                         SEQUENCE LISTING

<110>  Broad Institute, Inc.
       Nicol, Robert
       Rockwell, Graham
       Voigt, Christopher
       Gordon, David Benjamin
       Park, YongJin
       Dwivedi, Ritika
 
<120>  Proteomics Analysis with Nucleic Acid Identifiers

<130>  BI-2014/083

<140>  PCT/US2016/022211
<141>  2016-03-11

<150>  US62/131,805
<151>  2015-03-11

<160>  42    

<170>  PatentIn version 3.5

<210>  1
<211>  24
<212>  PRT
<213>  artificial

<220>
<223>  barcode sequence

<400>  1

Asn Ala Ala Glu Asn Leu Tyr Phe Gln Gly Leu Ala Ser Asp Pro Ala 
1               5                   10                  15      


Asn Phe Asp Ile Asn Ile Ser Arg 
            20                  


<210>  2
<211>  78
<212>  DNA
<213>  artificial

<220>
<223>  barcode sequence

<400>  2
aatgcggcat aggagaacct ttacttccag ggactcgcat ctgatccagc aaacttcgac       60

atcaacatct ccaggtaa                                                     78


<210>  3
<211>  78
<212>  DNA
<213>  artificial

<220>
<223>  barcode sequence

<400>  3
ttacctggag atgttgatgt cgaagtttgc tggatcagat gcgagtccct ggaagtaaag       60

gttctcctat gccgcatt                                                     78


<210>  4
<211>  75
<212>  DNA
<213>  artificial

<220>
<223>  barcode sequence

<400>  4
gcataggaga atctgtactt ccaaggtcca aatgtcggcc ctactctatg ggactacaaa       60

gatgacgacg ataaa                                                        75


<210>  5
<211>  75
<212>  DNA
<213>  artificial

<220>
<223>  barcode sequence

<400>  5
gcataggaga atctgtactt ccaaggtcca aatgtcggcc ctactctatg ggactacaaa       60

gatgacgacg ataaa                                                        75


<210>  6
<211>  12
<212>  DNA
<213>  artificial

<220>
<223>  barcode sequence


<220>
<221>  misc_feature
<222>  (1)..(12)
<223>  Wherein N may be A or G or T or C

<400>  6
nnnnnnnnnn nn                                                           12


<210>  7
<211>  8
<212>  PRT
<213>  artificial

<220>
<223>  barcode sequence

<400>  7

Asp Tyr Lys Asp Asp Asp Asp Lys 
1               5               


<210>  8
<211>  9
<212>  PRT
<213>  artificial

<220>
<223>  barcode sequence

<400>  8

Tyr Pro Tyr Asp Val Pro Asp Tyr Ala 
1               5                   


<210>  9
<211>  11
<212>  PRT
<213>  artificial

<220>
<223>  barcode sequence

<400>  9

Tyr Thr Asp Ile Glu Met Asn Arg Gly Leu Lys 
1               5                   10      


<210>  10
<211>  10
<212>  PRT
<213>  artificial

<220>
<223>  barcode sequence

<400>  10

Glu Gln Lys Leu Ile Ser Glu Glu Asp Leu 
1               5                   10  


<210>  11
<211>  6
<212>  PRT
<213>  artificial

<220>
<223>  barcode sequence

<400>  11

His His His His His His 
1               5       


<210>  12
<211>  14
<212>  PRT
<213>  artificial

<220>
<223>  barcode sequence

<400>  12

Gly Lys Pro Ile Pro Asn Pro Leu Leu Gly Leu Asp Ser Thr 
1               5                   10                  


<210>  13
<211>  69
<212>  DNA
<213>  artificial

<220>
<223>  barcode sequence

<400>  13
atacatatgc accaccacca ccaccacgtg gcgcgtggct atatggatta tcgtggttaa       60

ctcgagata                                                               69


<210>  14
<211>  66
<212>  DNA
<213>  artificial

<220>
<223>  barcode sequence

<400>  14
atacatatgc accaccacca ccaccacttt gattttgaag cgggtaaaga agaataactc       60

gagata                                                                  66


<210>  15
<211>  63
<212>  DNA
<213>  artificial

<220>
<223>  barcode sequence

<400>  15
atacatatgc accaccacca ccaccacctg ggcagcctga gcggcaaaga ataactcgag       60

ata                                                                     63


<210>  16
<211>  63
<212>  DNA
<213>  artificial

<220>
<223>  barcode sequence

<400>  16
atacatatgc accaccacca ccaccacttt agcttttatg gcatgcgtag ctaactcgag       60

