bigram

This is a table of type bigram and their frequencies. Use it to search & browse the list to learn more about your study carrel.

bigram	frequency
amino acid	1069
amino acids	721
dna sequences	395
genome sequence	368
protein sequences	313
secondary structure	291
protein sequence	239
graphical representation	238
sequence alignment	218
sequence data	208
dna sequence	204
acid sequence	201
complete genome	199
protein structure	197
nucleotide sequence	183
genome sequences	181
phylogenetic analysis	179
human genome	178
sequence analysis	176
rna viruses	175
phylogenetic tree	160
active site	154
secondary structures	150
closely related	147
gene expression	143
binding site	140
viral genome	132
sequence accession	130
acid sequences	129
viral sequences	128
nucleic acid	127
machine learning	124
multiple sequence	120
sequence similarity	120
binding sites	120
cord uid	119
large number	119
doc id	119
coding sequences	116
respiratory syndrome	115
genome sequencing	111
viral genomes	109
solid phase	109
nucleotide sequences	108
viral rna	108
acid residues	107
influenza virus	107
highly conserved	106
present study	106
intrinsically disordered	104
molecular dynamics	103
sequence identity	103
data sets	102
acute respiratory	100
antimicrobial peptides	100
biological activity	99
affi nity	99
cell lines	97
protein structures	97
phylogenetic trees	96
reading frames	96
structure prediction	96
mass spectrometry	95
rna polymerase	94
peptide synthesis	94
severe acute	91
escherichia coli	91
open reading	91
sequence space	91
immune response	91
sequence comparison	91
infectious diseases	91
side chains	91
reading frame	86
intrinsic disorder	86
protein interactions	86
immune system	85
data set	85
important role	84
gene sequences	84
side chain	83
widely used	83
fi rst	82
neural networks	80
similarity dissimilarity	80
two different	78
sequences based	77
molecular biology	77
crystal structure	76
two sequences	76
nucleic acids	75
protein folding	75
modifi ed	75
nmr spectroscopy	73
conformational changes	73
whole genome	72
wild type	72
immune repertoire	72
signal sequence	70
sequence information	70
codon usage	70
type i	70
generation sequencing	69
maximum likelihood	69
repetitive sequences	68
sequence alignments	68
results show	68
deep learning	68
results suggest	67
binding domain	67
coding regions	66
reference sequence	66
infectious disease	66
represented sequences	65
spike protein	65
molecular weight	65
class i	64
novel coronavirus	64
public health	64
antimicrobial activity	64
graphical representations	63
full length	62
sequencing data	62
identifi ed	61
rna virus	61
query sequence	61
fl uorescence	60
electron microscopy	60
free energy	60
genomic sequences	60
protein families	60
small molecules	60
wide range	59
circular dichroism	59
genome size	59
comparative modeling	59
coding region	58
sequence database	58
phase peptide	58
may also	58
coding sequence	58
modern hopfield	57
type ii	57
throughput sequencing	57
membrane proteins	57
cell culture	56
performed using	56
viral proteins	56
disordered proteins	56
structural proteins	56
immune responses	56
attention mechanism	56
biological sequences	55
transcription factors	55
previous studies	55
dengue virus	55
cell receptor	54
binding proteins	53
effi cient	53
results indicate	53
modifi cation	53
mosaic virus	53
drug discovery	53
protein engineering	53
reference sequences	53
genetic diversity	53
repetitive dna	52
leaf curl	52
idps idprs	52
high throughput	52
i i	52
based methods	51
recent years	51
capsid protein	51
sequence length	51
repertoire classification	50
fcov zu	50
purifi cation	50
protein coding	50
hopfield networks	49
consensus sequence	49
genetic code	49
rna secondary	49
additional file	49
viral families	49
syndrome coronavirus	49
bloom filter	49
naturally occurring	49
sequence motifs	49
terminal region	49
target protein	48
sequences using	48
draft genome	48
cell line	48
base pairs	48
dependent rna	48
ray crystallography	48
neural network	48
specifi city	47
building blocks	47
purifi ed	47
previously described	47
reverse transcriptase	47
binding protein	46
nervous system	46
dna sequencing	46
plasma membrane	46
electrostatic interactions	46
least one	46
immunodeficiency virus	46
see table	46
even though	46
primary sequence	45
dna binding	45
alignment methods	45
similarity measure	45
signifi cant	45
high resolution	45
membrane protein	45
cell surface	45
multiple alignment	45
acid composition	45
protein function	45
sequence homology	45
point mutations	44
first step	44
strand rna	44
novo assembly	44
protein secondary	44
target sequence	43
clinical samples	43
orf ab	43
united states	43
virus discovery	43
numerical characterization	43
national center	43
present work	43
total number	43
signal transduction	43
chain reaction	43
aug codon	43
polymerase chain	42
gel electrophoresis	42
infl uence	42
biologically active	42
sars coronavirus	42
crystal structures	42
time pcr	42
key role	42
small molecule	42
avian influenza	42
tertiary structure	42
synthetic peptides	41
magnetic resonance	41
terminal domain	41
physicochemical properties	41
virus infection	41
cell death	41
transcription factor	41
molecular evolution	41
viral replication	41
high affinity	41
probe design	41
biological sequence	41
host cell	41
genome project	41
protein interaction	41
alignment search	41
dynamic programming	41
antimicrobial peptide	41
reference genome	41
protein domains	41
hydrogen bonds	41
homology modelling	40
data analysis	40
comparative models	40
binding affinity	40
biological function	40
breast cancer	40
genomic data	40
stranded rna	40
growth factor	40
cancer cells	40
dynamics simulations	39
positively charged	39
virus variation	39
serine protease	39
accession number	39
phase synthesis	39
next generation	39
primary structure	39
commonly used	39
gene sequence	39
viral sequence	39
virus type	39
modifi cations	38
cell types	38
comparative analysis	38
determine whether	38
stem cells	38
untranslated region	38
sequences within	38
feature extraction	38
nuclear magnetic	38
small number	38
disordered regions	38
