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
posted january	1337
copyright holder	1337
version posted	1337
biorxiv preprint	1337
author funder	1337
peer review	1329
preprint https	1291
preprintthis version	1250
et al	1217
org licenses	879
granted biorxiv	877
rights reserved	449
reuse allowed	448
allowed without	448
without permission	448
international licenseavailable	435
international licensemade	355
licensemade available	355
cell lines	281
cell types	218
cell type	202
seq data	189
gene expression	166
cell line	119
supplementary table	109
scalar curvature	108
kdl qaa	107
qaa http	106
single cell	105
made available	103
nucleic acids	100
hbv integration	97
scalar curvatures	95
deep learning	93
methods section	92
kdl gtt	92
com eqnedit	92
gtt http	91
kdl jg	89
cancer types	83
editing frequency	82
international licensea	78
notthis version	78
licensea certified	78
kdl lmi	75
see methods	72
kdl bijvc	71
bijvc http	70
triplex motifs	69
ps ta	69
kdl vecw	68
vecw http	67
au content	66
methylation array	66
kdl ahwg	66
see figure	66
amino acid	66
cell rna	65
rna editing	64
cancer type	64
ahwg http	64
acids res	63
cancer cell	63
expression levels	63
supplementary figure	62
machine learning	62
copy number	62
editing sites	61
secondary structure	61
kdl udus	58
kdl wfrst	58
udus http	57
expression profiles	56
wfrst http	56
kdl xp	56
gene pairs	55
mammalian methylation	55
data fig	54
kdl sj	54
extended data	53
training data	52
ccn scores	50
kdl isag	50
essential genes	49
isag http	49
sequencing data	48
edited cytidine	47
ccn score	47
data sets	46
time min	46
total number	46
host prediction	45
least one	45
pearson correlation	45
image patches	45
em maps	44
dna methylation	43
acids research	43
epithelial cells	43
expression data	43
integration sequences	41
fold change	41
integration sites	41
supplementary fig	41
rienrich seq	41
stat activation	39
enrich seq	39
bulk rna	39
end genes	39
polya selection	38
clustering methods	38
dimer bound	38
homo sapiens	38
read pairs	37
mooring sequence	37
mutual information	37
cell division	37
klein bottle	37
breast cancer	36
valid read	35
test set	35
wavelet analysis	35
biological replicates	35
data set	34
predicted atus	34
neighborhood sizes	34
cell data	34
supplemental figure	34
stat phosphorylation	33
publicly available	33
plos one	33
maximal atu	32
general classification	32
mathematical models	32
vjim http	32
kdl vjim	32
data analysis	32
across different	32
human genome	31
neural network	31
covid risk	31
selection gse	31
subtype classification	31
risk factors	31
bias rate	31
cell surface	30
cancer models	30
batch correction	30
wavelet power	30
allele frequency	30
barcode sequences	30
expression level	30
variant calling	30
technical replicates	29
lung cancer	29
ovarian cancer	29
image patch	29
random forest	29
amino acids	29
general ccn	28
min ps	28
genomic features	28
rna sequencing	28
risk factor	28
mass spectrometry	28
indel errors	28
reference genome	28
tumor transcriptome	28
mrna editing	28
beta diversity	27
per unit	27
tumor type	27
tumor types	27
ground truth	27
ms spectra	27
org content	26
host pairs	26
gene essentiality	26
neural networks	26
whole genome	26
showing mean	26
two technical	26
manifold dimension	26
tcga pan	26
mock mock	26
new infections	26
read counts	25
std dev	25
mammalian array	25
oligonucleotide compositions	25
return plots	25
artificial multiplets	25
vntr loci	25
expressed genes	25
multiple sclerosis	25
regulatory sequence	25
figure shows	25
health care	25
average mutual	25
heterotypic multiplets	25
mrna transcripts	24
fdissim indices	24
different cell	24
principal components	24
environmental distance	24
drug prescriptions	24
homotypic multiplets	24
dna sequences	24
pan cancer	24
innate immune	24
supp tab	24
unit increments	24
spike protein	24
epic array	24
electronic health	23
enrichment analysis	23
hla alleles	23
stop codon	23
refseq annotation	23
prediction accuracy	23
gene induction	23
integrated datasets	23
transcriptome data	23
mouse brain	23
competing interests	23
favorable interactions	23
type specific	23
motion estimation	23
clique sum	23
new york	23
nature methods	23
downstream sequence	22
correlation coefficient	22
processing methods	22
vinyl sulfone	22
altering variants	22
edwards et	22
ambient space	22
capsule network	22
galiez et	22
url https	22
similarity metrics	22
presence absence	22
aware model	22
wide range	22
length scale	22
default parameters	22
standard deviation	22
acute respiratory	22
gene annotations	21
supervised approach	21
performed using	21
cancer genome	21
statistical software	21
large number	21
read depth	21
mitochondrial dna	21
rsubread annotation	21
three biological	21
mathematical model	21
atu clusters	21
directional changes	21
absence data	21
developmental time	21
supp fig	21
quadruplex motifs	21
kdl xpakk	21
systems biology	21
cell similarities	21
expression profile	21
care records	21
optical flow	21
five cancer	21
principal component	21
spatial transcriptomics	21
also found	21
supplementary file	21
consensus sequences	20
nature biotechnology	20
tumor suppressor	20
gwas enrichment	20
seq datasets	20
prescription events	20
los angeles	20
differentially expressed	20
disease modules	20
virus genome	20
uniformly sampled	20
fi time	20
splice variant	20
prediction performance	20
variant window	20
differential geometry	20
bronchial epithelial	20
genome sequencing	20
seq classifier	20
training set	20
data using	19
experimental data	19
population information	19
