GPN-MSA
Collection
https://www.nature.com/articles/s41587-024-02511-w
•
11 items
•
Updated
•
5
chrom
large_stringclasses 24
values | pos
int64 14.9k
249M
| ref
large_stringclasses 4
values | alt
large_stringclasses 4
values | label
bool 2
classes | GPN-MSA
float32 -13.38
12.6
| CADD
float64 -8.77
4.33
| phyloP-100v
float64 -10
20
⌀ | phyloP-241m
float64 -8.9
20
⌀ | phastCons-100v
float64 -1
-0
⌀ | ESM-1b
float64 -19.5
12
⌀ |
|---|---|---|---|---|---|---|---|---|---|---|
1
| 69,511
|
A
|
G
| false
| 1.493164
| -0.112916
| 0.684
| -3.29
| -0
| null |
1
| 953,279
|
T
|
C
| false
| 2.578125
| -0.266107
| -0.037
| -1.27
| -0.009
| -2.88
|
1
| 973,858
|
G
|
C
| false
| 1.5625
| -0.787153
| 0.431
| -0.835
| -0
| -2.538
|
1
| 973,929
|
T
|
C
| false
| -1.328125
| -0.818047
| -0.076
| 0.539
| -0.001
| -3.377
|
1
| 976,215
|
A
|
G
| false
| -2.527344
| -1.476529
| -0.054
| 0.421
| -0
| -5.335
|
1
| 978,953
|
C
|
G
| false
| 1.72168
| 0.096301
| 0.22
| 0.223
| -0
| -3.781
|
1
| 999,842
|
C
|
A
| false
| -1.387695
| -0.472275
| 0.582
| 1.508
| -0
| null |
1
| 1,014,228
|
G
|
A
| false
| -2.003906
| -0.027262
| 0.396
| 0.787
| -0
| -4.136
|
1
| 1,072,052
|
G
|
A
| false
| -0.551758
| 0.862209
| 1.398
| 4.07
| -0
| -5.237
|
1
| 1,179,288
|
G
|
A
| false
| 0.321289
| -0.167083
| 0.447
| -0.13
| -0
| -3.748
|
1
| 1,180,851
|
T
|
C
| false
| 1.851563
| -0.21429
| -0.026
| -1.845
| -0
| -2.236
|
1
| 1,197,558
|
G
|
A
| false
| -2.478516
| -1.409054
| -1.648
| -0.167
| -0.014
| -7.455
|
1
| 1,211,863
|
A
|
C
| false
| -1.439453
| -0.136844
| 0.141
| -0.007
| -0.002
| null |
1
| 1,211,917
|
G
|
A
| false
| -0.191895
| -0.013032
| 0.135
| 0.028
| -0
| null |
1
| 1,212,042
|
C
|
T
| false
| -3.046875
| -0.52087
| -0.003
| -3.889
| -0.003
| null |
1
| 1,212,898
|
C
|
T
| false
| -0.602051
| -0.438368
| 0.235
| 4.258
| -0
| null |
1
| 1,232,800
|
G
|
C
| false
| -1.115234
| -0.830179
| -0.466
| 1.097
| -0.998
| -2.994
|
1
| 1,243,102
|
A
|
G
| false
| 5.085938
| -1.275063
| -2.096
| -5.327
| -0.99
| 3.157
|
1
| 1,243,545
|
G
|
A
| false
| -7.59375
| -2.557367
| -7.839
| -6.608
| -1
| -9.774
|
1
| 1,264,812
|
C
|
G
| false
| 4.078125
| -1.274881
| 0.188
| 0.183
| -0.719
| 0.67
|
1
| 1,285,621
|
A
|
G
| false
| -1.320313
| -1.028294
| 1.673
| 0.04
| -0
| -2.734
|
1
| 1,288,005
|
G
|
C
| false
| 3.164063
| -0.149565
| 0.07
| -3.204
| -0
| -1.253
|
1
| 1,291,377
|
