ran gel for digest
-ran gel for digest
-gel purified
-gel purified
-set up ligations for pho347 w/ 92,93 and AB FRB, BC FKBP, CD FKBP
-set up ligations for pho347 w/ 92,93 and AB FRB, BC FKBP, CD FKBP
-
'''8/12/09
+
'''8/12/09'''
-
'''-miniprepped pho347
+
-miniprepped pho347
-set up Aar1 digest of pho347 o/n
-set up Aar1 digest of pho347 o/n
-
'''8/11/09
+
'''8/11/09'''
-
'''-miniprepped LR cultures
+
-miniprepped LR cultures
-sent in for sequencing (LRs)
-sent in for sequencing (LRs)
-made movie of ho46,320,331,332,333,334
-made movie of ho46,320,331,332,333,334
-set up culture for pho347
-set up culture for pho347
-
'''8/10/09
+
'''8/10/09'''
-
'''-froze ho335,336
+
-froze ho335,336
-set up cultures for LRs of pho203-pho275 to pho203-pho382
-set up cultures for LRs of pho203-pho275 to pho203-pho382
-xformed pho347 for plasmid amp
-xformed pho347 for plasmid amp
-
'''8/7/09
+
'''8/7/09'''
-
'''-made movies of ho46,180,181,182,227
+
-made movies of ho46,180,181,182,227
-checked sequences
-checked sequences
-
'''8/6/09
+
'''8/6/09'''
-
'''-sent in samples for sequencing from 8/5/09 test digest
+
-sent in samples for sequencing from 8/5/09 test digest
-set up LR rxn for pho375,376,377,378,379,380,381
-set up LR rxn for pho375,376,377,378,379,380,381
-
'''8/5/09
+
'''8/5/09'''
-
'''-set up LRGW for good clones of ligations
+
-set up LRGW for good clones of ligations
-froze ho46 w/ pho304 --ho3
-froze ho46 w/ pho304 --ho3
-miniprepped cltures from 8/4/09
-miniprepped cltures from 8/4/09
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-ran a gel for test digests
-ran a gel for test digests
-
'''8/4/09
+
'''8/4/09'''
-
'''-set up for movies of ho46,179,180,181,182,227
+
-set up for movies of ho46,179,180,181,182,227
-set up cultures for 347-50-60-92-93-143-353
-set up cultures for 347-50-60-92-93-143-353
-identified good clones from ligations
-identified good clones from ligations
-
'''8/3/09
+
'''8/3/09'''
-
'''-sent in ligations from 7/31/09 for sequencing
+
-sent in ligations from 7/31/09 for sequencing
-set up fruiting bodies for ho46,180,181,182,193,201,203,227
-set up fruiting bodies for ho46,180,181,182,193,201,203,227
-
'''7/31/09
+
'''7/31/09'''
-
'''-set up test digest for ligations
+
-set up test digest for ligations
-ran a gel for tests digests
-ran a gel for tests digests
-
'''7/29/09
+
'''7/29/09'''
-
'''-miniprepped plasmid amps and BPGW
+
-miniprepped plasmid amps and BPGW
-xformed into dicty ho46: pho303,304,309,311,314,317,322
-xformed into dicty ho46: pho303,304,309,311,314,317,322
-
'''7/28/09
+
'''7/28/09'''
-
'''-set up to take movies for ho46,159,164,171,178,179,193,201,203
+
-set up to take movies for ho46,159,164,171,178,179,193,201,203
-set up cultures for ligations, bpgw and plasmid amp
-set up cultures for ligations, bpgw and plasmid amp
-
'''7/24/09
+
'''7/24/09'''
-
'''-set up PCR for new part w/ ho388-ho389 primers on pho337
+
-set up PCR for new part w/ ho388-ho389 primers on pho337
-set up ligations for PAKAN w/ all Cd's
-set up ligations for PAKAN w/ all Cd's
-ran gel for PCR of pho337 w. ho388-389
-ran gel for PCR of pho337 w. ho388-389
Line 110: Line 110:
-xformed ligations and BPGW and plasmid amps-pho 303,304,309,317,322
-xformed ligations and BPGW and plasmid amps-pho 303,304,309,317,322
-
'''7/23/09
+
'''7/23/09'''
-
'''-recorded movies of ho46,159,164,171,178,179,193,203
+
-recorded movies of ho46,159,164,171,178,179,193,203
-ran Aar1 digests on a gel of 1,6,7,8,60,50,66,97
-ran Aar1 digests on a gel of 1,6,7,8,60,50,66,97
-gel purified fragments
-gel purified fragments
-
'''7/22/09
+
'''7/22/09'''
-
'''posted 28 minutes ago‎‎ by Ryan Quan
+
-set up Aar1 digest for 1,6,7,8,60,66,50,97
-set up Aar1 digest for 1,6,7,8,60,66,50,97
-
'''7/21/09
+
'''7/21/09'''
-
'''-miniprepped cultures for GWBP 1,6,7,8
+
-miniprepped cultures for GWBP 1,6,7,8
-ran a gel for Aar1 digest of GWBP parts: 2,3,4,5
-ran a gel for Aar1 digest of GWBP parts: 2,3,4,5
-gel purified fragments
-gel purified fragments
Line 126: Line 125:
-sent in sequencing of minipreps od 1,6,7,8
-sent in sequencing of minipreps od 1,6,7,8
-
'''7/20/09
+
'''7/20/09'''
-
'''-set up cultures of pho223,233,228 and PCRs of new parts 1,6,7,8
+
-set up cultures of pho223,233,228 and PCRs of new parts 1,6,7,8
-set up aar1 digest of 2,3,4,5 pcrs (fkbp and frbs)
-set up aar1 digest of 2,3,4,5 pcrs (fkbp and frbs)
-
'''7/17/09
+
'''7/17/09'''
-
'''-rna gel of pcrs to check new parts--success
+