ensembl annotation	19
marker genes	19
author contributions	19
splice altering	19
live cell	19
bmc bioinformatics	19
common essential	19
dna barcode	19
genome biol	19
first prescription	19
de novo	19
xpakk http	19
calibration data	19
quality control	19
immune responses	19
integrated dataset	19
similarity learning	19
strain measures	19
sequence alignment	19
nat methods	19
loss function	19
phosphorylation kinetics	19
functional genomics	19
host species	19
even though	18
euclidean distance	18
respiratory syndrome	18
combat qn	18
type clustering	18
sample sample	18
fractional error	18
attention intensive	18
browser brain	18
taken together	18
atom difference	18
microarray data	18
variable genes	18
differential expression	18
prescription event	18
different types	18
storage browser	18
base content	18
false positives	18
ubiquitination sites	18
rpe cells	18
stop codons	18
two communities	18
public research	18
binding sites	18
deletion breakpoints	18
data type	18
data availability	18
gse sars	18
refseq annotations	18
negative class	18
com storage	18
two cytokines	17
variant calls	17
south korea	17
stat stat	17
ta bl	17
batch effects	17
scrnaseq datasets	17
single cells	17
com work	17
based methods	17
across samples	17
open source	17
spike ace	17
bl et	17
acad sci	17
gene annotation	17
consensus sequence	17
three annotations	17
per cell	17
ai https	17
intrinsic curvature	17
sequence data	17
curvatures computed	17
editing targets	17
vinyl sulfones	17
overlapping cell	17
alternative polyadenylation	17
preprint http	17
genome sequences	17
natl acad	17
functional diversity	17
clinical events	17
fi ps	17
decision threshold	17
type diabetes	17
zero scalar	17
genome biology	17
gene sets	17
work bibliography	17
power spectrum	17
read count	17
significantly enriched	17
sequence motif	17
two molecules	17
nature communications	17
healthy controls	17
web server	17
cell divisions	17
effects identify	16
severe acute	16
em density	16
also used	16
mr motifs	16
calculated using	16
molecular biology	16
power plot	16
apob rna	16
specific expression	16
cell populations	16
supplementary data	16
bivariate wavelet	16
phosphorylated stat	16
widely used	16
patch dataset	16
mer counts	16
bibliography http	16
tumor transcriptomes	16
source code	16
grn status	16
three different	16
data generated	16
computed scalar	16
interacting phage	16
computed using	16
two datasets	16
ccn classifier	16
clinical data	16
learning model	16
transcriptomic data	16
generation sequencing	16
suppressor gene	16
sample size	16
represent cancer	16
log nm	16
division events	16
allele frequencies	15
neighborhood size	15
cell differentiation	15
analysing drug	15
sle patients	15
model selection	15
component analysis	15
ncbi refseq	15
ring systems	15
based approach	15
prop gender	15
ami gender	15
high quality	15
two different	15
read distribution	15
human bronchial	15
downstream analyses	15
false negatives	15
cancer res	15
classification profiles	15
tumour cells	15
different cancer	15
deep neural	15
generalized tradidiss	15
expression datasets	15
base composition	15
false positive	15
ms ms	15
based dissimilarity	15
biol chem	15
cas screens	15
balf samples	15
package version	15
seq rienrich	15
nature reviews	15
cysteine proteases	15
mtdna deletions	15
columns represent	15
debar package	15
ligand subgroups	15
chain path	15
cells infected	15
human population	15
genome atlas	15
hydrogen bond	15
human ace	15
base pairs	15
ifnl sars	14
raw data	14
pqa score	14
beltrami operator	14
segment cn	14
computer science	14
statistically significant	14
second fundamental	14
nsclc cell	14
sustained stat	14
supplementary figures	14
relative abundances	14
network analysis	14
spatial spots	14
ddgbind values	14
lagged data	14
dissimilarity indices	14
scientific reports	14
debar pipeline	14
transcriptomics data	14
regression model	14
immune system	14
cancer research	14
wild type	14
entity recognition	14
vntr length	14
cell marker	14
similarity matrix	14
bacterial genomes	14
time series	14
intergenic region	14
chromatin state	14
mri data	14
convolutional neural	14
low percent	14
perfect matching	14
fundamental form	14
cell proportions	14
cn values	14
lines indicate	14
therapydf testtherapydf	14
pstat pstat	14
chen et	14
dependent changes	14
cell carcinoma	14
density maps	14
corresponding author	14
mutant nsclc	14
transcriptional fidelity	14
proc natl	14
cytokine signaling	14
length scales	14
de bruijn	14
recurrently disrupted	14
also made	14
univariate wavelet	14
sequence match	14
methylation levels	14
read pair	14
intronic variants	14
host genomes	14
correlation coefficients	14
atom differences	14
measurement noise	14
fo ld	14
th percentile	14
moi sars	14
generated using	14
allowed us	14
true value	14
module genes	14
gse mock	13
gene pair	13
subclonal segments	13
input features	13
single gene	13
embedding dimension	13
main text	13
entry mechanisms	13
frequently recurring	13
flow cytometry	13
strain analysis	13
cysteine protease	13
human reference	13
unfavorable interactions	13
human viruses	13
ubiquitination site	13
pairs per	13
rows correspond	13
acid sequence	13
contributed equally	13
healthy control	13
experimental maps	13
developmental biology	13
sequence length	13
network optimization	13
sequencing depth	13
junctions extract	13
dr motifs	13
chromatin accessibility	13
tumor samples	13
dimensional manifold	13
tandem repeat	13
seq quantification	13
true proportions	13
bulk data	13
pep trpm	13
syndrome coronavirus	13
