Corollary

Research

  • Ask

Library

  • Catalog

Account

  • Overview
  • Jobs
  • Usage
  • Billing
Settings
Corollary
  1. Catalog
  2. Datasets
  3. LiteFold/ProteinGym

LiteFold

ProteinGym

Hub-packaged ProteinGym — the standard benchmark suite for evaluating protein fitness and variant-effect predictors, from the OATML / Marks lab (NeurIPS 2023).

Original source
Rows
2,931,539
On disk
399 MB
Downloads
57

Last 30 days

Updated
May 27

Explore

Read the real rows without downloading anything

Reading rows…

LiveRead from LiteFold/ProteinGym at the moment you asked. Nothing is cached or stored — every row above came from that request.

Column statistics

How the columns are distributed

Over 2,637,988 rows of default/train

aa_seq

string_text
min
3
median
60
mean
85.41
max
187

91.1% empty

aa_seq_full

string_text

Splits

2
  • default/train
  • default/test

Query support

  • Row preview
  • Paginated browse
  • Full-text search
  • SQL filter
  • Column statistics

Provenance

Licence
other
Likes
1

Fields

BiologyBenchmark
min
44
median
72
mean
72.26
max
80

95.4% empty

aa_seq_full_len

string_label
  • 724%
  • 801%
  • 440%

95.4% empty

accession

string_text
min
22
median
28
mean
29.29
max
45

96.5% empty

allele

string_text
min
1
median
1
mean
1.30
max
5

96.5% empty

alt

string_label
  • T1%
  • A1%
  • C1%

96.8% empty

assay_name

string_label
  • SPG1_STRSG_Olson_201418%
  • HIS7_YEAST_Pokusaeva_201917%
  • CAPSD_AAV2S_Sinai_2021_designed_indels8%

chrom

string_label
  • 10%
  • 20%
  • X0%

96.8% empty

consequence

string_label
  • missense_variant3%
  • missense_variant,splice_region_variant0%
  • missense0%