-rna gel of pcrs to check new parts--success
-xformed 32 of 71 plasmids into ho2 (Pi3k1/2 minus)
-xformed 32 of 71 plasmids into ho2 (Pi3k1/2 minus)
-GWBP pcrs of pakan, pipkj, and pten
-GWBP pcrs of pakan, pipkj, and pten
-froze ho201
-froze ho201
-
'''7/16/09
+
'''7/16/09'''
-
'''-miniprepped cultures
+
-miniprepped cultures
-sent sequencing for Pd, PD*, pipk-2, pho112
-sent sequencing for Pd, PD*, pipk-2, pho112
-set up pcr for pakan and pipkj again
-set up pcr for pakan and pipkj again
Line 147: Line 146:
-froze ho193
-froze ho193
-
'''7/15/09
+
'''7/15/09'''
-
'''-set up pcr for new parts: PakaN, FKBP, FKBP, FKBP, FRB, INP54, PIPKJ
+
-set up pcr for new parts: PakaN, FKBP, FKBP, FKBP, FRB, INP54, PIPKJ
-ran pcrs on gel to see if it worked--pakan and pipkj did not work
-ran pcrs on gel to see if it worked--pakan and pipkj did not work
-set up pcrs for gwbp
-set up pcrs for gwbp
Line 154: Line 153:
-set up cultures of plasmid amp
-set up cultures of plasmid amp
-
'''7/14/09
+
'''7/14/09'''
-
'''-added hygromycin to xformations
+
-added hygromycin to xformations
-checked sequences, alw150 is actually ~250bp, not ~1900.
-checked sequences, alw150 is actually ~250bp, not ~1900.
-xformed plasmids for amplifications
-xformed plasmids for amplifications
-
'''7/13/09
+
'''7/13/09'''
-
'''-xformed pho303,304,309,311, 317 into ho46
+
-xformed pho303,304,309,311, 317 into ho46
-sent in alw150 from ben for sequencing
-sent in alw150 from ben for sequencing
-
'''7/10/09
+
'''7/10/09'''
-
'''-ran gel for colony pcr--not enough template
+
-ran gel for colony pcr--not enough template
-set up test digest of same samples of colony pcr
-set up test digest of same samples of colony pcr
-ran gel for test digests--success
-ran gel for test digests--success
-
'''7/9/09
+
'''7/9/09'''
-
'''-ran gel for Aar1 digests--success
+
-ran gel for Aar1 digests--success
-gel purified frags
-gel purified frags
-set up ligations for alw150 w/ pho50
-set up ligations for alw150 w/ pho50
Line 177: Line 176:
-set up strains for fruiting bodies HO 178, 171, 159, 172, 46
-set up strains for fruiting bodies HO 178, 171, 159, 172, 46
-
'''7/8/09
+
'''7/8/09'''
-
'''-miniprepped cultures
+
-miniprepped cultures
-set up pvu1 digests
-set up pvu1 digests
-set up Aar1 digests for ALW150 and pho50
-set up Aar1 digests for ALW150 and pho50
Line 188: Line 187:
-xformed ligations  
-xformed ligations  
-
'''7/7/09
+
'''7/7/09'''
-
'''-set up cultures of ligations
+
-set up cultures of ligations
-Set up Aar1 digests of pho50,92,93,99
-Set up Aar1 digests of pho50,92,93,99
-
'''7/6/09
+
'''7/6/09'''
-
'''-xformed pho268, 267, 272 and 271 into ho46  
+
-xformed pho268, 267, 272 and 271 into ho46  
-set up ligations of pho55, 66, 99, 132, 143, 144 into pho189
-set up ligations of pho55, 66, 99, 132, 143, 144 into pho189
-set up GWLR for pho 255,264,259,256,262,260,263 into pho203
-set up GWLR for pho 255,264,259,256,262,260,263 into pho203
-xformed ligations and gateways into dh5a
-xformed ligations and gateways into dh5a
-
'''7/2/09
+
'''7/2/09'''
-
'''-miniprepped cultures for rassl
+
-miniprepped cultures for rassl
-sent out rassl for sequencing
-sent out rassl for sequencing
-created bc linkers with oligos
-created bc linkers with oligos
Line 207: Line 206:
-ran pho189 digests on a gel --success
-ran pho189 digests on a gel --success
-
'''7/1/09
+
'''7/1/09'''
-
'''-set up digest of pho97 and pho189 with nru1 and bamh1/xba1 respectively
+
-set up digest of pho97 and pho189 with nru1 and bamh1/xba1 respectively
-pcr purified digests
-pcr purified digests
-set up aar1 digest for both
-set up aar1 digest for both
-set up cultures of RASSL in pDONR221 from GWBP
-set up cultures of RASSL in pDONR221 from GWBP
-
'''6/30/09
+
'''6/30/09'''
-
'''-Set up cultures of GWLR reactions in destination vectors and cultures of storage vectors for Aar1
+
-Set up cultures of GWLR reactions in destination vectors and cultures of storage vectors for Aar1
-
'''6/29/09
+
'''6/29/09'''
-
'''-CAR1 was good but RASSL was not
+
-CAR1 was good but RASSL was not
-Set up PCR with new RASSL template
-Set up PCR with new RASSL template
-Ran a Gel for PCR
-Ran a Gel for PCR
-RASSL is good
-RASSL is good
-
'''6/16/09
+
'''6/16/09'''
-
'''-Sent in RASSL and CAR1 in PDONR221 for sequencing
+
-Sent in RASSL and CAR1 in PDONR221 for sequencing
-
'''6/15/09
+
'''6/15/09'''
-
'''-Set up cultures for RASSL and CAR1 in PDONR221
+
-Set up cultures for RASSL and CAR1 in PDONR221
'''6/11/09'''
'''6/11/09'''