containing proteins	38
class ii	38
standard deviation	38
enzymatic activity	38
immunosequencing data	38
ab initio	37
expression levels	37
structural folds	37
three different	37
different species	37
stop codons	37
computational methods	37
solvent accessibility	37
real time	37
receptor binding	37
structural features	37
specific primers	37
comparative genomics	37
common ancestor	37
local alignment	37
coat protein	37
human immunodeficiency	37
template structure	37
implanted signals	36
bat species	36
rna sequences	36
sequence databases	36
high degree	36
total rna	36
fatty acid	36
ebola virus	36
ordered proteins	36
beta globin	36
recent studies	36
effi ciency	36
biological processes	36
identifi cation	36
virus genome	36
globin gene	36
complete nucleotide	36
convolutional neural	35
evolutionary relationships	35
metagenomic sequencing	35
two types	35
west nile	35
cell adhesion	35
structural information	35
cyclic peptides	35
distance matrix	35
may play	35
dimensional structure	35
protein domain	35
protein data	34
also known	34
analysis based	34
novel viruses	34
protein synthesis	34
coiled coil	34
protein complexes	34
different types	34
biotechnology information	34
fecal samples	34
cmv dataset	34
peptide sequences	34
fusion protein	34
central nervous	34
web server	34
two major	34
energy functions	34
staphylococcus aureus	34
mammalian cells	34
dna viruses	34
data bank	34
dna polymerase	34
specifi cally	33
charged residues	33
tumor cells	33
high levels	33
reverse transcription	33
grid search	33
results showed	33
learning methods	33
cell membrane	33
mhc class	33
virus rna	33
analysis revealed	33
virtual screening	33
protein family	33
new method	33
protein kinase	33
synthetic peptide	33
peptides containing	33
also found	33
similarity measures	33
hidden markov	33
auditory display	33
high quality	33
energy function	33
genomic rna	33
disulfide bonds	33
two proteins	32
phage display	32
search tool	32
viral metagenomics	32
input object	32
viral diseases	32
pcr amplification	32
negatively charged	32
proposed method	32
positive selection	32
nanopore sequencing	32
sequencing projects	32
polypeptide chain	32
infected cells	32
success rate	32
first time	32
clinical trials	32
wide variety	32
protein threading	32
inhibitory activity	32
metagenomic analysis	32
large numbers	32
immune status	31
free methods	31
similarity analysis	31
based approach	31
drug design	31
experimental data	31
pcr tests	31
acid residue	31
acid identity	31
molecular mechanisms	31
evolutionary history	31
query sequences	31
euclidean distance	31
structure determination	31
sequencing reads	31
peptide chain	31
mutation rate	31
fold recognition	31
read pairs	31
molecular level	31
cell cultures	31
nonsynonymous mutations	31
outer membrane	31
analysis using	31
signal peptide	31
genomic dna	30
computational biology	30
stranded dna	30
conformational change	30
tomato leaf	30
disulfide bridges	30
input sequences	30
cell cycle	30
viral pathogens	30
based sequence	30
tree decomposition	30
repetitive sequence	30
main proteinase	30
target sequences	30
taxonomic classification	30
full genome	30
new repetitive	30
hyperparameter search	30
influenza viruses	30
directed mutagenesis	30
fl uorescent	30
genome annotation	29
diffi cult	29
infectious peritonitis	29
structural studies	29
rna genome	29
saccharomyces cerevisiae	29
binding domains	29
amyloid fibrils	29
binding properties	29
ligand binding	29
previously reported	29
conserved regions	29
bioactive peptides	29
years ago	29
sequence embedding	28
bioinformatics tools	28
ribosomal frameshifting	28
deep sequencing	28
disordered protein	28
prostate cancer	28
world data	28
genbank database	28
unique sequences	28
feline infectious	28
nucleocapsid protein	28
also used	28
calculated using	28
tandem repeat	28
genomic sequence	28
vast majority	28
middle east	28
among different	28
will provide	28
biological functions	28
protein complex	28
cleavage site	28
protein fold	28
results obtained	28
mutation rates	28
blood pressure	28
structural protein	28
supplementary table	28
structural changes	28
hong kong	28
bloom filters	27
ng ml	27
single nucleotide	27
related sequences	27
virus species	27
large scale	27
table shows	27
gene family	27
using different	27
leader sequence	27
adaptive immune	27
sequencing technologies	27
variation resource	27
well known	27
target proteins	27
broad range	27
signifi cantly	27
related proteins	27
spectral representation	27
will also	27
protein gene	27
monoclonal antibodies	27
monte carlo	27
training set	27
starting point	27
heat shock	27
spinal cord	27
random forest	27
proteins involved	27
different proteins	27
human coronavirus	27
new approach	27
recent advances	27
host range	27
clustering algorithms	27
different methods	26
structure alignment	26
protein design	26
protein binding	26
feature vectors	26
virus genomes	26
gene therapy	26
dissimilarity analysis	26
light scattering	26
public databases	26
copy number	26
confi rmed	26
three groups	26
amino group	26
alternative splicing	26
update rule	26
one sequence	26
nile virus	26
protein database	26
immune receptor	26
emerging infectious	26
gene transfer	26
sequence classification	26
structural characterization	26
thermal stability	26
publicly available	26
markov chain	26
novel method	26
coding genes	26
hierarchical clustering	26
cell proliferation	26
zika virus	26
see sect	26
high affi	26
east respiratory	26
quality control	26
genetic material	26
plasmon resonance	26
analysis showed	26
catalytic domain	26
surface plasmon	26
recombinant proteins	26
genome organization	26
genes involved	26
predictive performance	25
pcr assays	25
innate immune	25
data obtained	25
stop codon	25
complex formation	25
determined using	25
hydrogen bond	25
basic local	25
aa sequences	25
force field	25
dna primary	25
described previously	25
cellular processes	25
structural biology	25
chicken astrovirus	25
cell wall	25
allowed us	25
repetitive patterns	25
hepatitis virus	25
vaccine development	25
human health	25
overlapping genes	25
support vector	25
cell penetrating	25