96.7% empty

count_input

string_text
min
2
median
3
mean
2.89
max
5

94.9% empty

count_selected

string_text
min
1
median
1
mean
1.46
max
6

94.9% empty

dataset_id

string_label
  • proteingym_raw100%

ddg_ml

string_text
min
3
median
19
mean
18.83
max
23

95.4% empty

ddg_ml_float

string_text
min
3
median
19
mean
18.83
max
23

95.4% empty

deltag

string_text
min
13
median
18
mean
17.73
max
22

95.4% empty

deltag_95ci

string_text
min
13
median
18
mean
17.89
max
18

95.4% empty

deltag_95ci_high

string_text
min
13
median
18
mean
17.70
max
23

95.4% empty

deltag_95ci_low

string_text
min
13
median
18
mean
17.76
max
22

95.4% empty

deltag_c

string_text
min
5
median
18
mean
17.65
max
23

95.4% empty

deltag_c_95ci

string_text
min
4
median
18
mean
17.86
max
18

95.4% empty

deltag_c_95ci_high

string_text
min
4
median
18
mean
17.64
max
23

95.4% empty

deltag_c_95ci_low

string_text
min
5
median
18
mean
17.52
max
23

95.4% empty

deltag_t

string_text
min
4
median
18
mean
17.42
max
23

95.4% empty

deltag_t_95ci

string_text
min
4
median
18
mean
17.70
max
18

95.4% empty

deltag_t_95ci_high

string_text
min
4
median
18
mean
17.56
max
22

95.4% empty

deltag_t_95ci_low

string_text
min
3
median
18
mean
17.18
max
22

95.4% empty

dg_ml

string_text
min
13
median
18
mean
17.74
max
22

95.4% empty

dg_ml_float

string_text
min
13
median
18
mean
17.74
max
22

95.4% empty

dna_seq

string_text
min
132
median
216
mean
216.79
max
240

95.4% empty

domain_length

string_label
  • 721%
  • 550%
  • 690%

95.4% empty

entity_type

string_label
  • variant100%

filter

string_label
  • PASS3%

96.8% empty

fitness

string_text
min
3
median
16
mean
13.16
max
21

94.8% empty

fitness_2

string_text
min
3
median
17
mean
15.99
max
23

93.6% empty

fitting_error_c

string_text
min
14
median
18
mean
17.89
max
18

95.4% empty

fitting_error_t

string_text
min
14
median
18
mean
17.89
max
18

95.4% empty

gene

string_text
min
1
median
4
mean
4.48
max
15

96.8% empty

gene_2

string_label
  • amacGFP1%
  • ppluGFP1%
  • cgreGFP1%

96.5% empty

growthrate

string_text
min
12
median
18
mean
18.12
max
23

95.8% empty

growthrate_sigma

string_text
min
14
median
18
mean
18.38
max
22

95.8% empty

hd

string_label
  • 44%
  • 31%
  • 20%

94.9% empty

hgvs_nt

string_text
min
3
median
18
mean
17.76
max
21

99.6% empty

hgvs_pro

string_text
min
3
median
11
mean
10.67
max
11

96.0% empty

hgvs_splice

string_label

No distribution reported for this column.

100.0% empty

hgvsp

string_text
min
1
median
106
mean
92.41
max
177

82.4% empty

id

string_text
min
1
median
6
mean
5.89
max
287

94.8% empty

input_count

string_text
min
1
median
3
mean
2.89
max
6

81.7% empty

label

string_text
min
1
median
9
mean
10.05
max
21

82.0% empty

library

string_label
  • natural5%

95.4% empty

lnw

string_text
min
3
median
17
mean
17.25
max
23

81.3% empty

location

string_text
min
1
median
11
mean
10.20
max
12

96.6% empty

log10_k50_c

string_text
min
14
median
19
mean
18.54
max
23

95.4% empty

log10_k50_c_95ci

string_text
min
13
median
18
mean
17.89
max
18

95.4% empty

log10_k50_c_95ci_high

string_text
min
12
median
19
mean
18.55
max
22

95.4% empty

log10_k50_c_95ci_low

string_text
min
13
median
19
mean
18.53
max
22

95.4% empty

log10_k50_chymotrypsin_ml

string_text
min
1
median
19
mean
18.46
max
23

95.4% empty

log10_k50_t

string_text
min
13
median
19
mean
18.42
max
23

95.4% empty

log10_k50_t_95ci

string_text
min
13
median
18
mean
17.89
max
18

95.4% empty

log10_k50_t_95ci_high

string_text
min
13
median
19
mean
18.41
max
22

95.4% empty

log10_k50_t_95ci_low

string_text
min
13
median
19
mean
18.43
max
23

95.4% empty

log10_k50_trypsin_ml

string_text
min
1
median
19
mean
18.35
max
23

95.4% empty

log10_k50unfolded_c

string_text
min
5
median
10
mean
9.76
max
11

95.4% empty

log10_k50unfolded_t

string_text
min
6
median
10
mean
9.93
max
11

95.4% empty

log_mean

string_text
min
7
median
11
mean
10.89
max
18

94.3% empty

log_rep1

string_text
min
7
median
11
mean
10.89
max
18

94.3% empty

log_rep2

string_text
min
7
median
11
mean
10.89
max
18

94.3% empty

log_rep3

string_text
min
7
median
11
mean
10.89
max
18

94.3% empty

mean

string_text
min
3
median
18
mean
18.07
max
20

94.3% empty

mut1_fitness

string_label
  • 0.0041%
  • 0.0030%
  • 0.0050%

81.7% empty

mut1_mutation

string_label
  • S1%
  • P1%
  • Y1%

81.7% empty

mut1_position

string_label
  • 201%
  • 231%
  • 241%

81.7% empty

mut1_wt_amino_acid

string_label
  • A4%
  • D3%
  • E3%

81.7% empty

mut2_fitness

string_label
  • 0.0031%
  • 0.0040%
  • 0.00699999999999990%

81.7% empty

mut2_mutation

string_label
  • H1%
  • M1%
  • R1%

81.7% empty

mut2_position

string_label
  • 45.01%
  • 33.01%
  • 3.01%

81.7% empty

mut2_wt_amino_acid

string_label
  • T5%
  • V2%
  • Y2%

81.7% empty

mut_class

string_label
  • single2%
  • multiple2%
  • insertion0%

95.3% empty

mut_type

string_text
min
2
median
5
mean
6.20
max
9

95.4% empty

mutant

string_text
min
1
median
11
mean
18.73
max
2,223

17.9% empty

mutated_sequence

string_text
min
29
median
738
mean
624.24
max
14,508

88.7% empty

mutation

string_text
min
1
median
11
mean
18.72
max
2,223

12.0% empty

name

string_text
min
6
median
15
mean
20.79
max
74

95.0% empty

nham_aa

string_label
  • 24%
  • 10%
  • 00%

95.8% empty

num_mutations

string_label
  • 22%
  • 50%
  • 10%

96.3% empty

pair_name

string_label
  • 2M0Y.pdb_dmutv5_1W:11G0%
  • 1F0M.pdb_dmutv5_26F:35M0%
  • 1PSE.pdb_dmutv5_8V:65L0%