srs reads	13
classification scores	13
binding proteins	13
relative nmi	13
nuclear norm	13
shading corresponds	13
protein ubiquitination	13
spectral density	13
apob mrna	13
recurring genes	13
effect size	13
scatter plot	13
fold cross	13
evaluated using	13
complex tissues	13
cpg island	13
type classification	13
cancer cells	13
clinical trials	13
use case	13
na na	13
read mapping	13
significantly higher	13
ve ro	13
uniform read	13
riemannian curvature	13
shapley values	13
type proportions	13
deephbv model	13
available data	13
downstream analysis	13
randomly selected	13
severe covid	13
editing site	13
qn pc	13
per sample	13
much higher	13
environmental filtering	13
using different	13
attention weight	13
expression value	13
mol biol	12
common essentials	12
across species	12
ir motifs	12
data used	12
cancer dependency	12
host predictions	12
primary human	12
cc license	12
attention mechanism	12
phase difference	12
normalization methods	12
atu prediction	12
significant associations	12
file containing	12
lung samples	12
subtype classifiers	12
curvature estimation	12
closely related	12
government work	12
technical errors	12
classification general	12
differentially essential	12
hepatocellular carcinoma	12
reference transcriptome	12
cell biology	12
com single	12
stat via	12
within cells	12
titration monotonicity	12
mapping rates	12
general tumor	12
resistant biomolecules	12
myocardial strain	12
posterior distributions	12
per nucleus	12
host sequences	12
log fold	12
authors contributed	12
fi pstat	12
highly conserved	12
see figures	12
cell models	12
gene ontology	12
pmc articles	12
reads per	12
scaling factor	12
gene region	12
protein localization	12
run run	12
tcga cohort	12
gene regulatory	12
clinicaldf testclinicaldf	12
intensive regions	12
human epic	12
cytokine receptor	12
em map	12
expression analysis	12
accession number	12
cancer category	12
gender gender	12
us government	12
peripheral blood	12
also observed	12
small intestine	12
bnwyax uh	12
regulatory motif	12
previous studies	12
major arc	12
text mining	12
major cell	12
intergenic regions	12
gaussian noise	12
expression values	12
highly similar	12
cellular origins	12
relative abundance	12
pstat via	12
human pancreatic	12
genetic dependencies	12
electron microscopy	12
ambient dimension	12
furin site	12
content early	12
consensus modules	12
base pair	12
free tail	12
cancer categories	12
metabolomics data	12
transcription factor	12
editing frequencies	12
squamous cell	12
mrna transcript	12
correction pipelines	12
gene dependency	12
pbmc samples	12
splice site	12
alternative splicing	12
xgboost method	12
regulatory networks	12
environmental gradient	12
edge annotation	12
seq expression	12
global network	12
computational biology	12
phase contrast	12
expression profiling	11
effective gene	11
cancer institute	11
splice junction	11
ms data	11
cardiac cycle	11
see supplementary	11
phage sequence	11
free dna	11
mammalian species	11
atu cluster	11
reconstruction loss	11
university school	11
genomic data	11
differential motif	11
cell segmentation	11
linear regression	11
proteomic changes	11
cardiac motion	11
motif usage	11
box counting	11
sequence similarity	11
seq dataset	11
validation strategy	11
high levels	11
code availability	11
closest point	11
metabarcode data	11
alternate donor	11
sequence coverage	11
sequencing reads	11
frequency variants	11
truth set	11
ucsc genome	11
pstat levels	11
supplementary information	11
genome research	11
washington university	11
dependent genes	11
divergent sequences	11
gene lengths	11
isotropic gaussian	11
global length	11
type specificity	11
marker gene	11
junctions annotate	11
genomics data	11
umap coordinates	11
motion estimates	11
vntr locus	11
candidate formula	11
limited number	11
original dataset	11
parameter set	11
retention time	11
nature genetics	11
marker peaks	11
deletion bps	11
dependency map	11
seq analysis	11
elapsed month	11
error rate	11
nm ps	11
specific signals	11
untargeted metabolomics	11
ccn classification	11
operating characteristic	11
phage genomes	11
gene set	11
usa department	11
uniform distribution	11
homology model	11
genetic variants	11
clustering analysis	11
hq http	11
variational autoencoder	11
density map	11
drug response	11
cell lung	11
degenerate bases	11
specific deconvolution	11
tf binding	11
protein expression	11
negative control	11
infectious potential	11
medcodelist headachecodes	11
variants annotate	11
trajectory data	11
biomedical literature	11
cell biol	11
software package	11
global optimization	11
cell similarity	11
forest classifier	11
dna sequence	11
empirical eigenvalues	11
open access	11
expression matrix	11
human cells	11
acid continuous	11
authors declare	11
differential essentiality	10
power levels	10
clonal segments	10
single molecule	10
normally distributed	10
cell transcriptomics	10
sample variability	10
bnwyax wfsum	10
species dissimilarities	10
similarity relation	10
binding motifs	10
phage sequences	10
host cells	10
experimental tsss	10
human tissues	10
vntr regions	10
bayesian inference	10
ms spectrum	10
width wrap	10
taqman rt	10
bronchoalveolar lavage	10
functional dissimilarity	10
nugent et	10
shah et	10
new cases	10
two refseq	10
vegetation science	10
distinct atus	10
synthetic lethality	10
ns em	10
model using	10
association studies	10
clinically relevant	10
downregulated genes	10
main stem	10
virus genomes	10
two nodes	10
feature importance	10
pathway enrichment	10
cell proliferation	10
date df	10
receiver operating	10
