a с STARR-seq construct ORF hkCP or dCP Enhancer ORF hkCP S2 STARR-seq 1,822 4,134 (32%) 3,586 pA site TCT TATA box MTE DPE Inr -AAAAA dCP S2 STARR-seq d dCP S2 STARR-seq enrichment (log₂) • NO b CG33936 CG33937-18473- Fold change .<2x hkCP and dCP 2x-4x hkCP.2x-4x dCP >4x hkCP >4x dCP hkCP S2 STARR-seq enrichment (log₂) Enr. rep2 (log₂) CG8129 Fps85D- Enr. rep2 (log₂) hkCP S2 STARR-seq hkCP S2 STARR-seq dCP S2 STARR-seq Enr. rep1 (log₂) dCP S2 STARR-seq Enr. rep1 (log,) e Per cent positive per tested 60 Luciferase construct hkCP luciferase 100121/24 80 40- 20- 1/24 LuciferasepA site---- Enhancer candidate hkCP enhancer Or85 CG9356 CG8132 2/12 CG34117 CG81354 RpL34b dop hkCP DCP 10/12 6/7 6/7 dCP luciferase enhancer Shared enhancer Figure 1 Distinct sets of enhancers activate transcription from the hkCP and dCP in S2 cells. a, STARR-seq set-up using the hkCP housekeeping (RpS12; purple) and dCP developmental core promoters (Drosophila synthetic core promoter (DSCP); brown) b, Genome browser screenshot depicting STARR-seq tracks for both core promoters. c, Overlap of hkCP and dCP enhancers. d, hkCP versus dCP STARR-seq enrichments at enhancers (insets show enrichment for replicates (Enr. rep) 1 versus 2 for hkCP and dCP; dCP data reanalysed from ref. 12). e, hkCP, dCP or shared enhancers that activate luciferase (>1.5-fold and P<0.05 (one-sided t-test); n = 3; Extended Data Figs 3 and 5) from hkCP (purple) or dCP (brown; numbers show positive/tested).
a с STARR-seq construct ORF hkCP or dCP Enhancer ORF hkCP S2 STARR-seq 1,822 4,134 (32%) 3,586 pA site TCT TATA box MTE DPE Inr -AAAAA dCP S2 STARR-seq d dCP S2 STARR-seq enrichment (log₂) • NO b CG33936 CG33937-18473- Fold change .<2x hkCP and dCP 2x-4x hkCP.2x-4x dCP >4x hkCP >4x dCP hkCP S2 STARR-seq enrichment (log₂) Enr. rep2 (log₂) CG8129 Fps85D- Enr. rep2 (log₂) hkCP S2 STARR-seq hkCP S2 STARR-seq dCP S2 STARR-seq Enr. rep1 (log₂) dCP S2 STARR-seq Enr. rep1 (log,) e Per cent positive per tested 60 Luciferase construct hkCP luciferase 100121/24 80 40- 20- 1/24 LuciferasepA site---- Enhancer candidate hkCP enhancer Or85 CG9356 CG8132 2/12 CG34117 CG81354 RpL34b dop hkCP DCP 10/12 6/7 6/7 dCP luciferase enhancer Shared enhancer Figure 1 Distinct sets of enhancers activate transcription from the hkCP and dCP in S2 cells. a, STARR-seq set-up using the hkCP housekeeping (RpS12; purple) and dCP developmental core promoters (Drosophila synthetic core promoter (DSCP); brown) b, Genome browser screenshot depicting STARR-seq tracks for both core promoters. c, Overlap of hkCP and dCP enhancers. d, hkCP versus dCP STARR-seq enrichments at enhancers (insets show enrichment for replicates (Enr. rep) 1 versus 2 for hkCP and dCP; dCP data reanalysed from ref. 12). e, hkCP, dCP or shared enhancers that activate luciferase (>1.5-fold and P<0.05 (one-sided t-test); n = 3; Extended Data Figs 3 and 5) from hkCP (purple) or dCP (brown; numbers show positive/tested).
Biochemistry
9th Edition
ISBN:9781319114671
Author:Lubert Stryer, Jeremy M. Berg, John L. Tymoczko, Gregory J. Gatto Jr.
Publisher:Lubert Stryer, Jeremy M. Berg, John L. Tymoczko, Gregory J. Gatto Jr.
Chapter1: Biochemistry: An Evolving Science
Section: Chapter Questions
Problem 1P
Related questions
Question
100%
Can you please explain this figure? Controls, experiments performed, conclusions and how the data supports them, theoretical basis for experiments etc... The figure is taken from the article https://www.nature.com/articles/nature13994 in case context is needed
Transcribed Image Text:a
STARR-seq construct
ORF
hkCP
or
dCP
Enhancer
ORF
hkCP S2
STARR-seq
1,822
4,134 (32%) 3,586
pA site
TCT
TATA box MTE DPE
Inr
dCP S2
STARR-seq
AAAAA
d
dCP S2 STARR-seq
enrichment (log₂)
6
b
-2
CG33936
Fold change
<2x hkCP and dCP
2x-4x hkCP.2x-4x dCP
.>4x hkCP •>4x dCP
0
4
hkCP S2 STARR-seq
enrichment (log₂)
CG33937
2
6
Enr. rep2 (log₂)
CG18473
CG8129
Enr. rep2 (log₂)
Fps85D-
hkCP S2 STARR-seq
hkCP S2 STARR-seq
dCP S2 STARR-seq
Enr. rep1 (log₂)
dCP S2 STARR-seq
Enr. rep1 (log₂)
e
Per cent positive
per tested
40
20
0
Luciferase-pA site
hkCP luciferase
100
80
60
Luciferase construct
121/24
1/24
hkCP
enhancer
Or85f
2/12
dCP
CG34117
CG8132
enhancer
CG81354
CG9356
RpL34b
Enhancer
candidate
dCP luciferase
10/12 6/7 6/7
|||
hkCP DCP
or
are Si
Figure 1 Distinct sets of enhancers activate
transcription from the hkCP and dCP in S2 cells.
a, STARR-seq set-up using the hkCP housekeeping
(RpS12; purple) and dCP developmental core
promoters (Drosophila synthetic core promoter
(DSCP)¹¹; brown) b, Genome browser screenshot
depicting STARR-seq tracks for both core
promoters. c, Overlap of hkCP and dCP enhancers.
d, hkCP versus dCP STARR-seq enrichments
at enhancers (insets show enrichment for replicates
(Enr. rep) 1 versus 2 for hkCP and dCP; dCP
data reanalysed from ref. 12). e, hkCP, dCP or
shared enhancers that activate luciferase
(>1.5-fold and P<0.05 (one-sided t-test); n = 3;
Extended Data Figs 3 and 5) from hkCP (purple)
or dCP (brown; numbers show positive/tested).
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