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 Rv3254/-:

update plot	correlation	link to info on gene
Rv1472/echA12	(cc=0.5954)	info on Rv1472/echA12
Rv1356c/-	(cc=0.5214)	info on Rv1356c/-
Rv1856c/-	(cc=0.4477)	info on Rv1856c/-
Rv2809/-	(cc=0.4041)	info on Rv2809/-
Rv2939/papA5	(cc=0.4003)	info on Rv2939/papA5
Rv2930/fadD26	(cc=0.398)	info on Rv2930/fadD26
Rv2935/ppsE	(cc=0.3927)	info on Rv2935/ppsE
Rv1703c/-	(cc=0.388)	info on Rv1703c/-
Rv2934/ppsD	(cc=0.3828)	info on Rv2934/ppsD
Rv2287/yjcE	(cc=0.3819)	info on Rv2287/yjcE

Correlation of Rv3254/- with Rv2809/-

Normalized LFCs for Rv3254/-:
(description and provenance of datasets)

	Rv3254/-	Rv2809/-
Fe_supp_jason_reseq	-0.456	0.592
low_pH_jason_reseq	-0.08	-0.236
NO_jason_reseq	0.903	0.62
B6_jason_reseq	-0.289	0.436
MHCII_jason_reseq	0.926	1.042
Isoniazid02	0.019	-0.825
Rifampicin4	-0.517	0.246
Ethambutol3	0.288	1.547
Meropenem3	0.25	-0.146
Vancomycin16	-0.255	-0.032
Rv2680_day32	-0.491	-2.243
H37Rv_KO_MarP	0.226	-0.476
hypoxia_3wks	-0.032	-0.271
hypoxia_6wks	0.217	0.098
glycerol	-0.401	-2.478
cholesterol	0.015	-0.07
AJ	0.494	0.087
Bibs02	0.433	-0.126
Bibs02c	-0.353	-1.253
BL6	0.365	1.036
BL6a	0.039	-0.019
BXD01	-0.463	1.196
BXD010	-0.149	1.083
BXD011	-0.35	0.899
BXD03	0.42	0.735
BXD04	0.318	1.117
BXD05	0.218	1.149
BXD06	-0.241	0.414
BXD07	-0.028	0.936
BXD08	-0.09	1.493
BXD09	0.148	0.747
CAST	-0.012	-0.022
CCcont	0.037	1.331
DS01	0.116	-0.186
DS02	0.287	0.414
DS04	-0.433	-0.946
DS0c	0.38	-0.585
GP01	0.771	0.667
GP02	0.087	1.361
GP0c	-0.251	0.599
NOD	0.706	0.895
NZO	0.77	0.618
PWK	0.077	-0.301
H37Rv_KO_CtpC	0.339	1.032
H37Rv_KO_CtpD	0.417	-1.764
H37Rv_KO_Rv1272	0.938	1.858
H37Rv_KO_SugABC	0.39	-0.048
H37Rv_KO_MbtN	0.591	0.196
Trans05	0.257	1.384
macrophage_unactivated	2.591	0.552
IL1	-1.068	-1.48
Rapamycin	-0.654	-0.509
Tcell	2.597	0.57
GMCSF	0.407	-0.71
IFNab	-0.46	-1.345
IFNg	-1.045	0.0
IFNg_GMCSF1	-0.396	0.355
Rv1432_day32	-0.447	-0.729
Rv1565c_day32	0.243	-0.667
secA2_input	0.011	-0.883
delta_Rv3594	0.165	0.125
delta_Rv3717	0.026	0.045
delta_Rv3811	-0.174	0.439
delta_Rv0954	-0.646	-0.562
PonA1	-0.6	-2.086
EccD1_KO	0.243	0.414
EspI_KO	0.368	0.964
PE35_KO	0.904	1.219
PPE68_KO	1.184	1.494
glycerol2	-0.038	0.247
lignocerate	0.487	0.933
oleate	0.111	-0.072
phosphatidylcholine	0.406	0.569
acetate	0.066	0.702
glucAc	-0.108	0.594
Rv0950ko	-0.621	-0.914
Rv1096ko	-0.112	-2.015
Rv3684ko	-0.223	-1.385
delta_otsA_trehalose	0.75	0.0