Revision as of 23:53, 14 October 2009

10/9/09 -miniprepped cultures from 10.7.09 and sent in for sequencing

10/7/09 -set up cultures for 3

10/2/09 -checked sequences

9/30/09 -miniprepped cultures for 1,3,4,5,6,8 -sent in sample for sequencing

9/28/09 -ran gel for PCRs -set up cultures for 1,3,4,5,6,8

9/25/09 -Set up PCR for biobrick parts 2 and 9 with elongase

9/18/09 -ran PCR again for 2 and 9 using KOD -ran gel for PCR

9/11/09 -ran gel again for PCRs

9/9/09 -ran a gel for PCRs -set up BPGW for PCRs -xformed into dh5alpha

9/4/09 -set up PCR for biobricks -DPN1 treated -PCR purified

8/26/09 -set up test digest for ligations of 347-92,93 and FRB-FKBP-FKBP -ran a gel for test digests

8/21/09 -made movies of ho46,320,331,332,333,334,335

8/19/09 -set up cultures for ligations of pho347-93,92 and FRB-FKBP-FKBP

8/13/09 -heat inactivated Aar1 digest -ran gel for digest -gel purified -set up ligations for pho347 w/ 92,93 and AB FRB, BC FKBP, CD FKBP

8/12/09 -miniprepped pho347 -set up Aar1 digest of pho347 o/n

8/11/09 -miniprepped LR cultures -sent in for sequencing (LRs) -made movie of ho46,320,331,332,333,334 -set up culture for pho347

8/10/09 -froze ho335,336 -set up cultures for LRs of pho203-pho275 to pho203-pho382 -xformed pho347 for plasmid amp

8/7/09 -made movies of ho46,180,181,182,227 -checked sequences

8/6/09 -sent in samples for sequencing from 8/5/09 test digest -set up LR rxn for pho375,376,377,378,379,380,381

8/5/09 -set up LRGW for good clones of ligations -froze ho46 w/ pho304 --ho3 -miniprepped cltures from 8/4/09 -set up test digest for minipreps -ran a gel for test digests

8/4/09 -set up for movies of ho46,179,180,181,182,227 -set up cultures for 347-50-60-92-93-143-353 -identified good clones from ligations

8/3/09 -sent in ligations from 7/31/09 for sequencing -set up fruiting bodies for ho46,180,181,182,193,201,203,227