ata                                                                     63


<210>  17
<211>  72
<212>  DNA
<213>  artificial

<220>
<223>  barcode sequence

<400>  17
atacatatgc accaccacca ccaccacgcg accatgcaga gcaccggcca cagccgtcag       60

taactcgaga ta                                                           72


<210>  18
<211>  66
<212>  DNA
<213>  artificial

<220>
<223>  barcode sequence

<400>  18
atacatatgc accaccacca ccaccacttt ggttttgata tggcgggtag cgattaactc       60

gagata                                                                  66


<210>  19
<211>  66
<212>  DNA
<213>  artificial

<220>
<223>  barcode sequence

<400>  19
atacatatgc accaccacca ccaccacttt agcaccggca tggaaggcga ttattaactc       60

gagata                                                                  66


<210>  20
<211>  68
<212>  DNA
<213>  artificial

<220>
<223>  barcode sequence

<400>  20
atacatatgc accaccacca ccaccacatg ggtctgcgtg gcacccgtaa aagccagtaa       60

ctcgagat                                                                68


<210>  21
<211>  16
<212>  PRT
<213>  artificial

<220>
<223>  barcode sequence

<400>  21

His His His His His His Val Ala Arg Gly Tyr Met Asp Tyr Arg Gly 
1               5                   10                  15      


<210>  22
<211>  15
<212>  PRT
<213>  artificial

<220>
<223>  barcode sequence

<400>  22

His His His His His His Phe Asp Phe Glu Ala Gly Lys Glu Glu 
1               5                   10                  15  


<210>  23
<211>  14
<212>  PRT
<213>  artificial

<220>
<223>  barcode sequence

<400>  23

His His His His His His Leu Gly Ser Leu Ser Gly Lys Glu 
1               5                   10                  


<210>  24
<211>  14
<212>  PRT
<213>  artificial

<220>
<223>  barcode sequence

<400>  24

His His His His His His Phe Ser Phe Tyr Gly Met Arg Ser 
1               5                   10                  


<210>  25
<211>  17
<212>  PRT
<213>  artificial

<220>
<223>  barcode sequence

<400>  25

His His His His His His Ala Thr Met Gln Ser Thr Gly His Ser Arg 
1               5                   10                  15      


Gln 
    


<210>  26
<211>  15
<212>  PRT
<213>  artificial

<220>
<223>  barcode sequence

<400>  26

His His His His His His Phe Gly Phe Asp Met Ala Gly Ser Asp 
1               5                   10                  15  


<210>  27
<211>  15
<212>  PRT
<213>  artificial

<220>
<223>  barcode sequence

<400>  27

His His His His His His Phe Ser Thr Gly Met Glu Gly Asp Tyr 
1               5                   10                  15  


<210>  28
<211>  16
<212>  PRT
<213>  artificial

<220>
<223>  barcode sequence

<400>  28

His His His His His His Met Gly Leu Arg Gly Thr Arg Lys Ser Gln 
1               5                   10                  15      


<210>  29
<211>  28
<212>  DNA
<213>  artificial

<220>
<223>  barcode sequence

<400>  29
atatgctagc cgtaaaggag aagaactt                                          28


<210>  30
<211>  39
<212>  DNA
<213>  artificial

<220>
<223>  barcode sequence

<400>  30
atatctcgag atactgcagt ttgtatagtt catccatgc                              39


<210>  31
<211>  165
<212>  DNA
<213>  artificial

<220>
<223>  barcode sequence

<400>  31
atactgcagg gtggtggtgg tagtggtggt ggtggtagtg actacaaaga cgatgacgac       60

aagggtggtg gtggtagtgg tggtggtggt agtcaccacc accaccacca cggtggtggt      120

ggtagtggtg gtggtggtag tgaaccggaa gcgtaactcg agata                      165


<210>  32
<211>  177
<212>  DNA
<213>  artificial

<220>
<223>  barcode sequence

<400>  32
atactgcagg gtggtggtgg tagtggtggt ggtggtagtg actacaaaga cgatgacgac       60

aagggtggtg gtggtagtgg tggtggtggt agtgaacaaa aactcatctc agaagaggat      120

ctgggtggtg gtggtagtgg tggtggtggt agtgaaccgg aagcgtaact cgagata         177


<210>  33
<211>  180
<212>  DNA
<213>  artificial

<220>
<223>  barcode sequence

<400>  33
atactgcagg gtggtggtgg tagtggtggt ggtggtagtt acccatacga tgttccagat       60

