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ProtTrans: Toward Understanding the Language of Life Through Self-Supervised Learning.
protein-ml ·
DOI 10.1109/tpami.2021.3095381
· IEEE Transactions on Pattern Analysis and Machine Intelligence · 2456 citations
protein
sequence
Sept 2022
ProtGPT2 is a deep unsupervised language model for protein design.
protein-ml ·
DOI 10.1038/s41467-022-32007-7
· Nature Communications · 824 citations
protein
generation
Jul 2022
Mapping information-rich genotype-phenotype landscapes with genome-scale Perturb-seq.
single-cell ·
DOI 10.1016/j.cell.2022.05.013
· Cell · 723 citations
single-cell
perturbation
Jun 2022
The Tabula Sapiens: A multiple-organ, single-cell transcriptomic atlas of humans.
single-cell ·
DOI 10.1126/science.abl4896
· Science · 1051 citations
single-cell
atlas
May 2022
AlphaFold Protein Structure Database: massively expanding the structural coverage of protein-sequence space with high-accuracy models.
protein-ml ·
DOI 10.1093/nar/gkab1061
· Nucleic Acids Research · 8533 citations
protein
structure
database
Jan 2022
FLIP: Benchmark tasks in fitness landscape inference for proteins
protein-ml ·
DOI 10.1101/2021.11.09.467890
· bioRxiv (Cold Spring Harbor Laboratory) · 14 citations
protein
benchmark
Nov 2021
Highly accurate protein structure prediction with AlphaFold.
protein-ml ·
DOI 10.1038/s41586-021-03819-2
· Nature · 47081 citations
protein
structure
Jul 2021
Cellpose: a generalist algorithm for cellular segmentation.
cell-imaging ·
DOI 10.1038/s41592-020-01018-x
· Nature Methods · 4604 citations
imaging
segmentation
Dec 2020
The mutational constraint spectrum quantified from variation in 141,456 humans.
genomics ·
DOI 10.1038/s41586-020-2308-7
· Nature · 10379 citations
dna
variants
database
May 2020
Evaluating Protein Transfer Learning with TAPE.
protein-ml ·
DOI 10.48550/arxiv.1906.08230
· PubMed · 79 citations
protein
benchmark
Dec 2019
scGen predicts single-cell perturbation responses.
single-cell ·
DOI 10.1038/s41592-019-0494-8
· Nature Methods · 734 citations
single-cell
perturbation
Jul 2019
Predicting Splicing from Primary Sequence with Deep Learning.
rna-ml ·
DOI 10.1016/j.cell.2018.12.015
· Cell · 3059 citations
rna
splicing
Jan 2019
Deep generative modeling for single-cell transcriptomics.
single-cell ·
DOI 10.1038/s41592-018-0229-2
· Nature Methods · 2804 citations
single-cell
probabilistic
Nov 2018
The Encyclopedia of DNA elements (ENCODE): data portal update.
genomics ·
DOI 10.1093/nar/gkx1081
· Nucleic Acids Research · 2026 citations
dna
functional-genomics
database
Jan 2018
Continuous Automated Model EvaluatiOn (CAMEO) complementing the critical assessment of structure prediction in CASP12.
protein-ml ·
DOI 10.1002/prot.25431
· Proteins Structure Function and Bioinformatics · 187 citations
protein
benchmark
Dec 2017
The Human Cell Atlas.
single-cell ·
DOI 10.7554/elife.27041
· eLife · 2427 citations
single-cell
atlas
Dec 2017
A Next Generation Connectivity Map: L1000 Platform and the First 1,000,000 Profiles.
single-cell ·
DOI 10.1016/j.cell.2017.10.049
· Cell · 3813 citations
single-cell
perturbation
database
Nov 2017
The Image Data Resource: A Bioimage Data Integration and Publication Platform.
cell-imaging ·
DOI 10.1038/nmeth.4326
· Nature Methods · 336 citations
imaging
database
Jun 2017
A global reference for human genetic variation.
genomics ·
DOI 10.1038/nature15393
· Nature · 20385 citations
dna
variants
database
Oct 2015
PDB-wide collection of binding data: current status of the PDBbind database.
protein-ml ·
DOI 10.1093/bioinformatics/btu626
· Bioinformatics · 696 citations
protein
benchmark
Oct 2014
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