7/31/09 -set up test digest for ligations -ran a gel for tests digests

7/29/09 -miniprepped plasmid amps and BPGW -xformed into dicty ho46: pho303,304,309,311,314,317,322

7/28/09 -set up to take movies for ho46,159,164,171,178,179,193,201,203 -set up cultures for ligations, bpgw and plasmid amp

7/24/09 -set up PCR for new part w/ ho388-ho389 primers on pho337 -set up ligations for PAKAN w/ all Cd's -ran gel for PCR of pho337 w. ho388-389 -set up GWBP for PCR product -xformed ligations and BPGW and plasmid amps-pho 303,304,309,317,322

7/23/09 -recorded movies of ho46,159,164,171,178,179,193,203 -ran Aar1 digests on a gel of 1,6,7,8,60,50,66,97 -gel purified fragments

7/22/09 -set up Aar1 digest for 1,6,7,8,60,66,50,97

7/21/09 -miniprepped cultures for GWBP 1,6,7,8 -ran a gel for Aar1 digest of GWBP parts: 2,3,4,5 -gel purified fragments -xformed pho 223, 228, 233, 341, 342, 343 into ho2 -sent in sequencing of minipreps od 1,6,7,8

7/20/09 -set up cultures of pho223,233,228 and PCRs of new parts 1,6,7,8 -set up aar1 digest of 2,3,4,5 pcrs (fkbp and frbs)

7/17/09 -rna gel of pcrs to check new parts--success -xformed 32 of 71 plasmids into ho2 (Pi3k1/2 minus) -GWBP pcrs of pakan, pipkj, and pten -froze ho201

7/16/09 -miniprepped cultures -sent sequencing for Pd, PD*, pipk-2, pho112 -set up pcr for pakan and pipkj again -set up fruiting body assay for ho171, 159, 46 -set up pcr for pakan, pipkj and new piece, pten (1-16 delta) -ran gel for PCR--success -xformed pho223 and 233 again -set up culture for bp reactions of new parts -froze ho193

7/15/09 -set up pcr for new parts: PakaN, FKBP, FKBP, FKBP, FRB, INP54, PIPKJ -ran pcrs on gel to see if it worked--pakan and pipkj did not work -set up pcrs for gwbp -xformed into bacteria -set up cultures of plasmid amp

7/14/09 -added hygromycin to xformations -checked sequences, alw150 is actually ~250bp, not ~1900. -xformed plasmids for amplifications

7/13/09 -xformed pho303,304,309,311, 317 into ho46 -sent in alw150 from ben for sequencing

7/10/09 -ran gel for colony pcr--not enough template -set up test digest of same samples of colony pcr -ran gel for test digests--success

7/9/09 -ran gel for Aar1 digests--success -gel purified frags -set up ligations for alw150 w/ pho50 -set up colony pcr for alw150 w/ pho 93,92 -set up cultures for colony pcr samples -xformed ligations -set up strains for fruiting bodies HO 178, 171, 159, 172, 46

7/8/09 -miniprepped cultures -set up pvu1 digests -set up Aar1 digests for ALW150 and pho50 -ran gel for test digests -pho92 frag is good, most worked. -set up ligations of alw150 with pho92 and pho 93 -sent in sequences -heat inactivated Aar1 digests -xformed ligations

7/7/09 -set up cultures of ligations -Set up Aar1 digests of pho50,92,93,99

7/6/09 -xformed pho268, 267, 272 and 271 into ho46 -set up ligations of pho55, 66, 99, 132, 143, 144 into pho189 -set up GWLR for pho 255,264,259,256,262,260,263 into pho203 -xformed ligations and gateways into dh5a

7/2/09 -miniprepped cultures for rassl -sent out rassl for sequencing -created bc linkers with oligos -CIP'd Aar1 digest of pho189 -created BC linker again -pcr purified Aar1 digest w/ cip -ran pho189 digests on a gel --success

7/1/09 -set up digest of pho97 and pho189 with nru1 and bamh1/xba1 respectively -pcr purified digests -set up aar1 digest for both -set up cultures of RASSL in pDONR221 from GWBP

6/30/09 -Set up cultures of GWLR reactions in destination vectors and cultures of storage vectors for Aar1

6/29/09 -CAR1 was good but RASSL was not -Set up PCR with new RASSL template -Ran a Gel for PCR -RASSL is good

6/16/09 -Sent in RASSL and CAR1 in PDONR221 for sequencing

6/15/09 -Set up cultures for RASSL and CAR1 in PDONR221

6/11/09 -Ran a gel for PCR's -Gel purified both fragments -Did a gateway BP reaction

6/10/09 -Set up PCR to amplify RASSL and CAR1

Retrieved from "http://2009.igem.org/Ryan_Quan%27s_notebook"