tacgctggtg gtggtggtag tggtggtggt ggtagtgaac aaaaactcat ctcagaagag      120

gatctgggtg gtggtggtag tggtggtggt ggtagtgaac cggaagcgta actcgagata      180


<210>  34
<211>  168
<212>  DNA
<213>  artificial

<220>
<223>  barcode sequence

<400>  34
atactgcagg gtggtggtgg tagtggtggt ggtggtagtt acccatacga tgttccagat       60

tacgctggtg gtggtggtag tggtggtggt ggtagtcacc accaccacca ccacggtggt      120

ggtggtagtg gtggtggtgg tagtgaaccg gaagcgtaac tcgagata                   168


<210>  35
<211>  165
<212>  DNA
<213>  artificial

<220>
<223>  barcode sequence

<400>  35
tatctcgagt tacgcttccg gttcactacc accaccacca ctaccaccac caccgtggtg       60

gtggtggtgg tgactaccac caccaccact accaccacca cccttgtcgt catcgtcttt      120

gtagtcacta ccaccaccac cactaccacc accaccctgc agtat                      165


<210>  36
<211>  177
<212>  DNA
<213>  artificial

<220>
<223>  barcode sequence

<400>  36
tatctcgagt tacgcttccg gttcactacc accaccacca ctaccaccac cacccagatc       60

ctcttctgag atgagttttt gttcactacc accaccacca ctaccaccac cacccttgtc      120

gtcatcgtct ttgtagtcac taccaccacc accactacca ccaccaccct gcagtat         177


<210>  37
<211>  180
<212>  DNA
<213>  artificial

<220>
<223>  barcode sequence

<400>  37
tatctcgagt tacgcttccg gttcactacc accaccacca ctaccaccac cacccagatc       60

ctcttctgag atgagttttt gttcactacc accaccacca ctaccaccac caccagcgta      120

atctggaaca tcgtatgggt aactaccacc accaccacta ccaccaccac cctgcagtat      180


<210>  38
<211>  168
<212>  DNA
<213>  artificial

<220>
<223>  barcode sequence

<400>  38
tatctcgagt tacgcttccg gttcactacc accaccacca ctaccaccac caccgtggtg       60

gtggtggtgg tgactaccac caccaccact accaccacca ccagcgtaat ctggaacatc      120

gtatgggtaa ctaccaccac caccactacc accaccaccc tgcagtat                   168


<210>  39
<211>  291
<212>  PRT
<213>  artificial

<220>
<223>  barcode sequence


<220>
<221>  MISC_FEATURE
<222>  (1)..(1)
<223>  wherein X is a tag

<400>  39

Xaa Met Ala Ser Arg Lys Gly Glu Glu Leu Phe Thr Gly Val Val Pro 
1               5                   10                  15      


Ile Leu Val Glu Leu Asp Gly Asp Val Asn Gly His Lys Phe Ser Val 
            20                  25                  30          


Ser Gly Glu Gly Glu Gly Asp Ala Thr Tyr Gly Lys Leu Thr Leu Lys 
        35                  40                  45              


Phe Ile Cys Thr Thr Gly Lys Leu Pro Val Pro Trp Pro Thr Leu Val 
    50                  55                  60                  


Thr Thr Phe Gly Tyr Gly Val Gln Cys Phe Ala Arg Tyr Pro Asp His 
65                  70                  75                  80  


Met Lys Gln His Asp Phe Phe Lys Ser Ala Met Pro Glu Gly Tyr Val 
                85                  90                  95      


Gln Glu Arg Thr Ile Phe Phe Lys Asp Asp Gly Asn Tyr Lys Thr Arg 
            100                 105                 110         


Ala Glu Val Lys Phe Glu Gly Asp Thr Leu Val Asn Arg Ile Glu Leu 
        115                 120                 125             


Lys Gly Ile Asp Phe Lys Glu Asp Gly Asn Ile Leu Gly His Lys Leu 
    130                 135                 140                 


Glu Tyr Asn Tyr Asn Ser His Asn Val Tyr Ile Met Ala Asp Lys Gln 
145                 150                 155                 160 


Lys Asn Gly Ile Lys Val Asn Phe Lys Ile Arg His Asn Ile Glu Asp 
                165                 170                 175     


Gly Ser Val Gln Leu Ala Asp His Tyr Gln Gln Asn Thr Pro Ile Gly 
            180                 185                 190         


Asp Gly Pro Val Leu Leu Pro Asp Asn His Tyr Leu Ser Thr Gln Ser 
        195                 200                 205             


Ala Leu Ser Lys Asp Pro Asn Glu Lys Arg Asp His Met Val Leu Leu 
    210                 215                 220                 