pairwise alignment	25
consensus sequences	25
poorly understood	25
feature vector	25
markov models	25
random dna	25
pairwise sequence	25
threading problem	25
virus strains	25
virus sequences	25
primary sequences	25
false positives	25
powerful tool	24
sequence reads	24
human body	24
indel information	24
chemical ligation	24
coupling reagents	24
genomic analysis	24
complete sequence	24
molecular modeling	24
mitochondrial genome	24
follow relationships	24
terminal part	24
limited number	24
based approaches	24
enzyme activity	24
exclusion chromatography	24
human rhinovirus	24
active sites	24
cell membranes	24
pcr assay	24
natural vector	24
living cells	24
epithelial cells	24
dependent manner	24
genome analysis	24
different sequences	24
purifying selection	24
viral dna	24
human viruses	24
activity relationship	24
better understand	24
database search	24
genetic information	24
vaccine design	24
molecular mechanism	24
catalytic activity	24
false negatives	24
molecular characterization	24
respiratory tract	24
false negative	24
peptide binding	23
defi ned	23
data suggest	23
learning algorithms	23
sequence comparisons	23
metal ions	23
phylogenetic analyses	23
sequencing technology	23
two distinct	23
accession jx	23
scientific community	23
high level	23
see supplementary	23
fi brils	23
scoring function	23
infectious agents	23
natural products	23
rational design	23
short peptides	23
cysteine residues	23
sequencing errors	23
component spectral	23
threading programs	23
solved structures	23
experimentally determined	23
human pathogens	23
drug development	23
relationships among	23
start codon	23
rna editing	23
better understanding	23
model system	23
mouth disease	23
viral discovery	23
will allow	23
rna structures	23
least two	23
drug delivery	23
penetrating peptides	23
terminal amino	23
cleavage sites	23
molecular cloning	23
rna sequence	23
functional genomics	22
genetic variation	22
known motif	22
ribosomal protein	22
amaryllidaceae alkaloids	22
peptide library	22
amyloid formation	22
immune repertoires	22
neurodegenerative diseases	22
human influenza	22
protein expression	22
room temperature	22
viral infection	22
native chemical	22
sh domain	22
sequence position	22
endoplasmic reticulum	22
using fmoc	22
broad spectrum	22
tree length	22
blot analysis	22
cell epitopes	22
structural similarity	22
different lengths	22
new generation	22
simulated immunosequencing	22
receptor sequences	22
takes place	22
structural genomics	22
also observed	22
homologous recombination	22
event sequence	22
four different	22
event sequences	22
virus strain	22
protein molecules	22
pcr test	22
learning rate	22
also provides	22
complete genomes	22
virus isolates	22
multiple instance	22
biological activities	22
molecular clock	22
challenge stock	22
protease inhibitors	22
free sequence	22
taken together	22
like proteins	22
batch size	22
transition kernel	22
instance learning	22
therapeutic agents	22
cancer cell	22
binding partners	22
phylogenetic relationships	22
also identified	22
viral diversity	22
short sequences	22
clinical microbiology	22
causative agent	22
spike proteins	22
eukaryotic cells	22
cyclic peptide	22
hash functions	22
sequence diversity	21
chemical properties	21
metagenomic data	21
highly variable	21
conformational analysis	21
results will	21
method based	21
protein kinases	21
long sequences	21
time points	21
terminal sequence	21
read length	21
nmr spectra	21
tissue culture	21
aqueous solution	21
analyzed using	21
recent work	21
multiple alignments	21
side effects	21
levenshtein distance	21
fatty acids	21
reverse vaccinology	21
ca i	21
coupled receptors	21
arabidopsis thaliana	21
high accuracy	21
functional proteins	21
gene finding	21
ion channels	21
bacterial genomes	21
ancestral sequence	21
constructed using	21
many cases	21
library preparation	21
logistic regression	21
helix bundle	21
new sequence	21
raw data	21
host immune	21
crucial role	21
solid support	21
size exclusion	21
authors declare	21
highly divergent	21
innate immunity	21
event types	21
mycobacterium tuberculosis	21
distantly related	21
kda protein	21
negative bacteria	21
infectious bronchitis	21
chemical synthesis	21
binding peptides	21
sequence evolution	21
genome assembly	21
viral species	21
acid substitutions	21
ssrna viruses	21
active peptides	21
ncbi taxonomy	21
chemical shift	20
usage bias	20
dimensional structures	20
artifi cial	20
recurrent neural	20
titration calorimetry	20
monoclonal antibody	20
relatively small	20
solved structure	20
phosphorylation sites	20
studies showed	20
positive class	20
recently developed	20
sequences generated	20
may lead	20
two sets	20
critical role	20
samples collected	20
may represent	20
mg ml	20
accession cp	20
west bengal	20
natively unfolded	20
one another	20
comparative genomic	20
cd spectroscopy	20
conserved domains	20
based method	20
pseudomonas aeruginosa	20
implanted motif	20
many different	20
fluorescent protein	20
completely sequenced	20
new insights	20
molten globule	20
structural data	20
another example	20
carboxylic acid	20
nmr data	20
blast search	20
two new	20
proteins may	20
validation set	20
expression data	20
experimental results	20
multiple sclerosis	20
applied biosystems	20
protein evolution	20
protein aggregation	20
clinical isolates	20
tuple distance	20
cdna library	20
nmr studies	20
burden test	20
phylogenetic inference	20
isothermal titration	20
disease virus	20
molecular recognition	20
molecular basis	20
shotgun sequencing	20
recombination events	20
may provide	20
helical structure	20
many viruses	20
mrna expression	19
related species	19
bat transcriptome	19
identical sequences	19
two groups	19
feline coronavirus	19
plasmodium falciparum	19
human dna	19
will present	19
sequences may	19
ion torrent	19
well conserved	19
signaling pathways	19
functional groups	19
last years	19
instances per	19
tree search	19
ribosomal rna	19
conserved region	19
markov model	19
sequence conservation	19
given sequence	19
nucleotide composition	19
similar sequences	19
extracellular matrix	19
envelope protein	19
fi eld	19