G
|
A
| false
| 0.023026
| -0.44613
| 0.087
| -1.21
| -0
| -4.715
|
1
| 1,291,509
|
G
|
A
| false
| 0.664063
| 0.265035
| 2.719
| 4.19
| -0
| -4.258
|
1
| 1,319,063
|
G
|
A
| false
| -0.026367
| 0.448394
| 2.002
| 0.861
| -0
| null |
1
| 1,332,271
|
G
|
A
| false
| -0.956543
| 0.611933
| 2.457
| 4.275
| -0
| -3.367
|
1
| 1,334,108
|
G
|
A
| false
| -0.147461
| -0.004351
| -0.198
| 1.406
| -0
| -6.573
|
1
| 1,420,203
|
C
|
A
| false
| -1.3125
| -2.239272
| 1.246
| -0.527
| -0
| -10.381
|
1
| 1,426,261
|
C
|
T
| false
| 1.09375
| -0.466194
| 0.724
| -0.952
| -0
| -1.575
|
1
| 1,452,384
|
G
|
A
| false
| -4.957031
| -4.322648
| -8.17
| -8.528
| -1
| -13.144
|
1
| 1,495,605
|
C
|
T
| false
| -1.003906
| -0.735766
| 0.688
| 0.039
| -0
| -4.705
|
1
| 1,512,312
|
G
|
A
| false
| -5.585938
| -2.55411
| -3.349
| -8.396
| -0.999
| -3.698
|
1
| 1,517,186
|
G
|
A
| false
| -1.466797
| -0.71163
| -1.385
| -2.202
| -0.011
| -4.841
|
1
| 1,616,547
|
T
|
C
| false
| 1.503906
| -0.54761
| 0.394
| 0.175
| -0
| null |
1
| 1,640,423
|
C
|
T
| false
| -4.613281
| -2.384015
| -5.637
| -3.468
| -0.995
| -7.286
|
1
| 1,641,819
|
C
|
T
| false
| 0.884766
| -0.617502
| -0.039
| 0.278
| -0.987
| null |
1
| 1,668,373
|
C
|
T
| false
| -3.203125
| -1.409952
| -3.753
| -2.372
| -0.998
| -5.63
|
1
| 1,668,449
|
A
|
G
| false
| 0.150391
| 0.356083
| 0.521
| 3.961
| -0.048
| null |
1
| 1,707,486
|
C
|
T
| false
| -2.923828
| -1.558467
| -3.757
| -6.882
| -0.998
| -10.252
|
1
| 1,707,555
|
C
|
T
| false
| -3.8125
| -2.087687
| -4.923
| -3.468
| -0.984
| -7.325
|
1
| 1,719,406
|
G
|
A
| false
| -1.825195
| -4.246027
| -6.251
| -5.87
| -1
| -7.366
|
1
| 1,754,601
|
G
|
T
| false
| -6.25
| 0.4479
| 1.13
| 6.418
| -0.005
| -5.367
|
1
| 1,916,540
|
T
|
C
| false
| 2.607422
| -1.204282
| 0.175
| 1.396
| -0
| 2.522
|
1
| 1,918,090
|
A
|
G
| false
| -3.164063
| -0.828084
| -1.22
| -0.809
| -0.013
| -3.629
|
1
| 1,918,091
|
T
|
C
| false
| -2.382813
| -0.067017
| 0.082
| 0.16
| -0.001
| -2.649
|
1
| 1,918,484
|
C
|
A
| false
| -2.439453
| -0.529345
| 0.094
| 0.465
| -0.014
| -3.765
|
1
| 1,923,107
|
C
|
T
| false
| -3.990234
| -2.031239
| -0.55
| -5.883
| -0.438
| -3.655
|
1
| 1,927,692
|
C
|
T
| false
| 0.583008
| 1.649318
| 3.588
| 5.924
| -0
| -4.229
|
1
| 1,927,737
|
T
|
C
| false
| 1.25293
| -0.435867
| 0.144
| -3.951
| -0
| -2.232
|
1
| 1,930,143
|
C
|
T
| false
| -6.273438