bnwyax eqqvf	10
research allele	10
big data	10
gc content	10
binary matrix	10
found using	10
cell clusters	10
ace spike	10
similar results	10
based prediction	10
importance scores	10
results suggest	10
linear model	10
latent space	10
rna polymerase	10
complex diseases	10
hierarchical clustering	10
bottle embedding	10
top scored	10
regional strain	10
drug reactions	10
wide association	10
epithelial sodium	10
donor usage	10
zzqk xjeg	10
average power	10
transcription factors	10
cfdna samples	10
expression patterns	10
university press	10
su br	10
similarity network	10
donor site	10
complex systems	10
pacbio hifi	10
liquid biopsies	10
figure legends	10
novel junctions	10
wt il	10
cell cycle	10
library preparation	10
mol cell	10
persson et	10
normal direction	10
sequences tcga	10
dissimilarity measures	10
sustained pstat	10
stat response	10
er motifs	10
pdf https	10
recent studies	10
variants within	10
pavoine ricotta	10
louvain clustering	10
model input	10
individual nucleotides	10
lowly expressed	10
expression quantification	10
protein sequence	10
evaluation data	10
mutation status	10
relaxed matching	10
natural language	10
right side	10
islet samples	10
residue match	10
pangenome graphs	10
confidence interval	10
ctd rpd	10
relative subclonal	10
fold induction	10
em bl	10
spectrometry phenomena	10
mononuclear cells	10
hidden markov	10
zhang et	10
barcode data	10
therapeutic targets	10
reference panel	10
one sample	10
pancreatic islets	10
regulatory network	10
based approaches	10
image analysis	10
re gu	10
plot showing	10
lavage fluid	10
gene mrna	10
ai ve	10
per million	10
two cell	10
br ea	10
bnwyax ezh	10
time lags	10
maximal il	10
acceptor site	10
blanc et	10
cancer genes	10
infection rates	10
al iz	10
cell clustering	10
triplex package	10
classification score	10
bmc genomics	10
joint periods	10
genome browser	10
function modules	10
signaling pathways	10
programming model	10
bruijn graph	10
secondary structures	10
supplemental files	10
accessibility profiles	10
ensembl genes	10
variant candidate	10
six clades	10
synthetic biology	10
type clusters	10
upregulated genes	10
distance matrix	9
nat immunol	9
acid type	9
bnwyax wm	9
genome sequence	9
dominant co	9
count matrix	9
inner sum	9
higher proportion	9
bnwyax shsw	9
number alterations	9
previous study	9
cov strains	9
index https	9
cell rep	9
ricotta et	9
network fusion	9
healthy subjects	9
supplementary materials	9
min score	9
alveolar epithelial	9
three datasets	9
biological networks	9
uniform sampling	9
distance metrics	9
exon skipping	9
ci containing	9
intrinsic coordinates	9
chain probability	9
feature vectors	9
information content	9
serous ovarian	9
across cell	9
bnwyax kxhhl	9
odthp http	9
candidate formulae	9
national academy	9
prior knowledge	9
individual cells	9
transcription units	9
different gene	9
rank position	9
synthetic lethal	9
exonic variants	9
zzqk meu	9
data bank	9
junction region	9
genes associated	9
sampling time	9
optimization problem	9
stably expressing	9
bnwyax karn	9
ge ne	9
blood samples	9
amr sas	9
immune response	9
united kingdom	9
international licensereview	9
yang et	9
theme bw	9
human cancers	9
identify genes	9
mean expression	9
factor dominance	9
differentially methylated	9
bnwyax odthp	9
skipping event	9
supplemental table	9
emerging subclone	9
important role	9
genome res	9
protein structure	9
classification heatmap	9
host cell	9
average recall	9
results showed	9
extrinsic approach	9
patient samples	9
tumor dna	9
candidate variant	9
peerthis version	9
female cell	9
radial ess	9
two types	9
genomes project	9
using deep	9
logistic regression	9
missing ref	9
receptor assembly	9
bnwyax assl	9
com acnash	9
time increment	9
infinium ii	9
driver within	9
test sets	9
dimensionality reduction	9
genetic variation	9
compound data	9
afr eas	9
similarity scores	9
magnetic resonance	9
vntr variation	9
public health	9
mapped reads	9
consortium et	9
human cancer	9
patient derived	9
blood mononuclear	9
also showed	9
reference manual	9
induction log	9
red marks	9
blast results	9
embryonic development	9
bnwyax thhr	9
bnwyax hbt	9
training process	9
ii gene	9
cell expression	9
type ii	9
polar map	9
associated diseases	9
pcr test	9
wei shi	9
membrane protein	9
bulk samples	9
real time	9
scanner repeatability	9
linear transformation	9
also calculated	9
human islets	9
visual inspection	9
cleavage site	9
irf protein	9
relevant information	9
johns hopkins	9
positive class	9
indel error	9
chemotherapy prediction	9
averaged across	9
statistical significance	9
time point	9
small number	9
cell distance	9
probe sequences	9
right panel	9
different species	9
eur amr	9
cells stimulated	9
df testtherapydf	9
freely available	9
probe sequence	9
showed significant	9
pol ii	9
preprint mailto	9
window size	9
tandem repeats	9
correction methods	9
small cell	9
cytoplasmic domain	9
deletion formation	9
please place	9
international conference	9
colorectal cancer	9
model performance	9
objective function	9
bnwyax dwirj	9
cancer biology	9
given tcga	9
rpe il	9
red lines	9
distance threshold	9
hla genes	9
mitochondrial disease	9
nonhair cells	9
th cells	9
predicting response	9
points uniformly	9
pstat activation	9
host interactions	9
marks within	9
ciliated cells	9
visualisation package	9
identified using	9
probability map	9
sas afr	9
computer vision	9
san francisco	9
multiplet detection	9
predicted main	9
clustering method	9
standard deviations	9
maximum number	9
rna viruses	9
imd score	9