first one	19
commercially available	19
fibril formation	19
language model	19
virus sequence	19
autoimmune diseases	19
natural language	19
related genes	19
allow us	19
antiviral activity	19
much higher	19
supplementary document	19
dual nucleotides	19
supplementary material	19
gene ontology	19
human diseases	19
statistically significant	19
type iii	19
cell growth	19
contains two	19
different parts	19
family members	19
virus replication	19
large datasets	19
two classes	19
known protein	19
false positive	19
fi nal	19
clustering algorithm	19
joint model	19
affinity chromatography	19
hydrogen bonding	19
binding activity	19
domain swapping	19
using nmr	19
fusion proteins	19
peptide analogues	19
also shown	19
across species	18
sh domains	18
last decade	18
hrv serotypes	18
ionic strength	18
proteins encoded	18
peptide sequence	18
bronchitis virus	18
endothelial cells	18
quasispecies sequences	18
extraction method	18
membrane fusion	18
subcellular localization	18
bond formation	18
positive charge	18
single stranded	18
synthesized using	18
fold higher	18
lipid bilayer	18
international committee	18
new hits	18
feature selection	18
expressed sequence	18
amide bond	18
mutational bias	18
two main	18
immune receptors	18
probe sequences	18
biological properties	18
randomly generated	18
energy transfer	18
acid substitution	18
preliminary results	18
deduced amino	18
antimicrobial resistance	18
circular dna	18
implanted motifs	18
highly similar	18
per bag	18
reference databases	18
results demonstrate	18
computer science	18
molecular weights	18
based protein	18
driving force	18
stes mining	18
containing peptides	18
metal binding	18
viral communities	18
unnatural amino	18
possible role	18
protein degradation	18
experimental conditions	18
biological data	18
biomedical research	18
conserved sequence	18
md simulations	18
sequence variation	18
similar results	18
biological information	18
generated data	18
peptide ligands	18
transmission electron	18
curve tree	18
manual curation	18
functional protein	18
target cells	18
pcr products	18
vaccine candidates	18
also detected	18
nucleotide substitutions	18
accession numbers	18
mature peptide	18
translation initiation	17
prion protein	17
terminal fragment	17
antifungal activity	17
rheumatoid arthritis	17
length distributions	17
rice tungro	17
several different	17
stock virus	17
human papillomavirus	17
protein structural	17
dnase i	17
subunit vaccines	17
branch lengths	17
integral membrane	17
peptides derived	17
drug resistance	17
directed graph	17
sequences identified	17
indian isolates	17
available sequences	17
bovine torovirus	17
provide information	17
nested pcr	17
structure modeling	17
cystic fibrosis	17
solution structure	17
nonstructural proteins	17
partially folded	17
gc content	17
external branches	17
sliding window	17
closed curve	17
threading alignment	17
virus genes	17
sequences per	17
molecular interactions	17
silico sensitivity	17
new analogues	17
tyrosine kinase	17
binding capacity	17
human microbiome	17
first aug	17
recombinant protein	17
different protein	17
tissue fecal	17
coronavirus spike	17
single molecule	17
tat tac	17
simulated annealing	17
molecular docking	17
cysteine proteases	17
san diego	17
binding motif	17
high mutation	17
genome evolution	17
bacterial genome	17
viral population	17
peptide libraries	17
herpes simplex	17
gene product	17
blast searches	17
coronavirus associated	17
time consuming	17
also showed	17
studies revealed	17
epitope prediction	17
binding affi	17
repeated sequences	17
novel virus	17
type protein	17
liquid chromatography	17
structural analysis	17
environmental samples	17
homologous proteins	17
natural selection	17
unknown sequences	17
query protein	17
dimensional space	17
novel approach	17
dynamic light	17
shed light	17
dsdna viruses	17
dihydrofolate reductase	17
human cells	17
spatiotemporal event	17
substrate specificity	17
functional analysis	17
human disease	17
novo design	17
long time	17
genome projects	17
molecular mass	17
animal models	17
statistical significance	17
standard genetic	17
andhra pradesh	17
sequences used	17
sequence positions	17
opioid receptor	17
data mining	17
currently available	17
dark matter	17
prior knowledge	17
structural motif	16
data generated	16
sequences obtained	16
fourier transform	16
sequence based	16
rich domains	16
growth rate	16
distance methods	16
random walk	16
genetically diverse	16
new delhi	16
genome segments	16
reference genomes	16
xho i	16
previous work	16
dna replication	16
witness rate	16
probability distribution	16
structure elements	16
gene encoding	16
amino groups	16
rat brain	16
activity relationships	16
novel human	16
allows us	16
two genes	16
peptide conjugates	16
tree width	16
comparative protein	16
accession jq	16
sequences derived	16
homology search	16
like receptors	16
protein primary	16
capsid gene	16
oxidative stress	16
data structures	16
participation index	16
vero cells	16
arginine residues	16
template structures	16
results provide	16
primary protein	16
functional properties	16
data structure	16
read graph	16
coronavirus genomes	16
protein targets	16
substitution model	16
clinical specimens	16
optimal threading	16
bluetongue virus	16
base composition	16
peptide backbone	16
forward primer	16
protein tyrosine	16
known viral	16
yellow fever	16
sample preparation	16
bacterial pathogens	16
pi th	16
coronavirus disease	16
major role	16
much larger	16
expressed protein	16
ligand docking	16
directed graphs	16
sanger sequencing	16
significantly higher	16
synthesis using	16
triple helix	16
hydrophobic regions	16
also show	16
identified using	16
gene prediction	16
bioinformatics resource	16
per repertoire	16
classification system	16
previously published	16
profi le	16
native structure	16
many genes	16
base calls	16
methods based	16
rrna gene	16
two decades	16
food intake	16
pi values	16
peptide bond	16
informative sites	16
acid changes	16
complete genomic	16
taxonomic groups	16
detailed analysis	16
small fraction	16
also present	16
important roles	16
sars virus	16