| -3.552757
| -3.98
| -6.968
| -1
| -7.93
|
1
| 1,942,086
|
T
|
C
| false
| 3.904297
| -1.532497
| -2.516
| -1.494
| -0.999
| -7.38
|
1
| 1,944,419
|
C
|
G
| false
| -7.394531
| -2.364683
| -1.874
| -4.094
| -0.939
| -9.653
|
1
| 1,968,793
|
T
|
C
| false
| 2.328125
| 0.478732
| -0.054
| -0.904
| -0.001
| -4.6
|
1
| 2,025,598
|
T
|
C
| false
| 3.611328
| -1.082832
| 1.217
| -0.193
| -0
| null |
1
| 2,029,235
|
C
|
T
| false
| -0.580078
| -0.219853
| 0.476
| 1.463
| -0.112
| null |
1
| 2,193,733
|
G
|
A
| false
| -1.341797
| -0.285874
| 0.118
| -0.297
| -0
| -4.024
|
1
| 2,228,951
|
C
|
G
| false
| -7.238281
| -2.898948
| -1.587
| -5.155
| -1
| -3.98
|
1
| 2,430,581
|
G
|
T
| false
| -2.886719
| -0.784373
| -0.073
| 2.269
| -0
| null |
1
| 2,509,919
|
T
|
C
| false
| 0.943359
| 0.013537
| 1.142
| 0.23
| -0
| -3.214
|
1
| 2,512,975
|
G
|
A
| false
| -3.662109
| -1.970945
| -3.998
| -4.597
| -0.61
| -6.44
|
1
| 2,556,714
|
A
|
G
| false
| -0.836426
| -0.451203
| 1.268
| 1.328
| -0
| -1.235
|
1
| 2,562,891
|
G
|
A
| false
| -0.208008
| 0.730034
| 2.026
| 3.287
| -0
| -3.62
|
1
| 2,595,307
|
A
|
G
| false
| 1.491211
| 1.702114
| 2.273
| 6.32
| -0
| -5.036
|
1
| 2,800,059
|
C
|
T
| false
| -0.524414
| -0.216149
| -0.524
| -0.467
| -0
| null |
1
| 3,022,425
|
G
|
A
| false
| -6.765625
| -3.676768
| -6.676
| -6.789
| -1
| -8.122
|
1
| 3,412,095
|
C
|
T
| false
| -4.460938
| -2.384755
| -4.653
| -3.25
| -1
| -6.268
|
1
| 3,473,163
|
C
|
T
| false
| -5.140625
| -1.426175
| -1.729
| -5.333
| -0.681
| -8.124
|
1
| 3,494,017
|
G
|
A
| false
| -4.394531
| -0.033623
| -0.771
| -1.944
| -0
| -6.066
|
1
| 3,494,409
|
C
|
T
| false
| -1.060547
| 1.078686
| 7.111
| 6.721
| -0
| -3.219
|
1
| 3,497,304
|
C
|
G
| false
| -4.730469
| -1.726461
| -0.8
| -0.692
| -0.104
| -6.124
|
1
| 3,497,541
|
C
|
T
| false
| -4.125
| -0.831787
| -2.746
| -2.785
| -0.76
| null |
1
| 3,505,333
|
A
|
G
| false
| 1.557617
| -0.610779
| -1.398
| -0.862
| -0.004
| -0.87
|
1
| 3,507,824
|
G
|
A
| false
| -3.925781
| -3.351424
| -5.604
| -3.236
| -1
| -7.972
|
1
| 3,512,044
|
G
|
A
| false
| -3.664063
| -2.21538
| -5.734
| -2.223
| -0.979
| -6.956
|
1
| 3,595,370
|
A
|
G
| false
| 3.074219
| -0.865236
| -0.757
| -1.86
| -0.468
| -1.141
|
1
| 3,752,641
|
C
|
G
| false
| 1.786133
| 1.120535
| 1.373
| -0.218
| -0
| -4.008
|
1
| 3,761,369
|
T
|
C
| false
| -0.373779
| 0.229329
| 0.597