surface receptor	9
real bulk	9
transcriptomic datasets	9
input sequence	9
sclapa provides	9
cells indicate	9
learning approach	9
frequently contacted	9
pbmc dataset	9
pcr data	9
bar plot	9
hla allele	9
go terms	9
naturally occurring	9
single nucleotide	9
seq reads	9
negative controls	9
use cases	9
structure determination	9
target sequence	9
cited dec	9
quadratic regression	9
reference sequences	9
classification results	9
subclonal tumour	9
dependency scores	9
showed favorable	9
dna replication	9
bnwyax iqbee	9
different annotations	9
language processing	9
data processing	9
default settings	9
immune escape	9
making use	9
virus infection	8
derived xenografts	8
ezh http	8
vntr lengths	8
gbpm score	8
ctd ndo	8
learning rate	8
org package	8
predictive models	8
bifqg http	8
cov mrc	8
old refseq	8
baseline sample	8
human samples	8
initial annotation	8
along mrna	8
quantification accuracy	8
network inference	8
multiplets detected	8
enriched around	8
exon edge	8
poisson distribution	8
medical image	8
scored models	8
highly correlated	8
spike glycoprotein	8
dv glnexus	8
zzqk ld	8
pacific biosciences	8
mbrave platform	8
analytical eigenvalues	8
prokaryotic genomes	8
positive patients	8
stat signaling	8
pancreatic adenocarcinoma	8
denoised sequences	8
dctjj http	8
infection efficiency	8
bnwyax fenjn	8
compound rna	8
zzqk qisc	8
xiamen university	8
somatic mutations	8
ctd jlne	8
four datasets	8
hla class	8
research interests	8
higher confidence	8
similarity measures	8
significant differences	8
puerto rican	8
conditionally essential	8
novel junction	8
point mutations	8
van hateren	8
gp il	8
negative samples	8
curtis index	8
bnwyax htdux	8
biologically relevant	8
ii probes	8
fc log	8
lg unchanged	8
cpg sites	8
unbound cytoplasmic	8
research cohort	8
thermo scientific	8
recent years	8
previously described	8
articles pmc	8
human blood	8
edge annotations	8
wavelet coherence	8
unknown general	8
united states	8
bnwyax jkgi	8
ctd pjd	8
embryo networks	8
clustering results	8
array probes	8
com calculate	8
ace cells	8
methods based	8
genomic positions	8
significantly upregulated	8
grade serous	8
biosciences sequel	8
community dissimilarity	8
change log	8
norm regularization	8
inflammatory cytokines	8
final model	8
trait values	8
shsw http	8
patients prescribed	8
learning algorithms	8
curvature tensor	8
cmaps algorithm	8
tissue types	8
lakshmanan et	8
dashed red	8
genes included	8
new infection	8
assl http	8
data integration	8
unmapped headers	8
individual datasets	8
genomic sequence	8
abundance data	8
bar graph	8
identity thresholds	8
among different	8
infectious diseases	8
analysis reveals	8
vae architectures	8
thhr http	8
randomly sampled	8
pooling module	8
cryptosporidium parvum	8
ethnic groups	8
cprd gold	8
atomic resolution	8
convolutional layer	8
positive samples	8
ctd dguv	8
trained using	8
average number	8
eqqvf http	8
quadratic gradients	8
supervised vae	8
patient tumor	8
bnwyax qc	8
tissue cell	8
ayqe http	8
binding protein	8
disrupted genes	8
pcr primers	8
bisulfite sequencing	8
reactions involving	8
ctd gs	8
generation rna	8
originally reported	8
binding site	8
table containing	8
fold changes	8
sapiens calu	8
three times	8
genetically engineered	8
kxhhl http	8
query sample	8
sequel platform	8
princeton university	8
pdb entries	8
extrinsic differential	8
bnwyax ax	8
bnwyax dctjj	8
bnwyax ayqe	8
input data	8
ms use	8
snp set	8
enzymatic cleft	8
variation across	8
clinical event	8
somatic variants	8
classification performance	8
bnwyax bifqg	8
entry mechanism	8
gradient length	8
delta cells	8
genetic diversity	8
two groups	8
esm http	8
cohort dv	8
gbpm analysis	8
buj http	8
iqbee http	8
kgp cohort	8
may also	8
stat expression	8
ctd lmbav	8
cell reference	8
common genes	8
spike mutations	8
per gene	8
different sizes	8
phage genome	8
hidden subpopulations	8
line encyclopedia	8
partial shapley	8
omics module	8
extrinsic curvature	8
aware models	8
supervised learning	8
strain rate	8
negative feedback	8
research network	8
molecular mechanisms	8
satellite glia	8
wfsum http	8
within bp	8
hebert et	8
reshuffled controls	8
hong kong	8
genomes sequenced	8
ax xh	8
cluster cells	8
associated genes	8
higher expression	8
van der	8
cohort kgp	8
convolution kernels	8
per day	8
cells using	8
cytokine responses	8
virus entry	8
detected multiplets	8
glnexus opt	8
line dpg	8
specific gene	8
mrna target	8
mg ml	8
host environment	8
least two	8
two principal	8
rank assumption	8
cancer data	8
cell composition	8
false discovery	8
cd cd	8
biological sequences	8
hybrid motifs	8
reviews genetics	8
coi barcode	8
specific genes	8
pacbio sequel	8
membrane fusion	8
clustering algorithm	8
data structure	8
infecting viruses	8
different conditions	8
stem cells	8
sample order	8
previously reported	8
nucleotides upstream	8
quantification results	8
ctd str	8
median ccn	8
type annotations	8
prediction models	8
drugcodelist amitriptylinecodes	8
absolute subclonal	8
ooj http	8
top models	7
mckerrow jh	7
de bello	7
cancer analysis	7
parameter values	7
apa isoforms	7
elakatos liquidcna	7
spectral clustering	7
jkgi http	7
normal distribution	7
integrated genomic	7
computational framework	7
gene length	7
nhbe cells	7
computing scalar	7
hopkins university	7
using one	7
factor binding	7
highly expressed	7
times greater	7
cpg islands	7
bottle embeddings	7
state university	7
struct biol	7
acnash rdrugtrajectory	7
image processing	7
ncbi annotation	7
based method	7
cohort variants	7
window length	7
li et	7
