Where to get chromosome start end positions for this COSMIC IDs?
1
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6.2 years ago

I got this 316 COSMIC IDs for which UCSC is not accepting this IDs as input for BED file generation. we cant give this ID as input for Ion AmpliSeq Designer. Any solution for this error.

COSM41291
COSM41294
COSM41292
COSM41293
COSM51384

Thanks

 

Cosmic • 2.0k views
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Edit: Deleted list of all 316 IDs and left only few of them as an example. Also, this is not an error ("Any solution for this error").

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i couldn't get what ur saying

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2
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6.2 years ago

Have you tried BioMart? Use the Somatic Variation database, filter by IDs, get location as attributes. Help video here.

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thanks but still I can get only 102 out of 316 COSMIC IDS

here is LIST:

COSM41291
COSM41294
COSM41292
COSM41293
COSM51384
COSM43348
COSM28756
COSM1716558
COSM1716559
COSM1716563
COSM3975143
COSM3414544
COSM43617
COSM144162
COSM236668
COSM133677
COSM144150
COSM133678
COSM96436
COSM1732644
COSM87196
COSM96438
COSM145022
COSM144153
COSM46274
COSM144151
COSM330669
COSM4603631
COSM144210
COSM143793
COSM3970361
COSM1651680
COSM984870
COSM4745856
COSM4745863
COSM133661
COSM133656
COSM674226
COSM4968986
COSM4603637
COSM4745859
COSM4971129
COSM4745860
COSM1169561
COSM143788
COSM4745865
COSM146252
COSM4968945
COSM4745866
COSM4969482
COSM4745864
COSM4970228
COSM330667
COSM4745858
COSM145026
COSM4970930
COSM4169573
COSM166368
COSM4745854
COSM4169574
COSM143787
COSM4745861
COSM1169422
COSM166370
COSM4745862
COSM4745853
COSM4970898
COSM4745855
COSM1666590
COSM143786
COSM4745852
COSM330617
COSM166369
COSM330664
COSM4169575
COSM4745857
COSM4966999
COSM13598
COSM12523
COSM12525
COSM13761
COSM12524
COSM13638
COSM5776
COSM5894
COSM23569
COSM21342
COSM3967201
COSM5889
COSM4745841
COSM4745846
COSM3967202
COSM4745839
COSM4745847
COSM4745848
COSM4745844
COSM4745836
COSM4745850
COSM4745849
COSM4745837
COSM3967198
COSM26391
COSM4745851
COSM4745840
COSM3967200
COSM133098
COSM4745845
COSM21343
COSM3967199
COSM249910
COSM24682
COSM5893
COSM4745838
COSM4967205
COSM462106
COSM4970197
COSM4971457
COSM3973898
COSM3973883
COSM3973946
COSM4603626
COSM4423035
COSM3973906
COSM3973952
COSM3097041
COSM3973912
COSM3973922
COSM4423237
COSM3973879
COSM4971451
COSM3973934
COSM3973948
COSM3973900
COSM3973940
COSM4423136
COSM3973888
COSM3973904
COSM4971343
COSM3973944
COSM4167467
COSM4969815
COSM3973920
COSM4970847
COSM4423239
COSM3973910
COSM3973942
COSM3973875
COSM4167422
COSM4969619
COSM4969409
COSM3973914
COSM3973928
COSM3973890
COSM3973950
COSM4970242
COSM3973908
COSM4971496
COSM4970825
COSM3973902
COSM3973930
COSM4423636
COSM3973873
COSM3973924
COSM4423063
COSM4420365
COSM3973938
COSM4603624
COSM3973918
COSM3973932
COSM3973954
COSM4971829
COSM4969247
COSM3973892
COSM3973926
COSM4603627
COSM4970182
COSM4423479
COSM4603628
COSM3973894
COSM3973881
COSM4603625
COSM3973896
COSM4603629
COSM3973877
COSM3973916
COSM3973936
COSM4971799
COSM3973885
COSM1131
COSM26487
COSM29306
COSM29305
COSM29308
COSM30798
COSM133150
COSM29417
COSM36386
COSM85770
COSM12637
COSM13153
COSM24619
COSM1083
COSM1108
COSM1103
COSM3972885
COSM4971706
COSM308350
COSM34167
COSM21350
COSM34166
COSM1169667
COSM13002
COSM4745832
COSM3929123
COSM3929122
COSM4967262
COSM4745831
COSM4970107
COSM3929120
COSM4169570
COSM3929116
COSM4745830
COSM4745829
COSM3929118
COSM3929114
COSM30744
COSM29325
COSM219808
COSM219117
COSM29329
COSM29328
COSM4745835
COSM3974286
COSM4745834
COSM4971188
COSM1142248
COSM4745833
COSM4971439
COSM4971083
COSM85759
COSM1716549
COSM29326
COSM21425
COSM3971029
COSM3971032
COSM4603633
COSM3971025
COSM1716373
COSM4603634
COSM3971030
COSM3971027
COSM3971023
COSM4603600
COSM3971024
COSM4603601
COSM3971022
COSM4420727
COSM3971021
COSM3971031
COSM3971026
COSM3971033
COSM4420698
COSM3971020
COSM3971028
COSM4167425
COSM3969946
COSM4167429
COSM3969952
COSM4423458
COSM3969966
COSM4167457
COSM27562
COSM3969960
COSM3969954
COSM4970489
COSM3969948
COSM4971001
COSM3969964
COSM4422999
COSM4167459
COSM3969950
COSM3727655
COSM4971515
COSM3969958
COSM3969962
COSM3969944
COSM3972904
COSM14450
COSM17535
COSM4970533
COSM14471
COSM4971660
COSM17534
COSM17536
COSM1051
COSM4603673
COSM4970723
COSM4972032
COSM4967285
COSM4970986
COSM3071847
COSM3975610
COSM3968245
COSM3968237
COSM3968250
COSM3968239
COSM4970465
COSM3968248
COSM3968241
COSM4775324
COSM2006573
COSM3968243
COSM4745825
COSM4745949
COSM4745904
COSM4745824
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1
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A quick search of a couple of them on COSMIC's website shows that they only have an amino acid change in the database. The underlying genomic change, and therefore genomic coordinates, are not listed. Eg COSM41291, COSM41294.

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for few COSMIC IDS even if genomic change available there is no coordinates COSM131838 COSM19505

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