Glu Phe Val Thr Ala Ala Gly Ile Thr His Gly Met Asp Glu Leu Tyr 
225                 230                 235                 240 


Lys Leu Gln Gly Gly Gly Gly Ser Gly Gly Gly Gly Ser Asp Tyr Lys 
                245                 250                 255     


Asp Asp Asp Asp Lys Gly Gly Gly Gly Ser Gly Gly Gly Gly Ser His 
            260                 265                 270         


His His His His His Gly Gly Gly Gly Ser Gly Gly Gly Gly Ser Glu 
        275                 280                 285             


Pro Glu Ala 
    290     


<210>  40
<211>  295
<212>  PRT
<213>  artificial

<220>
<223>  barcode sequence


<220>
<221>  MISC_FEATURE
<222>  (1)..(1)

<400>  40

Xaa Met Ala Ser Arg Lys Gly Glu Glu Leu Phe Thr Gly Val Val Pro 
1               5                   10                  15      


Ile Leu Val Glu Leu Asp Gly Asp Val Asn Gly His Lys Phe Ser Val 
            20                  25                  30          


Ser Gly Glu Gly Glu Gly Asp Ala Thr Tyr Gly Lys Leu Thr Leu Lys 
        35                  40                  45              


Phe Ile Cys Thr Thr Gly Lys Leu Pro Val Pro Trp Pro Thr Leu Val 
    50                  55                  60                  


Thr Thr Phe Gly Tyr Gly Val Gln Cys Phe Ala Arg Tyr Pro Asp His 
65                  70                  75                  80  


Met Lys Gln His Asp Phe Phe Lys Ser Ala Met Pro Glu Gly Tyr Val 
                85                  90                  95      


Gln Glu Arg Thr Ile Phe Phe Lys Asp Asp Gly Asn Tyr Lys Thr Arg 
            100                 105                 110         


Ala Glu Val Lys Phe Glu Gly Asp Thr Leu Val Asn Arg Ile Glu Leu 
        115                 120                 125             


Lys Gly Ile Asp Phe Lys Glu Asp Gly Asn Ile Leu Gly His Lys Leu 
    130                 135                 140                 


Glu Tyr Asn Tyr Asn Ser His Asn Val Tyr Ile Met Ala Asp Lys Gln 
145                 150                 155                 160 


Lys Asn Gly Ile Lys Val Asn Phe Lys Ile Arg His Asn Ile Glu Asp 
                165                 170                 175     


Gly Ser Val Gln Leu Ala Asp His Tyr Gln Gln Asn Thr Pro Ile Gly 
            180                 185                 190         


Asp Gly Pro Val Leu Leu Pro Asp Asn His Tyr Leu Ser Thr Gln Ser 
        195                 200                 205             


Ala Leu Ser Lys Asp Pro Asn Glu Lys Arg Asp His Met Val Leu Leu 
    210                 215                 220                 


Glu Phe Val Thr Ala Ala Gly Ile Thr His Gly Met Asp Glu Leu Tyr 
225                 230                 235                 240 


Lys Leu Gln Gly Gly Gly Gly Ser Gly Gly Gly Gly Ser Asp Tyr Lys 
                245                 250                 255     


Asp Asp Asp Asp Lys Gly Gly Gly Gly Ser Gly Gly Gly Gly Ser Glu 
            260                 265                 270         


Gln Lys Leu Ile Ser Glu Glu Asp Leu Gly Gly Gly Gly Ser Gly Gly 
        275                 280                 285             


Gly Gly Ser Glu Pro Glu Ala 
    290                 295 


<210>  41
<211>  295
<212>  PRT
<213>  artificial

<220>
<223>  barcode sequence

<400>  41

Met Ala Ser Arg Lys Gly Glu Glu Leu Phe Thr Gly Val Val Pro Ile 
1               5                   10                  15      


Leu Val Glu Leu Asp Gly Asp Val Asn Gly His Lys Phe Ser Val Ser 
            20                  25                  30          


Gly Glu Gly Glu Gly Asp Ala Thr Tyr Gly Lys Leu Thr Leu Lys Phe 
        35                  40                  45              


Ile Cys Thr Thr Gly Lys Leu Pro Val Pro Trp Pro Thr Leu Val Thr 
    50                  55                  60                  


Thr Phe Gly Tyr Gly Val Gln Cys Phe Ala Arg Tyr Pro Asp His Met 
65                  70                  75                  80  


Lys Gln His Asp Phe Phe Lys Ser Ala Met Pro Glu Gly Tyr Val Gln 
                85                  90                  95      