beta cell	7
denoising pipeline	7
potential splice	7
resolution cryo	7
subsite residues	7
vntr sequences	7
observational noise	7
high fidelity	7
data integrator	7
rich medium	7
future work	7
st im	7
cell ranger	7
annotation choice	7
also included	7
chlorocebus sabaeus	7
min min	7
comprehensive resource	7
subclonal cells	7
human cell	7
error reduction	7
ctd haw	7
using two	7
dissimilarity index	7
mouse models	7
cprd data	7
vae architecture	7
bat sars	7
flow rate	7
prescription prodcode	7
data points	7
cytokine receptors	7
beta cells	7
convolutional filters	7
tissue type	7
using blast	7
platform difference	7
sodium channels	7
dna barcodes	7
fourier analysis	7
alternate acceptor	7
decision trees	7
significant events	7
zzqk srq	7
binding domain	7
le ng	7
sequence logos	7
four different	7
modifier modules	7
single variant	7
distribution along	7
coherence plot	7
roadmap epigenomics	7
rare cell	7
present study	7
degenerate base	7
intensive sites	7
ctd pj	7
body mass	7
model training	7
mouse apobec	7
ct iv	7
methods using	7
nat biotechnol	7
genes recurrently	7
peak annotation	7
across cancer	7
national institutes	7
models using	7
zzqk iwwe	7
variation matrix	7
cancer dependencies	7
expected number	7
zzqk uwiz	7
rheumatoid arthritis	7
fc lo	7
signaling pathway	7
royal society	7
distribution function	7
time points	7
error rates	7
across populations	7
values across	7
known metabolites	7
subclonal evolution	7
ensembl refseq	7
contour lines	7
high confidence	7
cluster sizes	7
driver mutations	7
sokal sneath	7
counts per	7
inverse relationship	7
bnwyax ymsj	7
ms risk	7
invasive carcinoma	7
lx http	7
bam file	7
methods data	7
length prediction	7
crispr screens	7
bnwyax xh	7
less accurate	7
data represents	7
real data	7
world data	7
tyr motifs	7
prescription records	7
global strain	7
results indicate	7
rafsil rafsil	7
disease associations	7
human disease	7
structure type	7
ctd gyl	7
noise level	7
atlas research	7
direct repeat	7
tumour fraction	7
computational methods	7
synthetic bulk	7
receptor complex	7
set using	7
ha ng	7
significantly different	7
ancestral sequences	7
line mixtures	7
microarray expression	7
ari score	7
native structure	7
alignment quality	7
three methods	7
karn http	7
us states	7
see table	7
expressing wt	7
deepmm method	7
germ cell	7
different batch	7
viral host	7
web browser	7
ctd jel	7
calculate https	7
novel metabolites	7
retention times	7
brain dataset	7
short genes	7
cancer gene	7
frequency pretrained	7
ng th	7
disease types	7
lines using	7
different values	7
learning models	7
standard error	7
htdux http	7
red line	7
nucleotides downstream	7
json format	7
active site	7
much smaller	7
sequences repeat	7
discovery rate	7
profile hidden	7
line dpgs	7
manually curated	7
barcode region	7
data collection	7
practice research	7
min time	7
control sirna	7
first two	7
violin plots	7
sparsity regularization	7
reference sequence	7
ctd jzyin	7
ctd akii	7
end gene	7
corrections applied	7
model based	7
identify potential	7
ctd yrlys	7
average scalar	7
numeric embryo	7
positive control	7
table shows	7
cell entry	7
sample sizes	7
xh http	7
analysis methods	7
evaluated atus	7
reveals genes	7
ct io	7
data distribution	7
arbab et	7
breast invasive	7
messenger rna	7
multiple samples	7
gp ko	7
dashed line	7
ctd crk	7
source repository	7
mtdna deletion	7
user interface	7
modifier methods	7
rate function	7
additional information	7
ctd eix	7
splicing events	7
ctd jmtrf	7
across datasets	7
known cancer	7
distance metric	7
specific prescription	7
first step	7
pretrained model	7
netid algorithm	7
clinical practice	7
pj xm	7
dwirj http	7
allows us	7
statistical tests	7
truncated series	7
dimensional manifolds	7
severe illness	7
targeted gene	7
connected layers	7
jlne http	7
overall secondary	7
viral genome	7
data obtained	7
ymsj http	7
selected multiplets	7
site prediction	7
nat rev	7
biological processes	7
viral genomes	7
circulating tumor	7
feature data	7
nat commun	7
conditions like	7
learning research	7
average score	7
long reads	7
cancer genomics	7
modeling non	7
cell profiling	7
null distribution	7
bnwyax zwnw	7
high number	7
detect multiplets	7
novel cell	7
pdb id	7
blast search	7
see sec	7
place fig	7
mutagenic motifs	7
plasma membrane	7
specific grn	7
sequences used	7
converting enzyme	7
distance fusion	7
experimental ttss	7
cell population	7
dna motifs	7
weighted sum	7
epigenomics consortium	7
intrinsic approach	7
ctd jzbjy	7
ambient coordinates	7
world datasets	7
primary seed	7
statistical computing	7
synthetic datasets	7
distinct cell	7
significant gwas	7
com elakatos	7
last month	7
eas population	7
hla associated	7
protein data	7
different lengths	7
different similarity	7
entry routes	7
negative binomial	7
module identification	7
benchmark analysis	7
tabu search	7
lower values	7
endothelial cells	7
mononucleotide composition	7
experimental em	7
computational tool	7
ub cl	7
genes across	7
data across	7
engineered mouse	7
sequencing technology	7
pep slc	7
ne le	7
cancer subtypes	7
xjeg http	7
segment cns	7
raw fastq	7
protein levels	7
internalisation degradation	7
dashed lines	7
sequences using	7
activation function	7
learning methods	7
significantly lower	6
zzqk nhfw	6
phylogenetic orders	6
fractal dimension	6
gov pmc	6
cd monocytes	6
pangenome graph	6
dna barcoding	6
gender prop	6
spike interaction	6
combat correction	6
gsea reactome	6
es se	6
row names	6
supervised pca	6
sequencing errors	6
rna pol	6
acting elements	6
editing activity	6
mass action	6