| 1.925
| -0.531
| -2.061
|
1
| 3,763,211
|
C
|
T
| false
| 0.558105
| 1.513619
| 4.489
| 4.443
| -0
| -4.287
|
1
| 3,763,322
|
C
|
T
| false
| 0.021973
| 1.651928
| 6.568
| 0.769
| -0
| -2.834
|
1
| 3,829,360
|
G
|
A
| false
| -2.253906
| -2.742005
| -2.135
| -2.347
| -1
| -7.244
|
1
| 3,836,572
|
A
|
T
| false
| -3.042969
| 0.038535
| 0.286
| 1.467
| -0
| -4.647
|
1
| 3,843,220
|
A
|
G
| false
| 0.765137
| -0.157686
| 0.506
| 0.272
| -0.001
| -2.372
|
1
| 3,860,425
|
C
|
T
| false
| 2.324219
| -0.241725
| 0.637
| 0.804
| -0.068
| null |
1
| 3,869,681
|
G
|
A
| false
| 2.746094
| -0.987071
| -2.446
| -1.729
| -1
| -4.199
|
1
| 3,890,558
|
G
|
A
| false
| -0.515625
| 0.243785
| 1.877
| 0.909
| -0
| null |
1
| 3,891,607
|
T
|
C
| false
| -0.232666
| 0.38678
| 2.356
| 7.718
| -0
| null |
1
| 3,892,762
|
C
|
T
| false
| -1.25
| -0.172378
| 0.03
| -0.127
| -0
| null |
1
| 4,712,657
|
G
|
A
| false
| -2.541016
| -2.179927
| -1.474
| -6.476
| -0.019
| -3.775
|
1
| 6,082,379
|
C
|
T
| false
| -1.250977
| -0.622828
| -0.107
| -1.929
| -0
| null |
1
| 6,124,032
|
A
|
G
| false
| 4.714844
| -1.830434
| -0.362
| -3.455
| -0.161
| -2.164
|
1
| 6,130,155
|
C
|
T
| false
| -1.390625
| 0.132878
| 1.68
| 0.177
| -0
| null |
1
| 6,207,471
|
C
|
T
| false
| -1.673828
| -1.781214
| -0.961
| -0.402
| -0.412
| -5.259
|
1
| 6,212,018
|
G
|
A
| false
| 2.572266
| 0.537066
| -0.346
| 4.152
| -0.069
| -3.762
|
1
| 6,218,354
|
A
|
G
| false
| 3.066406
| -0.075304
| 0.309
| -0.75
| -0
| -1.905
|
1
| 6,219,310
|
G
|
C
| false
| -1.507813
| -0.028565
| 0.117
| -1.875
| -0
| -4.261
|
1
| 6,245,232
|
C
|
A
| false
| -5.835938
| -0.960845
| -1.81
| -3.302
| -0.891
| -5.028
|
1
| 6,253,878
|
C
|
T
| false
| -1.854492
| -0.18674
| 0.046
| 1.683
| -0.653
| -4.624
|
1
| 6,413,234
|
A
|
G
| false
| 1.286133
| -0.446791
| -0.289
| -0.578
| -0.001
| -2.295
|
1
| 6,418,980
|
G
|
A
| false
| -2.335938
| -0.509035
| 0.164
| -0.124
| -0.001
| -3.37
|
1
| 6,448,812
|
C
|
T
| false
| -2.498047
| -1.356739
| 0.437
| -0.948
| -0
| -5.094
|
For more information check out our paper and repository.
import pandas as pd
df = pd.read_parquet("hf://datasets/songlab/cosmic/test.parquet")
import polars as pl
df = pl.read_parquet("https://huggingface.co/datasets/songlab/cosmic/resolve/main/test.parquet")
from datasets import load_dataset
dataset = load_dataset("songlab/cosmic", split="test")