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 Rv1885c/-:

update plot	correlation	link to info on gene
Rv1548c/PPE21	(cc=0.5453)	info on Rv1548c/PPE21
Rv2038c/-	(cc=0.4839)	info on Rv2038c/-
Rv3125c/PPE49	(cc=0.4827)	info on Rv3125c/PPE49
Rv2957/-	(cc=0.4605)	info on Rv2957/-
Rv1503c/-	(cc=0.4584)	info on Rv1503c/-
Rv1387/PPE20	(cc=0.4569)	info on Rv1387/PPE20
Rv1917c/PPE34	(cc=0.4569)	info on Rv1917c/PPE34
Rv2809/-	(cc=0.4557)	info on Rv2809/-
Rv1831/-	(cc=0.4544)	info on Rv1831/-
Rv0844c/narL	(cc=0.453)	info on Rv0844c/narL

Correlation of Rv1885c/- with Rv1917c/PPE34

Normalized LFCs for Rv1885c/-:
(description and provenance of datasets)

	Rv1885c/-	Rv1917c/PPE34
Fe_supp_jason_reseq	-0.204	0.756
low_pH_jason_reseq	-0.37	-0.311
NO_jason_reseq	-0.221	0.15
B6_jason_reseq	-0.127	0.621
MHCII_jason_reseq	0.283	0.641
Isoniazid02	-0.115	0.063
Rifampicin4	-0.574	0.173
Ethambutol3	0.129	0.472
Meropenem3	0.028	0.435
Vancomycin16	-0.732	0.0
Rv2680_day32	-0.112	0.08
H37Rv_KO_MarP	0.109	-0.09
hypoxia_3wks	0.08	-0.327
hypoxia_6wks	-0.263	-0.048
glycerol	-0.252	-0.107
cholesterol	-0.495	0.128
AJ	0.148	0.57
Bibs02	-0.044	0.162
Bibs02c	-0.341	0.318
BL6	0.592	-0.053
BL6a	-0.125	0.471
BXD01	-0.012	0.587
BXD010	-0.281	0.534
BXD011	0.275	0.557
BXD03	0.223	-0.042
BXD04	0.864	0.582
BXD05	0.115	0.634
BXD06	0.0	0.566
BXD07	0.346	0.283
BXD08	0.079	0.237
BXD09	0.09	0.465
CAST	0.01	0.489
CCcont	0.3	0.059
DS01	-0.546	0.71
DS02	-0.503	0.517
DS04	-0.994	0.492
DS0c	-0.104	0.368
GP01	-0.087	0.503
GP02	0.512	0.523
GP0c	0.172	0.496
NOD	0.308	0.657
NZO	0.24	0.522
PWK	0.054	0.281
H37Rv_KO_CtpC	0.418	0.743
H37Rv_KO_CtpD	0.298	1.346
H37Rv_KO_Rv1272	0.94	1.285
H37Rv_KO_SugABC	0.908	1.237
H37Rv_KO_MbtN	0.927	0.899
Trans05	1.173	1.105
macrophage_unactivated	-0.019	0.275
IL1	-0.839	-0.116
Rapamycin	-0.298	-0.203
Tcell	-0.098	0.44
GMCSF	0.121	0.325
IFNab	0.157	-0.366
IFNg	-0.08	0.035
IFNg_GMCSF1	0.317	-0.082
Rv1432_day32	0.297	0.139
Rv1565c_day32	-0.608	0.366
secA2_input	-0.282	-0.675
delta_Rv3594	0.219	0.503
delta_Rv3717	-0.128	0.072
delta_Rv3811	0.355	0.363
delta_Rv0954	-0.083	-0.36
PonA1	-0.751	-0.493
EccD1_KO	0.474	-0.138
EspI_KO	-0.622	-0.12
PE35_KO	0.175	-0.123
PPE68_KO	-0.09	-0.067
glycerol2	0.233	0.303
lignocerate	0.304	0.424
oleate	-0.238	0.289
phosphatidylcholine	-0.05	0.641
acetate	0.141	0.209
glucAc	0.311	0.274
Rv0950ko	0.19	-0.187
Rv1096ko	-0.033	-0.841
Rv3684ko	-0.684	-0.796
delta_otsA_trehalose	-0.217	-0.262