cell level	6
command takes	6
score higher	6
batch corrected	6
simulated em	6
highest ccn	6
dna mutation	6
protein fragment	6
mg tablet	6
ctd qaf	6
fastq data	6
will allow	6
dna deletions	6
sun exposure	6
percentage points	6
study design	6
differential gene	6
iff er	6
another type	6
repeat peaks	6
gwas central	6
bl vs	6
cancer therapy	6
reactome pathway	6
interaction non	6
iwwe http	6
compute scalar	6
expression combination	6
bat coronavirus	6
kax http	6
wise scaling	6
mer dosage	6
receptor binding	6
pa http	6
parent ngsc	6
around breakpoints	6
convolutional networks	6
la te	6
ctd pgh	6
johnson syndrome	6
ifm http	6
bps associated	6
viterbi path	6
cell births	6
based algorithm	6
lm http	6
smrt rienrich	6
multiplicative beta	6
ctd gwpe	6
short tandem	6
number values	6
gastrulation dataset	6
obtained using	6
additional clinical	6
cell microscopy	6
mouse tissue	6
crispr cas	6
binomial distribution	6
additional details	6
phirbo also	6
base pairing	6
ri ty	6
prescription prodcodes	6
datasets used	6
core team	6
mouse tissues	6
cumulative distribution	6
similarity metric	6
immune cells	6
inf model	6
comparative analysis	6
gender ami	6
di pbmc	6
fluorescence intensity	6
confidence intervals	6
adaptive learning	6
trait composition	6
ctd cq	6
json file	6
gbp gbp	6
scrnaseq data	6
genomes sampled	6
convolutional noise	6
euclidean pearson	6
majority vote	6
sequence space	6
sequence reads	6
normalized using	6
high cross	6
brain spatial	6
intron length	6
nt ia	6
escherichia coli	6
mrc cells	6
weighted mean	6
contact residues	6
rpe gp	6
oslo af	6
variable importance	6
high correlation	6
bnwyax fojka	6
species diversity	6
ctd iybxb	6
testtherapydf prodcode	6
densely connected	6
refseq database	6
will also	6
mm ammonium	6
analysis showed	6
permutation test	6
lines screened	6
receptor chain	6
woi http	6
subclonal proportion	6
patients type	6
described previously	6
medical history	6
ngsc di	6
therapy data	6
virome dataset	6
either side	6
function module	6
abiotic connection	6
mutational analysis	6
bayes factor	6
weight matrix	6
highly enriched	6
research council	6
target sequences	6
plos comput	6
measured ms	6
empirical distribution	6
illumina infinium	6
irf sirna	6
fic ie	6
population data	6
reported scalar	6
zzqk ifm	6
cis containing	6
negative association	6
bayes factors	6
latex kmc	6
nda junctions	6
fully connected	6
polymerase chain	6
wide profiling	6
pancreatic cancer	6
censor length	6
melissa gymrek	6
str http	6
motifs show	6
dominant subgroup	6
chemotherapy response	6
powell et	6
meu http	6
highly variable	6
state annotations	6
reading frames	6
type composition	6
plasminogen activator	6
markov models	6
ef fic	6
sequence quality	6
somatic copy	6
tested whether	6
qisc http	6
data manifolds	6
hypothetical goal	6
sequencing run	6
surface proteins	6
la tio	6
assessed using	6
spearman correlation	6
window parameter	6
type annotation	6
ace interaction	6
highly accurate	6
mg tablets	6
two series	6
cnuge debar	6
patid unlist	6
nucleotide sequence	6
manual curation	6
first drug	6
com science	6
true indel	6
sulfone compounds	6
independent validation	6
se nt	6
variants associated	6
also called	6
known donor	6
protein interaction	6
number tandem	6
lived species	6
methods sections	6
co ef	6
genome using	6
viral entry	6
models built	6
grch hg	6
pep htr	6
cell syst	6
composite score	6
seq samples	6
true scalar	6
splicing patterns	6
polar subgroups	6
ifit ifit	6
disease module	6
zhou et	6
formula difference	6
different methods	6
higher accuracy	6
euclidean distances	6
immune cell	6
coi sequences	6
seq profiles	6
article pii	6
healthy individuals	6
influenza viruses	6
local neighborhoods	6
ms fragmentation	6
sanger dataset	6
gu la	6
structural variation	6
multivariable linear	6
tracking data	6
genomic regions	6
position ref	6
module detection	6
biomedical imaging	6
microscopy data	6
life sciences	6
cancer peaks	6
hypothalamus data	6
seven similarity	6
njch http	6
across diverse	6
respiratory distress	6
query samples	6
numeric embryos	6
known essential	6
stem cell	6
snp figure	6
cell membrane	6
viruses infecting	6
one representative	6
relative incompatibility	6
ctd xd	6
prokaryotic species	6
ion peaks	6
assess whether	6
also tested	6
ctd qanj	6
region bias	6
methylation data	6
raw counts	6
source software	6
triplex dna	6
multiple sequence	6
silac media	6
cytokine stimulation	6
omics data	6
cell transcriptomic	6
individual cell	6
effective length	6
network structure	6
size filtering	6
calu cells	6
summary statistics	6
ng ml	6
jqzsb http	6
large scale	6
consecutive genes	6
reference rna	6
least squares	6
previously shown	6
short reads	6
re la	6
mrna processing	6
cancer subtype	6
small membrane	6
shared total	6
kras mutation	6
gyl http	6
bnwyax rxwn	6
exact test	6
omic module	6
uwiz http	6
molecular features	6
xgboost approach	6
rsubread annotations	6
er en	6
standard errors	6
may lead	6
unphosphorylated stat	6
control samples	6
flagged sequences	6
nsp nsp	6
learning framework	6
data manifold	6
nucleotides surrounding	6
fuzzy matching	6
wildtype shown	6
cardiac mechanics	6
gut microbiome	6
default splice	6
cell associations	6
indicate significance	6
read alignment	6
data types	6
national cancer	6
curvature estimate	6
ctd wqpb	6
measured cn	6
detecting multiplets	6
nervous system	6
fixed neighborhood	6
ranking lists	6
normal cells	6
tumor rna	6
penalty parameter	6
reasonably distanced	6
reference genomes	6
nearest neighbour	6
recent refseq	6
elegans embryo	6
step bleaching	6