proteins containing	16
cell receptors	16
multiple sequences	16
short sequence	16
using standard	16
two methods	16
mammalian viruses	16
structural motifs	16
like protein	16
time point	16
design method	16
frameshift site	16
disulfide bond	16
chikungunya virus	16
optimal alignment	16
untranslated regions	16
hypervariable regions	16
mitochondrial dna	16
fever virus	16
peptide derivatives	16
increasing number	16
plant species	16
significant role	16
opioid receptors	16
model peptides	16
newly discovered	16
average length	16
complete viral	16
peptide fragments	16
genome duplication	16
synonymous mutations	16
rna viral	16
gene cluster	16
antibiotic resistance	16
viral infections	16
different positions	16
cell epitope	16
prediction methods	15
conserved amino	15
different aspects	15
ci th	15
genetic distance	15
energy model	15
host cells	15
sequence records	15
fold increase	15
viral protein	15
sewage samples	15
see also	15
pairwise alignments	15
large amounts	15
adenovirus type	15
experimental methods	15
metal ion	15
homology modeling	15
entire genome	15
method using	15
also provide	15
chronic hepatitis	15
input sequence	15
best results	15
avian infectious	15
viral isolates	15
human coronaviruses	15
standard deviations	15
running time	15
functionally important	15
cell type	15
four bases	15
transmembrane domain	15
model systems	15
van der	15
sequence tags	15
bias towards	15
microbial communities	15
protein molecule	15
additional information	15
bone marrow	15
tyrosine kinases	15
different time	15
viral family	15
potent inhibitors	15
also possible	15
relative abundance	15
western blot	15
batcv poa	15
indel model	15
unfolded proteins	15
nuclear transfer	15
molecular methods	15
sequence similarities	15
statistical analysis	15
translational modification	15
showed high	15
capsid proteins	15
new viruses	15
horizontal gene	15
serum samples	15
results also	15
binding studies	15
reverse primer	15
refseq records	15
fluorescence spectroscopy	15
scale sequencing	15
sequence divergence	15
complementary dna	15
highly pathogenic	15
results revealed	15
kcal mol	15
mammary gland	15
best hit	15
science foundation	15
host species	15
microbial genome	15
computational complexity	15
derived peptides	15
clinical studies	15
respiratory disease	15
high prevalence	15
standard amino	15
mottle virus	15
tumor growth	15
extraction methods	15
new family	15
effi ciently	15
conserved cysteine	15
globular proteins	15
silico validation	15
model organisms	15
rna molecules	15
tissue samples	15
ancestral sequences	15
one example	15
structural elements	15
biological membranes	15
gastrointestinal tract	15
base call	15
genes encoding	15
sequences available	15
annotation pipeline	15
loop structure	15
structural properties	15
sequence read	15
three major	15
human cln	15
proteins will	15
sequences detected	15
random sequences	15
protein fragments	15
several species	15
ray scattering	15
genomic islands	15
coupling reaction	15
new class	15
original sequence	15
proline residues	15
order nidovirales	15
plasmid dna	15
metabolic pathways	15
viral particles	15
whole genomes	15
supplementary file	15
generated using	15
mouse hepatitis	15
plant viruses	15
peptide chemistry	14
streptococcus pneumoniae	14
mil problems	14
nucleotide binding	14
distance measure	14
tumor suppressor	14
related protein	14
fmoc tbu	14
cellular functions	14
read archive	14
binding pocket	14
human serum	14
storage capacity	14
protein alignment	14
new sequences	14
human igg	14
sequence rseq	14
signal processing	14
forest virus	14
state university	14
yet another	14
sequence structure	14
nucleotide substitution	14
protein ligation	14
nearest neighbor	14
confi guration	14
ray structure	14
expression patterns	14
valuable information	14
relative frequency	14
joining method	14
like attention	14
like globin	14
aspartic acid	14
known viruses	14
newly synthesized	14
estimated using	14
also performed	14
biologically relevant	14
time course	14
often used	14
human gut	14
different regions	14
significant similarity	14
i will	14
attention weights	14
single amino	14
ruditapes philippinarum	14
minimum number	14
using molecular	14
nmr experiments	14
attention values	14
potential role	14
population genetics	14
evolutionary relationship	14
also called	14
accumulated natural	14
hela cells	14
integer programming	14
sispa method	14
class repertoires	14
mutational robustness	14
rich region	14
branch length	14
tandem repeats	14
many proteins	14
interaction energy	14
protein dynamics	14
software package	14
homology models	14
functional studies	14
experimental evidence	14
bovine serum	14
repeat proteins	14
successfully used	14
extended idps	14
useful tool	14
evolutionary analysis	14
adjacency matrix	14
molecular evolutionary	14
platelet aggregation	14
blood donors	14
messenger rna	14
ray diffraction	14
living organisms	14
random coil	14
simplex virus	14
high performance	14
related viruses	14
high yield	14
molecular function	14
economically important	14
database using	14
water molecules	14
highly significant	14
high sensitivity	14
attention mechanisms	14
obtained using	14
artificial intelligence	14
signaling pathway	14
may help	14
peptides based	14
dissimilarity matrix	14
mitochondrial genomes	14
incomplete purifying	14
visual display	14
default parameters	14
computational tools	14
research institute	14
nk cells	14
cells expressing	14
deletion mutants	14
alignment distribution	14
positive samples	14
language processing	14
net charge	14
spike glycoprotein	14
er membrane	14
proteins based	14
protein intrinsic	14
two stickers	14
rna replication	14
mrna levels	14
take place	14
dna genomes	14
semliki forest	14
fl ow	14
conceptual model	14
molecular epidemiology	14
near future	14
virus evolution	14
dna fragment	14
life cycle	14
animal species	14
antibacterial activity	14
multiplex pcr	14
anopheles gambiae	14
various types	14
human cell	14
terminal end	14
public domain	14
learning models	14
heavy chain	14
new coronavirus	14
plant amps	14
graduate school	14
porcine circovirus	14
building block	14
ncbi database	14
glutamic acid	14
