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 Rv3833/-:

update plot	correlation	link to info on gene
Rv1505c/-	(cc=0.4624)	info on Rv1505c/-
Rv2762c/-	(cc=0.4583)	info on Rv2762c/-
Rv1607/chaA	(cc=0.4522)	info on Rv1607/chaA
Rv0078/-	(cc=0.43)	info on Rv0078/-
Rv0078A/-	(cc=0.4271)	info on Rv0078A/-
Rv1980c/mpt64	(cc=0.4206)	info on Rv1980c/mpt64
Rv1176c/-	(cc=0.4175)	info on Rv1176c/-
Rv3126c/-	(cc=0.4086)	info on Rv3126c/-
Rv1517/-	(cc=0.4043)	info on Rv1517/-
Rv1889c/-	(cc=0.397)	info on Rv1889c/-

Correlation of Rv3833/- with Rv1176c/-

Normalized LFCs for Rv3833/-:
(description and provenance of datasets)

	Rv3833/-	Rv1176c/-
Fe_supp_jason_reseq	-0.461	-0.128
low_pH_jason_reseq	-0.823	0.403
NO_jason_reseq	0.181	-0.874
B6_jason_reseq	-0.166	-1.18
MHCII_jason_reseq	-0.627	-0.597
Isoniazid02	-0.631	-0.924
Rifampicin4	-0.246	0.934
Ethambutol3	-0.04	-1.066
Meropenem3	-0.896	-1.04
Vancomycin16	-0.21	-0.082
Rv2680_day32	0.918	0.947
H37Rv_KO_MarP	0.773	0.662
hypoxia_3wks	-0.283	0.506
hypoxia_6wks	0.017	-0.142
glycerol	0.146	0.325
cholesterol	-0.856	0.168
AJ	-0.993	0.138
Bibs02	0.323	-0.24
Bibs02c	-0.555	-0.065
BL6	-0.668	0.699
BL6a	0.743	1.045
BXD01	0.344	0.882
BXD010	1.408	0.051
BXD011	0.353	0.855
BXD03	0.467	0.944
BXD04	0.601	1.493
BXD05	0.821	0.874
BXD06	0.461	0.784
BXD07	0.552	1.613
BXD08	0.667	1.004
BXD09	0.72	1.194
CAST	0.374	0.584
CCcont	-0.547	0.886
DS01	0.135	0.274
DS02	-0.772	-0.468
DS04	-2.361	-1.181
DS0c	-0.745	0.192
GP01	-0.16	1.456
GP02	-0.295	-0.159
GP0c	-0.54	0.266
NOD	3.093	1.411
NZO	-1.396	-0.559
PWK	-0.101	-0.061
H37Rv_KO_CtpC	-0.362	0.451
H37Rv_KO_CtpD	1.105	1.514
H37Rv_KO_Rv1272	-0.64	1.605
H37Rv_KO_SugABC	-1.444	-0.304
H37Rv_KO_MbtN	1.253	0.665
Trans05	1.186	0.14
macrophage_unactivated	0.761	0.287
IL1	0.59	0.039
Rapamycin	0.43	0.964
Tcell	0.13	0.44
GMCSF	1.117	0.388
IFNab	0.992	0.831
IFNg	0.473	0.457
IFNg_GMCSF1	0.578	-0.063
Rv1432_day32	0.074	-0.365
Rv1565c_day32	-0.351	0.054
secA2_input	1.271	-0.351
delta_Rv3594	-0.782	0.392
delta_Rv3717	-0.284	0.0
delta_Rv3811	-0.296	-0.464
delta_Rv0954	0.464	0.846
PonA1	-0.097	0.654
EccD1_KO	0.737	-0.158
EspI_KO	-1.352	0.476
PE35_KO	-0.615	-0.035
PPE68_KO	-0.346	0.256
glycerol2	-0.9	0.326
lignocerate	-1.335	-0.049
oleate	-0.136	0.62
phosphatidylcholine	-0.878	0.412
acetate	0.163	-0.308
glucAc	-1.922	-0.707
Rv0950ko	0.274	0.202
Rv1096ko	0.615	-0.244
Rv3684ko	0.393	0.249
delta_otsA_trehalose	1.353	-0.419