97.9% empty

pos

string_text
min
1
median
8
mean
7.64
max
9

96.4% empty

pre_post_aa

string_label
  • -1%
  • SAGGSAGG-SAGGSAGGS0%
  • SAGGS-SAGGSA0%

95.4% empty

protein

string_text
min
8
median
11
mean
10.09
max
14

94.4% empty

protein_sequence

string_text
min
26
median
735
mean
738.37
max
14,507

91.4% empty

raw_label

string_text
min
1
median
17
mean
13.90
max
21

89.4% empty

raw_row_json

string_text
min
30
median
374
mean
554.48
max
29,787

raw_sequence

string_text
min
28
median
265
mean
218.51
max
402

91.1% empty

record_id

string_text
min
64
median
64
mean
64
max
64

rep1

string_text
min
4
median
18
mean
18.01
max
20

94.2% empty

rep2

string_text
min
4
median
18
mean
17.99
max
20

94.2% empty

rep3

string_text
min
13
median
18
mean
18.07
max
20

94.3% empty

score

string_text
min
1
median
17
mean
16.17
max
27

76.3% empty

score_value

float
min
-10.39
median
-0.31
mean
4351.36
max
100M

64.5% empty

selection

string_text
min
3
median
13
mean
10.81
max
18

83.1% empty

selection_count

string_text
min
1
median
2
mean
2.15
max
6

81.7% empty

sequence

string_text
min
6
median
265
mean
345.09
max
14,508

72.7% empty

sequence_length

int
min
6
median
265
mean
345.09
max
14,508

72.7% empty

sigma

string_text
min
13
median
17
mean
17.50
max
21

95.0% empty

source_file

string_label
  • data/unpacked/labeled/proteingym_raw/proteingym/v1.3/substitutions_raw_DMS/substitutions_raw_DMS/SPG1_STRSG_Olson_2014.csv18%
  • data/unpacked/labeled/proteingym_raw/proteingym/v1.3/substitutions_raw_DMS/substitutions_raw_DMS/HIS7_YEAST_Pokusaeva_2019.csv17%
  • data/unpacked/labeled/proteingym_raw/proteingym/v1.3/indels_raw_DMS/indels_raw_DMS/CAPSD_AAV2S_Sinai_2021_designed_indels.csv8%

source_row_index

int
min
0
median
40,668
mean
114k
max
537k

source_table

string_label
  • tables/data_unpacked_labeled_proteingym_raw_proteingym_v1.3_substitutions_raw_DMS_substitutions_raw_DMS_SPG1_STRSG_Olson_2014.csv.jsonl18%
  • tables/data_unpacked_labeled_proteingym_raw_proteingym_v1.3_substitutions_raw_DMS_substitutions_raw_DMS_HIS7_YEAST_Pokusaeva_2019.csv.jsonl17%
  • tables/data_unpacked_labeled_proteingym_raw_proteingym_v1.3_indels_raw_DMS_indels_raw_DMS_CAPSD_AAV2S_Sinai_2021_designed_indels.csv.jsonl8%

split_bucket

int
min
1
median
5
mean
5.00
max
9

stabilizing_mut

string_label
  • False4%
  • -1%
  • True0%

95.4% empty

subtask_name

string_label

No distribution reported for this column.

100.0% empty

table_group

string_label
  • substitutions90%
  • indels10%

target

string_text
min
1
median
17
mean
16.25
max
27

64.2% empty

task_name

string_label
  • DMS97%
  • clinical3%

variants

string_text
min
4
median
4
mean
4
max
4

94.9% empty

w

string_text
min
3
median
17
mean
15.12
max
18

81.3% empty

w_0_01floor

string_text
min
3
median
16
mean
13.35
max
18

81.7% empty

wt

string_label
  • False2%
  • Leu0%
  • Glu0%

98.0% empty

wt_cluster

string_label
  • 1630%
  • 730%
  • 1470%

95.4% empty

wt_name

string_label
  • 3DKM.pdb0%
  • 2MXD.pdb0%
  • 3L1X.pdb0%

95.4% empty