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 Rv1084/-:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv1274/lprB	(cc=0.5195)	info on Rv1274/lprB
Rv3265c/wbbL1	(cc=0.5161)	info on Rv3265c/wbbL1
Rv0203/-	(cc=0.5105)	info on Rv0203/-
Rv0841/-	(cc=0.5101)	info on Rv0841/-
Rv0006/gyrA	(cc=0.5026)	info on Rv0006/gyrA
Rv0449c/-	(cc=0.4947)	info on Rv0449c/-
Rv0381c/-	(cc=0.4818)	info on Rv0381c/-
Rv3586/-	(cc=0.4807)	info on Rv3586/-
Rv3557c/-	(cc=0.4739)	info on Rv3557c/-
Rv3037c/-	(cc=0.4656)	info on Rv3037c/-

Correlation of Rv1084/- with Rv1274/lprB

Normalized LFCs for Rv1084/-:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv1084/-	Rv1274/lprB
Fe_supp_jason_reseq	-0.578	1.339
low_pH_jason_reseq	0.0	0.0
NO_jason_reseq	0.74	0.362
B6_jason_reseq	0.412	0.0
MHCII_jason_reseq	0.255	1.234
Isoniazid02	-0.409	-0.534
Rifampicin4	0.122	-2.328
Ethambutol3	0.129	0.496
Meropenem3	0.913	1.126
Vancomycin16	0.048	-1.632
Rv2680_day32	-1.272	0.249
H37Rv_KO_MarP	0.711	1.782
hypoxia_3wks	-0.207	0.443
hypoxia_6wks	-0.276	-1.969
glycerol	0.269	-2.411
cholesterol	-1.305	-2.343
AJ	-0.708	-1.171
Bibs02	0.575	-2.958
Bibs02c	-0.658	-0.523
BL6	-0.717	-2.023
BL6a	-0.641	-3.204
BXD01	-0.926	-1.555
BXD010	-0.426	-2.072
BXD011	-0.776	-1.711
BXD03	-1.155	-2.187
BXD04	-0.83	-1.877
BXD05	-0.694	-1.921
BXD06	-0.829	-2.159
BXD07	-0.809	-2.24
BXD08	-1.265	-2.151
BXD09	-1.117	-2.133
CAST	-1.163	-3.495
CCcont	-0.442	-1.682
DS01	-0.515	-2.82
DS02	-0.35	-3.104
DS04	0.35	-2.769
DS0c	0.014	-3.095
GP01	0.184	-1.597
GP02	-0.011	-0.42
GP0c	-0.273	-1.645
NOD	-0.472	-3.409
NZO	-0.74	-0.556
PWK	-1.056	-2.977
H37Rv_KO_CtpC	-0.651	0.652
H37Rv_KO_CtpD	0.154	-2.049
H37Rv_KO_Rv1272	-0.495	-2.281
H37Rv_KO_SugABC	-0.831	-1.053
H37Rv_KO_MbtN	-0.509	-1.161
Trans05	-1.096	-1.865
macrophage_unactivated	-0.514	-1.31
IL1	-0.133	-2.011
Rapamycin	-0.353	-2.081
Tcell	-0.863	-0.629
GMCSF	0.143	-1.79
IFNab	-0.529	-2.05
IFNg	0.257	-1.812
IFNg_GMCSF1	-0.962	-1.7
Rv1432_day32	0.463	0.0
Rv1565c_day32	-0.498	-0.894
secA2_input	0.108	-0.291
delta_Rv3594	0.038	-0.402
delta_Rv3717	0.121	-0.979
delta_Rv3811	-0.076	-1.056
delta_Rv0954	-0.494	-1.292
PonA1	0.111	-0.979
EccD1_KO	0.987	3.164
EspI_KO	0.2	2.396
PE35_KO	0.169	2.689
PPE68_KO	-0.154	3.66
glycerol2	-0.573	-1.016
lignocerate	-0.849	-1.835
oleate	-1.099	-2.912
phosphatidylcholine	-0.661	-0.31
acetate	-0.482	-0.951
glucAc	-0.219	-4.153
Rv0950ko	0.639	2.877
Rv1096ko	0.914	3.278
Rv3684ko	0.305	4.087
delta_otsA_trehalose	0.721	2.212