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 Rv3087/-:

update plot	correlation	link to info on gene
Rv1135c/PPE16	(cc=0.5028)	info on Rv1135c/PPE16
Rv0992c/-	(cc=0.4877)	info on Rv0992c/-
Rv1969/mce3D	(cc=0.4801)	info on Rv1969/mce3D
Rv1071c/echA9	(cc=0.4784)	info on Rv1071c/echA9
Rv2287/yjcE	(cc=0.4766)	info on Rv2287/yjcE
Rv3180c/-	(cc=0.462)	info on Rv3180c/-
Rv1735c/-	(cc=0.4451)	info on Rv1735c/-
Rv0687/-	(cc=0.4407)	info on Rv0687/-
Rv3056/dinP	(cc=0.4304)	info on Rv3056/dinP
Rv1356c/-	(cc=0.4296)	info on Rv1356c/-

Correlation of Rv3087/- with Rv1356c/-

Normalized LFCs for Rv3087/-:
(description and provenance of datasets)

	Rv3087/-	Rv1356c/-
Fe_supp_jason_reseq	-1.351	0.805
low_pH_jason_reseq	-1.103	-0.214
NO_jason_reseq	0.176	-0.478
B6_jason_reseq	-0.435	0.18
MHCII_jason_reseq	-0.358	0.023
Isoniazid02	0.074	1.425
Rifampicin4	1.118	0.217
Ethambutol3	-0.109	1.228
Meropenem3	0.728	0.12
Vancomycin16	0.414	0.414
Rv2680_day32	0.325	-0.561
H37Rv_KO_MarP	0.313	-0.047
hypoxia_3wks	-0.989	0.291
hypoxia_6wks	-1.029	0.299
glycerol	-0.067	-0.705
cholesterol	-0.019	-0.077
AJ	-0.237	-0.187
Bibs02	-1.111	-0.024
Bibs02c	-0.183	0.182
BL6	-0.155	-0.066
BL6a	-0.364	0.352
BXD01	-0.47	-0.087
BXD010	-0.855	-0.158
BXD011	-0.982	0.111
BXD03	-0.347	-0.547
BXD04	-0.358	0.298
BXD05	-0.473	-0.47
BXD06	-0.78	-0.107
BXD07	-0.794	-0.56
BXD08	0.147	-0.243
BXD09	-0.759	0.171
CAST	-0.853	0.0
CCcont	-0.682	-0.418
DS01	-0.207	-0.125
DS02	0.583	-0.236
DS04	0.215	0.814
DS0c	0.096	0.289
GP01	-0.647	0.689
GP02	-0.068	1.014
GP0c	-0.096	0.0
NOD	0.249	0.696
NZO	-0.12	0.026
PWK	-0.637	0.026
H37Rv_KO_CtpC	0.507	0.271
H37Rv_KO_CtpD	-0.325	0.225
H37Rv_KO_Rv1272	-0.175	0.555
H37Rv_KO_SugABC	0.013	1.183
H37Rv_KO_MbtN	-0.502	-1.266
Trans05	0.557	1.178
macrophage_unactivated	-0.208	1.048
IL1	-1.284	-3.601
Rapamycin	-1.418	-2.704
Tcell	1.166	4.259
GMCSF	-1.378	-3.057
IFNab	-1.179	-2.875
IFNg	-0.297	-2.061
IFNg_GMCSF1	-0.207	-1.741
Rv1432_day32	-0.383	-0.172
Rv1565c_day32	0.896	-1.717
secA2_input	0.762	-0.7
delta_Rv3594	0.127	0.323
delta_Rv3717	0.374	-0.107
delta_Rv3811	0.626	0.586
delta_Rv0954	0.521	0.509
PonA1	0.496	0.159
EccD1_KO	0.217	0.704
EspI_KO	0.157	0.841
PE35_KO	-0.268	0.624
PPE68_KO	-0.074	0.685
glycerol2	-0.503	-0.024
lignocerate	-0.108	0.1
oleate	-0.493	0.184
phosphatidylcholine	-0.176	0.246
acetate	-0.256	0.028
glucAc	-0.282	-0.289
Rv0950ko	-0.944	-0.042
Rv1096ko	0.133	-0.721
Rv3684ko	-0.187	-0.783
delta_otsA_trehalose	-0.042	0.814