different levels	14
small angle	14
samples using	14
trypanosoma brucei	14
using primers	14
genbank accession	14
highly selective	14
synonymous codon	14
analysis tools	14
one protein	14
randomly selected	14
primer design	14
low concentrations	14
specific amino	14
new world	14
genome duplications	13
analytical tools	13
tumor cell	13
data indicate	13
much less	13
three dimensional	13
two novel	13
virulence factors	13
useful information	13
dna molecules	13
native state	13
simple way	13
two domains	13
single protein	13
drug targets	13
code set	13
conformational studies	13
interaction networks	13
highly specific	13
situ hybridization	13
protein science	13
repetition number	13
three distinct	13
per primer	13
lipid membrane	13
affi nities	13
ordered structure	13
neutral networks	13
similarity matrix	13
helical conformation	13
rapid identification	13
massively parallel	13
based energy	13
binding kinetics	13
nmr structure	13
chemical group	13
resequencing microarray	13
negative control	13
average number	13
new graphical	13
structure graph	13
chemical shifts	13
gives rise	13
two viruses	13
analysis reveals	13
past years	13
data available	13
tadarida brasiliensis	13
help us	13
initiation factor	13
provide new	13
phase method	13
amplicon sequencing	13
early stage	13
lstm model	13
specific binding	13
sequence analyses	13
well studied	13
protease inhibitor	13
reaction conditions	13
interacting proteins	13
agarose gel	13
muscle cells	13
using high	13
essential role	13
one base	13
replication cycle	13
hydrophobic core	13
geographic distribution	13
gene clusters	13
leader sequences	13
time series	13
infl uenza	13
world health	13
structural basis	13
wide array	13
freely available	13
binding affinities	13
genomic sequencing	13
evolutionary rates	13
protein disorder	13
will help	13
dna fragments	13
previously known	13
serine proteases	13
coronavirus hku	13
tumor necrosis	13
sequence lengths	13
may affect	13
biological systems	13
using two	13
blood samples	13
significant differences	13
will discuss	13
homologous sequences	13
ligand interactions	13
bound state	13
pathogen identification	13
respiratory pathogens	13
larger number	13
data using	13
comparative model	13
next step	13
mutation frequencies	13
previously identified	13
currently used	13
become available	13
viral nucleic	13
population size	13
alignment uncertainty	13
india anand	13
neisseria meningitidis	13
uorescence spectroscopy	13
different cell	13
pathogenicity islands	13
evolutionary models	13
metagenomic samples	13
castv india	13
sequence coverage	13
functional domains	13
comparative study	13
give rise	13
chaos game	13
high specificity	13
provide insight	13
protein surface	13
length distribution	13
statistical properties	13
protein coupled	13
investigated using	13
programmed cell	13
just one	13
hairpin structure	13
different approaches	13
drug candidates	13
calf thymus	13
ms ms	13
sequences without	13
similarity searches	13
serum albumin	13
vp gene	13
viral strains	13
genomic characterization	13
long term	13
polar coordinates	13
functional group	13
clustering methods	13
cellular uptake	13
regulatory elements	13
dna microarrays	13
immune genes	13
vector machine	13
nucleotide divergence	13
subcellular location	13
acid side	13
gene families	13
research groups	13
blood vessels	13
machine translation	13
repeat sequences	13
protein stability	13
diarrhea virus	13
control group	13
multidomain proteins	13
binding assays	13
genetic variants	13
isoelectric point	13
decision tree	13
tail window	13
sequences will	13
nucleotide level	13
four nucleotides	13
three types	13
virus serotype	13
nonstructural protein	13
great interest	13
may contain	13
per year	13
potential therapeutic	13
drosophila melanogaster	13
structure based	13
emerging pathogens	13
much smaller	13
linked immunosorbent	13
microwave assisted	13
viral metagenomic	13
viruses infecting	13
programming algorithm	13
st family	13
olg sequences	13
naturally infected	13
corona virus	13
differentially expressed	13
alignment problem	13
dna damage	13
insectivorous bats	12
also studied	12
proteins within	12
single gene	12
sequence graph	12
base pair	12
detected using	12
group representative	12
relatively low	12
structural positions	12
alternative approach	12
one amino	12
supervised learning	12
new protein	12
national institute	12
relative solvent	12
intensity level	12
may indicate	12
limited set	12
sequence retrieval	12
sequence datasets	12
genetic data	12
structural fold	12
conserved among	12
past decade	12
like structures	12
hcv infection	12
negative class	12
rich peptides	12
structure activity	12
information contained	12
candidate sequences	12
previously characterized	12
provide evidence	12
hemorrhagic fever	12
length genome	12
proteins using	12
highly dynamic	12
membrane permeability	12
previous study	12
will give	12
total synthesis	12
cdna synthesis	12
large data	12
ins i	12
methods used	12
sequence may	12
among others	12
common ancestry	12
evolutionary trees	12
north america	12
new york	12
per residue	12
short peptide	12
immunosorbent assay	12
study revealed	12
see section	12
entire sequence	12
different mechanisms	12
leading eigenvalues	12
rna genomes	12
assembly using	12
classification using	12
environmental factors	12
world immunosequencing	12
protein level	12
peptide arrays	12
average auc	12
contact structures	12
novel peptide	12
current state	12
seq data	12
predicting protein	12
biological databases	12
challenge virus	12
vitro translation	12
heparan sulfate	12
slightly different	12
hopfield network	12
virus variants	12
virus isolation	12
viral disease	12
deeprc model	12
different data	12
new species	12
conserved sequences	12
deep neural	12
double stranded	12
receptor recognition	12
sequencing efforts	12
minion sequencing	12
species level	12
using blast	12
substrate binding	12
new genes	12
computational design	12
protein identification	12
native protein	12
genbank records	12
good solvent	12
gene structure	12
inhibitory effect	12
also able	12
tree construction	12
time scale	12
cdna clones	12