Glu Arg Thr Ile Phe Phe Lys Asp Asp Gly Asn Tyr Lys Thr Arg Ala 
            100                 105                 110         


Glu Val Lys Phe Glu Gly Asp Thr Leu Val Asn Arg Ile Glu Leu Lys 
        115                 120                 125             


Gly Ile Asp Phe Lys Glu Asp Gly Asn Ile Leu Gly His Lys Leu Glu 
    130                 135                 140                 


Tyr Asn Tyr Asn Ser His Asn Val Tyr Ile Met Ala Asp Lys Gln Lys 
145                 150                 155                 160 


Asn Gly Ile Lys Val Asn Phe Lys Ile Arg His Asn Ile Glu Asp Gly 
                165                 170                 175     


Ser Val Gln Leu Ala Asp His Tyr Gln Gln Asn Thr Pro Ile Gly Asp 
            180                 185                 190         


Gly Pro Val Leu Leu Pro Asp Asn His Tyr Leu Ser Thr Gln Ser Ala 
        195                 200                 205             


Leu Ser Lys Asp Pro Asn Glu Lys Arg Asp His Met Val Leu Leu Glu 
    210                 215                 220                 


Phe Val Thr Ala Ala Gly Ile Thr His Gly Met Asp Glu Leu Tyr Lys 
225                 230                 235                 240 


Leu Gln Gly Gly Gly Gly Ser Gly Gly Gly Gly Ser Tyr Pro Tyr Asp 
                245                 250                 255     


Val Pro Asp Tyr Ala Gly Gly Gly Gly Ser Gly Gly Gly Gly Ser Glu 
            260                 265                 270         


Gln Lys Leu Ile Ser Glu Glu Asp Leu Gly Gly Gly Gly Ser Gly Gly 
        275                 280                 285             


Gly Gly Ser Glu Pro Glu Ala 
    290                 295 


<210>  42
<211>  291
<212>  PRT
<213>  artificial

<220>
<223>  barcode sequence

<400>  42

Met Ala Ser Arg Lys Gly Glu Glu Leu Phe Thr Gly Val Val Pro Ile 
1               5                   10                  15      


Leu Val Glu Leu Asp Gly Asp Val Asn Gly His Lys Phe Ser Val Ser 
            20                  25                  30          


Gly Glu Gly Glu Gly Asp Ala Thr Tyr Gly Lys Leu Thr Leu Lys Phe 
        35                  40                  45              


Ile Cys Thr Thr Gly Lys Leu Pro Val Pro Trp Pro Thr Leu Val Thr 
    50                  55                  60                  


Thr Phe Gly Tyr Gly Val Gln Cys Phe Ala Arg Tyr Pro Asp His Met 
65                  70                  75                  80  


Lys Gln His Asp Phe Phe Lys Ser Ala Met Pro Glu Gly Tyr Val Gln 
                85                  90                  95      


Glu Arg Thr Ile Phe Phe Lys Asp Asp Gly Asn Tyr Lys Thr Arg Ala 
            100                 105                 110         


Glu Val Lys Phe Glu Gly Asp Thr Leu Val Asn Arg Ile Glu Leu Lys 
        115                 120                 125             


Gly Ile Asp Phe Lys Glu Asp Gly Asn Ile Leu Gly His Lys Leu Glu 
    130                 135                 140                 


Tyr Asn Tyr Asn Ser His Asn Val Tyr Ile Met Ala Asp Lys Gln Lys 
145                 150                 155                 160 


Asn Gly Ile Lys Val Asn Phe Lys Ile Arg His Asn Ile Glu Asp Gly 
                165                 170                 175     


Ser Val Gln Leu Ala Asp His Tyr Gln Gln Asn Thr Pro Ile Gly Asp 
            180                 185                 190         


Gly Pro Val Leu Leu Pro Asp Asn His Tyr Leu Ser Thr Gln Ser Ala 
        195                 200                 205             


Leu Ser Lys Asp Pro Asn Glu Lys Arg Asp His Met Val Leu Leu Glu 
    210                 215                 220                 


Phe Val Thr Ala Ala Gly Ile Thr His Gly Met Asp Glu Leu Tyr Lys 
225                 230                 235                 240 


Leu Gln Gly Gly Gly Gly Ser Gly Gly Gly Gly Ser Tyr Pro Tyr Asp 
                245                 250                 255     


Val Pro Asp Tyr Ala Gly Gly Gly Gly Ser Gly Gly Gly Gly Ser His 
            260                 265                 270         


His His His His His Gly Gly Gly Gly Ser Gly Gly Gly Gly Ser Glu 
        275                 280                 285             


Pro Glu Ala 
    290     


