TnSeqCorr

• These are correlations of TnSeq responses across 82 experimental conditions.
• LFCs (log2-fold-changes) were computed for each gene in each condition relative to a relevant control condition (e.g. H37Rv grown on 7H9).
• The LFCs were normalized by dividing by the standard deviation for each condition. (so roughly, |LFC|>2 are the outliers, i.e. tails of the distribution)
• Note that essential genes often have LFCs around 0.
• Data for some genes is not available if they have less than 3 TA sites, or the dynamic range of LFCs is less than 2.0 across all conditions. (This is the case for many essential genes.)
• 'leverage' on each plot is a statistical score that indicates how much the regression is influenced by a few outlier points; the traditional threshold is indicated on the plots (3p/n, which is about 0.07 for this dataset), but in practice, cases with leverage > ~0.2 seem to be the least reliable (most misleading) correlation coefficients.

Top 10 genes with highest correlation to Rv3636/-:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv0446c/-	(cc=0.474)	info on Rv0446c/-
Rv0926c/-	(cc=0.4461)	info on Rv0926c/-
Rv0557/mgtA	(cc=0.4454)	info on Rv0557/mgtA
Rv3739c/PPE67	(cc=0.4134)	info on Rv3739c/PPE67
Rv0811c/-	(cc=0.4134)	info on Rv0811c/-
Rv1191/-	(cc=0.4036)	info on Rv1191/-
Rv3561/fadD3	(cc=0.4023)	info on Rv3561/fadD3
Rv3521/-	(cc=0.3937)	info on Rv3521/-
Rv0117/oxyS	(cc=0.3881)	info on Rv0117/oxyS
Rv3761c/fadE36	(cc=0.3846)	info on Rv3761c/fadE36

Correlation of Rv3636/- with Rv0446c/-

Normalized LFCs for Rv3636/-:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv3636/-	Rv0446c/-
Fe_supp_jason_reseq	0.559	1.051
low_pH_jason_reseq	-0.032	0.186
NO_jason_reseq	1.391	-0.142
B6_jason_reseq	0.093	-0.178
MHCII_jason_reseq	0.991	0.678
Isoniazid02	0.288	-0.198
Rifampicin4	0.707	-0.1
Ethambutol3	0.136	0.202
Meropenem3	1.744	0.075
Vancomycin16	0.875	0.072
Rv2680_day32	-2.621	-0.628
H37Rv_KO_MarP	0.831	0.392
hypoxia_3wks	0.315	0.339
hypoxia_6wks	-0.453	-0.169
glycerol	1.059	-0.465
cholesterol	-0.057	-0.203
AJ	0.977	-0.183
Bibs02	-0.766	-0.673
Bibs02c	-0.418	0.023
BL6	-0.488	0.684
BL6a	-0.284	-0.168
BXD01	0.873	-0.014
BXD010	0.852	-0.139
BXD011	0.591	-0.234
BXD03	-0.509	-0.284
BXD04	-0.012	0.585
BXD05	0.331	0.541
BXD06	0.349	-0.029
BXD07	0.864	0.171
BXD08	0.585	0.036
BXD09	0.336	0.233
CAST	-0.232	-0.224
CCcont	-0.231	-0.227
DS01	0.195	-0.344
DS02	0.274	-1.185
DS04	0.357	-0.5
DS0c	-0.385	-0.385
GP01	-0.386	-0.175
GP02	0.451	0.672
GP0c	0.798	-0.119
NOD	-1.362	-1.103
NZO	1.445	0.022
PWK	1.017	0.053
H37Rv_KO_CtpC	0.246	-0.755
H37Rv_KO_CtpD	0.36	0.958
H37Rv_KO_Rv1272	0.909	-0.103
H37Rv_KO_SugABC	0.206	0.613
H37Rv_KO_MbtN	0.407	0.276
Trans05	1.694	0.021
macrophage_unactivated	-0.041	0.224
IL1	0.62	0.021
Rapamycin	0.979	0.322
Tcell	0.492	0.094
GMCSF	0.301	0.349
IFNab	-0.248	0.378
IFNg	0.853	1.09
IFNg_GMCSF1	1.295	0.135
Rv1432_day32	-0.18	-0.498
Rv1565c_day32	0.329	0.374
secA2_input	-0.675	-0.518
delta_Rv3594	-1.104	-1.002
delta_Rv3717	-0.106	-0.638
delta_Rv3811	-0.462	-0.836
delta_Rv0954	0.49	0.631
PonA1	-0.021	-0.384
EccD1_KO	-0.335	-0.191
EspI_KO	0.251	0.248
PE35_KO	0.172	-0.073
PPE68_KO	0.096	-0.582
glycerol2	0.097	-0.011
lignocerate	-0.077	0.253
oleate	0.62	-0.101
phosphatidylcholine	0.06	-0.066
acetate	-0.432	-0.482
glucAc	-0.582	-0.339
Rv0950ko	0.938	0.434
Rv1096ko	2.129	0.694
Rv3684ko	1.634	0.442
delta_otsA_trehalose	-1.138	-0.645