sequence patterns	12
principal component	12
synthesized peptides	12
like peptides	12
sequences showed	12
vaccinia virus	12
expressed genes	12
also proposed	12
polyacrylamide gel	12
yeast genome	12
genome structure	12
catalytic efficiency	12
fold cross	12
genome shotgun	12
previously shown	12
genetic analysis	12
computational approaches	12
ca binding	12
competing interests	12
large fraction	12
alignment using	12
metabolic stability	12
human host	12
physiological processes	12
also reported	12
different families	12
national institutes	12
phylogenetic methods	12
epidemiological data	12
play important	12
two peptides	12
evaluated using	12
unique amino	12
noncoding regions	12
cysteine protease	12
atpase activity	12
acute gastroenteritis	12
comparative sequence	12
hydroxyl group	12
randomly chosen	12
phylogeny estimation	12
comprehensive database	12
human populations	12
adjacency vector	12
rna binding	12
high sequence	12
sample set	12
bacillus anthracis	12
rna recombination	12
implanted signal	12
complete sequences	12
linear regression	12
specific sequences	12
successfully applied	12
rna structure	12
adhesion molecules	12
small size	12
assembled using	12
particular bases	12
bacterial cell	12
pcr product	12
per se	12
using multiple	12
target cell	12
new viral	12
current study	12
enteric viruses	12
go terms	12
moonlighting proteins	12
minmax kernel	12
conserved domain	12
nucleotide identity	12
intermolecular bridges	12
pattern recognition	12
geobacter sulfurreducens	12
done using	12
critical assessment	12
specific sites	12
folding problem	12
last two	12
sequences encoding	12
hydrophobic residues	12
gene duplication	12
tested positive	12
feline coronaviruses	12
cnn kernels	12
northern blot	12
disordered residues	12
close proximity	12
vector method	12
poor solvent	12
transformer attention	12
containing two	12
islet amyloid	12
motif blocks	12
means clustering	12
different groups	12
rep protein	12
genetic drift	12
threading algorithms	12
growth factors	12
based model	12
expression profiles	12
short read	12
two subunits	12
contains three	12
length sequences	12
like receptor	12
genome sizes	12
chemical groups	12
cd spectra	12
peptide bonds	12
likelihood phylogenetic	12
swab samples	12
specific genes	12
necrosis factor	12
rational drug	12
rna synthesis	12
full hyperparameter	12
analysis indicated	12
pyrosequencing reads	12
acid change	12
based drug	12
resonance energy	12
model based	12
charged amino	12
candidate sequence	12
highly potent	12
low abundance	12
posttranslational modifications	12
recombinant dna	12
acid peptide	12
cys residues	12
genetically modified	12
flow cytometry	12
transmembrane proteins	12
nitric oxide	12
surface charge	12
virus proteins	12
tertiary structures	12
game representation	12
obtained results	12
proteolytic cleavage	12
repeat sequence	12
metagenomic approach	12
yellow vein	12
word embedding	11
sheet structure	11
order moments	11
protein concentration	11
fl uorinated	11
domain protein	11
forward language	11
success rates	11
atomic force	11
life technologies	11
widely distributed	11
amyloid fi	11
experimental studies	11
southern china	11
using circular	11
gap length	11
university hospital	11
distance matrices	11
numerical representation	11
first case	11
expression vector	11
times higher	11
positive strand	11
scaffold proteins	11
ribosomal frameshift	11
three classes	11
low molecular	11
classification based	11
early stages	11
different strains	11
hiv protease	11
character states	11
phase ii	11
wet lab	11
bootstrap values	11
brain tissue	11
short reads	11
structural feature	11
surface receptors	11
different datasets	11
will show	11
native peptide	11
encephalitis virus	11
new strains	11
based analysis	11
compressed sensing	11
hydrophobic interactions	11
low quality	11
major histocompatibility	11
chain translocation	11
pcr using	11
fl exible	11
secondary structural	11
much faster	11
computational resources	11
terminal residues	11
correlation spectroscopy	11
delivery systems	11
tobacco mosaic	11
astrovirus isolate	11
protein conformation	11
two species	11
invertebrate vectors	11
physiological conditions	11
prediction results	11
letter sequence	11
effi cacy	11
fully automated	11
virus families	11
scale sequence	11
health problem	11
different countries	11
associated protein	11
value ranges	11
peripheral blood	11
olg design	11
pfam database	11
specific protein	11
exchange chromatography	11
coronavirus sequences	11
will enable	11
indel events	11
intrinsically unstructured	11
dna synthesis	11
bovine coronavirus	11
real number	11
cell biology	11
therapeutic target	11
genetics analysis	11
natural killer	11
test whether	11
hla class	11
three reading	11
rgmov rna	11
hamming distance	11
first identified	11
primer set	11
integrated gradients	11
good quality	11
residue peptide	11
conformational properties	11
cell entry	11
research group	11
acid analysis	11
like virus	11
predicted using	11
per site	11
disease diagnosis	11
sequencing libraries	11
contained within	11
gene regulation	11
test set	11
similarity search	11
computational approach	11
energy term	11
produced using	11
loop regions	11
randomization models	11
peptide concentration	11
specific expression	11
multiple proteins	11
protein genes	11
sequential patterns	11
known structures	11
specific activity	11
approach may	11
diagram graph	11
generation time	11
five different	11
identify novel	11
search space	11
olg pairs	11
knowledge base	11
neuronal ceroid	11
peptide analogs	11
known structure	11
embryonic development	11
steric hindrance	11
unique features	11
fl exibility	11
tetrafl uoroborates	11
sars cov	11
homo sapiens	11
sequence assembly	11
correlation coefficient	11
hot spots	11
internal nodes	11
ed peptides	11
receptor agonist	11
well suited	11
threshold value	11
sentence generation	11
recently proposed	11
sequence search	11
terminal regions	11
nd protein	11
functional role	11
gb ram	11
amyloid polypeptide	11
tandem mass	11
biochemical pathways	11
global health	11
ion channel	11
nuclear extracts	11
good agreement	11
quaternary structure	11