zwnw http	6
wise majority	6
experimental results	6
pstat kinetics	6
based indices	6
closest points	6
mappability analysis	6
adverse drug	6
ctd jqzsb	6
alignment file	6
locus length	6
chromatin states	6
im ila	6
community diversity	6
relevant gene	6
prokaryotic sequences	6
analysis using	6
genomic profiles	6
international journal	6
igv snapshot	6
idt af	6
bnwyax votga	6
per nuclei	6
variants identified	6
novel virus	6
used candi	6
gene expressions	6
cytoplasmic phosphorylated	6
taxonomic levels	6
investigated whether	6
novel species	6
available via	6
dependency profiles	6
mrna targets	6
selective dependencies	6
quality genomes	6
labelled cancer	6
ctd cclhp	6
eqtl mapping	6
tablet oral	6
learn cell	6
go similarity	6
also provide	6
ie nt	6
zzqk njch	6
purity estimation	6
sabaeus vero	6
sequences flagged	6
diseases like	6
annotation contains	6
nearest neighbor	6
ncbi annotations	6
strain values	6
rxwn http	6
genomic analysis	6
sirna irf	6
well suited	6
rna splicing	6
levels induced	6
classification profile	6
data based	6
average precision	6
total il	6
existing methods	6
splice variants	6
stat levels	6
seed nodes	6
ef fe	6
sample variation	6
root ganglion	6
gbp stat	6
lecif score	6
ld http	6
line treatment	6
end reads	6
phylogenetic tree	6
ctd lyx	6
dorsal root	6
consistently high	6
allele matching	6
cas targeting	6
human islet	6
random forests	6
without bias	6
chem inf	6
contingency table	6
significant module	6
relative contribution	6
spacer length	6
correlation analysis	6
bars indicate	6
final output	6
solid red	6
schematic representation	6
toy manifolds	6
sigma sigma	6
canberra index	6
tissue labels	6
intramolecular triplex	6
unchanged regulated	6
receptor complexes	6
two distinct	6
repeated times	6
jak stat	6
liver cancer	6
loop structure	6
values correspond	6
difference image	6
representative experiment	6
experimental techniques	6
re interaction	6
bp long	6
biomedical research	6
results show	6
rm al	6
com cnuge	6
better performance	6
liver extract	6
gtf file	6
ila ri	6
known cell	6
broad range	6
aligned reads	6
nucleotide sequences	6
analysis shows	6
ovarian carcinoma	6
canonical splicing	6
ref https	6
fenjn http	6
statistical methods	6
biological chemistry	6
data structures	6
vae encoding	6
ms multi	6
linear gradients	6
multivariable model	6
new potential	6
fe ct	6
du ct	6
results demonstrate	6
genomic concordance	6
search tool	6
hypothalamus mammary	6
significantly larger	6
forming motifs	6
relatively low	6
left side	6
sashimi plot	6
candidate annotation	6
selected genes	6
mock treated	6
chain reaction	6
science article	6
complementation factor	6
cell tracking	6
counting dimension	6
tumor data	6
normalization method	6
content eaat	6
zzqk rjuf	6
ctd hn	6
braukmann et	6
conditional genetic	6
microarray genes	6
umi counts	5
virus reads	5
huang et	5
room temperature	5
data mining	5
full set	5
order terms	5
nonrepetitive regions	5
durbin et	5
sanger institutes	5
testing dataset	5
terwilliger tc	5
binomial test	5
determine whether	5
cyclical fluctuations	5
exonic bases	5
given species	5
functional relationships	5
tumour cell	5
receptor molecules	5
genomic position	5
genomics level	5
also removed	5
optimum expression	5
transmitted light	5
massively parallel	5
likely due	5
current scrnaseq	5
derived metabolites	5
deepmm achieved	5
using combat	5
predicted atu	5
xl http	5
clustering algorithms	5
high positive	5
beta values	5
methylation profiles	5
structure overlap	5
existing iao	5
east asian	5
pacific symposium	5
statistical power	5
chat bs	5
hg amr	5
human orthologous	5
average bf	5
cells born	5
human tissue	5
simulated maps	5
sfn http	5
multiplet annotations	5
also enriched	5
subclonal scnas	5
gene lists	5
rpd http	5
nominal tumor	5
ieee transactions	5
homologous sequences	5
using single	5
correction method	5
average values	5
en es	5
gse dataset	5
clinical decision	5
dguv http	5
stat identity	5
two species	5
kegg pathway	5
functional ecology	5
kl http	5
th differentiation	5
systemic lupus	5
cell shape	5
python package	5
greater number	5
relatively flat	5
shared genes	5
plots show	5
island status	5
lisinopril atenolol	5
points reported	5
pjd http	5
pair transformation	5
fractional methylation	5
cell identity	5
singular value	5
four scrna	5
dunn index	5
motifs compared	5
strain estimation	5
candidate position	5
specific error	5
zzqk iq	5
orthologous genes	5
kendall tau	5
reference panels	5
ifz http	5
rpd https	5
overall accuracy	5
biochemical connection	5
methylation studies	5
high performance	5
host response	5
frankfurt strain	5
loop reference	5
learning association	5
series analysis	5
norm score	5
expression omnibus	5
batch effect	5
immunotherapy targets	5
qaf http	5
atom structure	5
special characters	5
see data	5
ratio estimates	5
classifier using	5
ari scores	5
mirror repeats	5
cells per	5
high throughput	5
numeric labels	5
positive rate	5
com tianyu	5
silhouette width	5
legends figure	5
large ambient	5
train set	5
seq gene	5
mapped fragments	5
tolerated mutations	5
heatmap representation	5
yulf http	5
unstable segments	5
molecular networking	5
qanj http	5
circumferential ess	5
labeled tumor	5
made use	5
significance threshold	5
editing efficiency	5
significance level	5
simulated spatial	5
next step	5
allow us	5
smith hc	5
complex stabilization	5
ctd oc	5
target genes	5
trabecular meshwork	5
parameter tuning	5
four samples	5
high scores	5
bonferroni correction	5
learning cell	5
residues fav	5
done using	5
string database	5
left panel	5