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 Rv2778c/-:

update plot	correlation	link to info on gene
Rv2275/-	(cc=0.5281)	info on Rv2275/-
Rv0844c/narL	(cc=0.5199)	info on Rv0844c/narL
Rv0260c/-	(cc=0.5162)	info on Rv0260c/-
Rv2809/-	(cc=0.5132)	info on Rv2809/-
Rv2481c/-	(cc=0.4888)	info on Rv2481c/-
Rv1583c/-	(cc=0.4835)	info on Rv1583c/-
Rv1504c/-	(cc=0.479)	info on Rv1504c/-
Rv1167c/-	(cc=0.4756)	info on Rv1167c/-
Rv1548c/PPE21	(cc=0.4716)	info on Rv1548c/PPE21
Rv2818c/-	(cc=0.466)	info on Rv2818c/-

Correlation of Rv2778c/- with Rv0844c/narL

Normalized LFCs for Rv2778c/-:
(description and provenance of datasets)

	Rv2778c/-	Rv0844c/narL
Fe_supp_jason_reseq	0.668	-0.821
low_pH_jason_reseq	0.517	-0.885
NO_jason_reseq	-0.087	-0.798
B6_jason_reseq	-0.436	-1.434
MHCII_jason_reseq	-0.471	-1.717
Isoniazid02	-0.291	-0.1
Rifampicin4	-0.046	0.208
Ethambutol3	-0.251	1.001
Meropenem3	-0.732	0.189
Vancomycin16	-0.854	-0.342
Rv2680_day32	-2.125	0.584
H37Rv_KO_MarP	0.062	0.126
hypoxia_3wks	0.267	-0.167
hypoxia_6wks	0.079	-0.334
glycerol	0.569	1.508
cholesterol	-0.068	0.542
AJ	0.413	0.509
Bibs02	-0.971	-0.719
Bibs02c	-1.384	-0.943
BL6	0.865	1.836
BL6a	0.306	1.204
BXD01	0.507	0.829
BXD010	0.37	0.842
BXD011	0.447	1.187
BXD03	-0.051	1.108
BXD04	0.374	1.469
BXD05	1.071	0.771
BXD06	1.063	0.426
BXD07	0.951	0.737
BXD08	1.473	1.32
BXD09	0.809	1.096
CAST	-0.367	0.282
CCcont	0.794	1.334
DS01	0.106	0.224
DS02	0.266	-0.191
DS04	-0.752	-0.17
DS0c	-1.185	-0.358
GP01	0.563	1.085
GP02	-0.072	2.145
GP0c	-0.651	1.153
NOD	-2.11	-0.884
NZO	-0.056	0.337
PWK	-0.608	-0.254
H37Rv_KO_CtpC	1.184	1.893
H37Rv_KO_CtpD	0.134	1.565
H37Rv_KO_Rv1272	1.414	2.107
H37Rv_KO_SugABC	-1.521	1.083
H37Rv_KO_MbtN	2.179	1.304
Trans05	0.036	1.91
macrophage_unactivated	0.483	0.707
IL1	-1.121	0.507
Rapamycin	-0.973	0.319
Tcell	-0.254	0.417
GMCSF	0.768	1.127
IFNab	-0.115	0.753
IFNg	1.077	0.214
IFNg_GMCSF1	-0.606	0.277
Rv1432_day32	-0.043	0.675
Rv1565c_day32	-0.665	0.215
secA2_input	-2.037	-0.549
delta_Rv3594	-0.343	-0.912
delta_Rv3717	-1.024	-0.745
delta_Rv3811	-1.063	-1.019
delta_Rv0954	-1.128	-0.574
PonA1	-0.689	-0.895
EccD1_KO	0.22	-0.03
EspI_KO	0.066	0.876
PE35_KO	0.811	0.528
PPE68_KO	0.579	0.627
glycerol2	0.479	0.659
lignocerate	0.491	0.951
oleate	0.109	1.168
phosphatidylcholine	0.543	0.808
acetate	0.449	-0.136
glucAc	0.337	0.086
Rv0950ko	-0.983	-0.075
Rv1096ko	-1.336	0.169
Rv3684ko	-1.418	-0.429
delta_otsA_trehalose	-0.367	-1.055