peptide hybrids	11
lipid transfer	11
signal peptides	11
annotated sequences	11
search programs	11
virus taxonomy	11
transgenic mice	11
gapped blast	11
diagnostic tools	11
built using	11
different viral	11
predicted proteins	11
sequencing techniques	11
evolutionary genetics	11
studied using	11
sequence variability	11
using one	11
catalytic residues	11
aromatic residues	11
newly developed	11
identify new	11
taking advantage	11
gene mutations	11
olg pair	11
high concentrations	11
viral quasispecies	11
free radical	11
selective pressure	11
pathogen detection	11
analysis pipeline	11
health organization	11
proteolytic degradation	11
unknown function	11
coronavirus genome	11
physical properties	11
various biological	11
ceroid lipofuscinosis	11
organic solvents	11
receptor protein	11
sequences related	11
cluster analysis	11
information may	11
basic idea	11
specific proteins	11
protecting groups	11
great importance	11
bacillus subtilis	11
method used	11
environmental conditions	11
sequences among	11
converting enzyme	11
field isolates	11
make use	11
three sequences	11
gs flx	11
enzymatic degradation	11
dna strand	11
random sequence	11
computer program	11
merkel cell	11
chicken astroviruses	11
open access	11
given protein	11
protein docking	11
bovine viral	11
like enzymes	11
conformational behavior	11
sequencing project	11
structure information	11
wild birds	11
gov genome	11
four data	11
vector machines	11
transmembrane region	11
loss function	11
dna virus	11
significantly different	11
constructed sequences	11
results may	11
sequences containing	11
follow relationship	11
structural differences	11
immune evasion	11
hydrophobic amino	11
glycosylation sites	11
novel mammalian	11
correct structural	11
structural stability	11
eukaryotic genomes	11
different amino	11
economic losses	11
extremely high	11
major challenge	11
highly abundant	11
random variants	11
regulatory sequences	11
deletion mutations	11
using sequence	11
individual amino	11
manila clam	11
large set	11
diversity within	11
directed evolution	11
new approaches	11
million people	11
green fluorescent	11
low affinity	11
infected patients	11
detailed description	11
almost identical	11
cdna cloning	11
antiviral immunity	11
microbiome project	10
structural environments	10
systemic spread	10
infantile neuronal	10
viral agents	10
conserved across	10
biorxiv doi	10
flying fox	10
network architectures	10
different virus	10
genetic diseases	10
protein folds	10
primer pairs	10
multiple copies	10
infl ammatory	10
catalytic domains	10
genome viruses	10
fas ii	10
discrimination measure	10
nipah virus	10
assembled contigs	10
molecular modelling	10
functional annotation	10
antigen binding	10
surface exposed	10
species using	10
sequence features	10
angiotensin ii	10
disordered region	10
sequence clustering	10
genome coverage	10
different sizes	10
tag tat	10
cov main	10
term memory	10
alpha helix	10
human plasma	10
influenza data	10
clustering method	10
proposed architecture	10
human enteroviruses	10
useful tools	10
rna genes	10
associative polymers	10
tree node	10
brain barrier	10
expert system	10
saudi arabia	10
three proteins	10
various species	10
divergent sequences	10
manually curated	10
main paper	10
still unknown	10
first approach	10
plant defensins	10
contact structure	10
catalytic site	10
higher eukaryotes	10
molecular typing	10
der waals	10
recent developments	10
histocompatibility complex	10
ser thr	10
long range	10
fmoc chemistry	10
structural model	10
surface glycoprotein	10
provides information	10
high purity	10
protein involved	10
predicted protein	10
kernel size	10
endothelial cell	10
rep gene	10
bp long	10
also important	10
conformational transition	10
upper respiratory	10
language models	10
recognition sites	10
much greater	10
probe sets	10
species demarcation	10
food borne	10
gene products	10
provide important	10
healthy controls	10
group i	10
low frequency	10
picobirnaviridae family	10
gpu memory	10
sequence variations	10
high frequency	10
important human	10
haemophilus influenzae	10
avian coronavirus	10
substitution rates	10
releasing hormone	10
kinetic parameters	10
range correlations	10
predict protein	10
experimentally validated	10
polypeptide chains	10
purified using	10
stranded cdna	10
time complexity	10
parallel computing	10
repeated dna	10
novel gene	10
accumulated indicator	10
sequencing centers	10
several methods	10
esgrowth algorithm	10
high similarity	10
receptor antagonist	10
mil problem	10
growth hormone	10
function relationships	10
core regions	10
raw sequence	10
two vertices	10
delhi virus	10
pancreatic lipase	10
genomes using	10
acid level	10
prot database	10
titration curves	10
tree based	10
viral evolution	10
protein regions	10
experimental design	10
bacterial species	10
soluble proteins	10
may result	10
gracilaria chilensis	10
gap penalty	10
disease research	10
first report	10
native proteins	10
acetic acid	10
protein association	10
molecular mechanics	10
highly efficient	10
predicted structure	10
visual inspection	10
threading algorithm	10
conformational states	10
threading energy	10
computation time	10
high coverage	10
simple method	10
china complete	10
low levels	10
dna rna	10
receptor repertoires	10
restriction sites	10
human population	10
remains unknown	10
curl new	10
located within	10
sequence representation	10
event instances	10
using deep	10
rna polymerases	10
protein functions	10
gene function	10
database searches	10
genetic variability	10
leucine codon	10
one way	10
viral populations	10
new era	10
one major	10
schwann cells	10
penetrating peptide	10
signalling pathways	10
hidden state	10
significant sequence	10
genome database	10
modification systems	10
underrepresented sequences	10
model selection	10
relationship among	10
helix formation	10
conceptual modeling	10
known sequence	10
conformational freedom	10
unique peptide	10
lexical constraints	10
coupled receptor	10
new therapeutic	10
fold assignment	10
based models	10
mammalian cell	10
model peptide	10
residues involved	10
maximum number	10
sequencing analysis	10