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 Rv1944c/-:

update plot	correlation	link to info on gene
Rv3410c/guaB3	(cc=0.6104)	info on Rv3410c/guaB3
Rv1215c/-	(cc=0.525)	info on Rv1215c/-
Rv1962A/vapB35	(cc=0.504)	info on Rv1962A/vapB35
Rv1697/-	(cc=0.5007)	info on Rv1697/-
Rv1785c/cyp143	(cc=0.4725)	info on Rv1785c/cyp143
Rv1552/frdA	(cc=0.4636)	info on Rv1552/frdA
Rv0988/-	(cc=0.4541)	info on Rv0988/-
Rv0013/trpG	(cc=0.4481)	info on Rv0013/trpG
Rv3665c/dppB	(cc=0.4409)	info on Rv3665c/dppB
Rv2677c/hemY	(cc=0.4353)	info on Rv2677c/hemY

Correlation of Rv1944c/- with Rv1552/frdA

Normalized LFCs for Rv1944c/-:
(description and provenance of datasets)

	Rv1944c/-	Rv1552/frdA
Fe_supp_jason_reseq	-0.614	-0.283
low_pH_jason_reseq	2.561	0.679
NO_jason_reseq	-0.788	0.097
B6_jason_reseq	-0.807	-0.246
MHCII_jason_reseq	-1.64	-0.375
Isoniazid02	3.462	1.394
Rifampicin4	0.173	0.057
Ethambutol3	3.199	1.083
Meropenem3	0.097	-0.103
Vancomycin16	0.17	0.162
Rv2680_day32	-0.039	0.071
H37Rv_KO_MarP	0.49	0.275
hypoxia_3wks	-0.522	0.638
hypoxia_6wks	0.0	0.255
glycerol	-0.614	0.0
cholesterol	0.946	0.219
AJ	-0.97	1.106
Bibs02	0.413	0.474
Bibs02c	-0.67	0.196
BL6	0.477	0.225
BL6a	0.044	0.244
BXD01	0.734	0.252
BXD010	0.605	0.379
BXD011	0.323	0.229
BXD03	0.133	-0.349
BXD04	-0.627	-0.345
BXD05	1.216	0.106
BXD06	0.314	-0.067
BXD07	0.549	0.526
BXD08	0.925	0.239
BXD09	0.196	0.252
CAST	0.367	0.0
CCcont	0.694	0.048
DS01	0.282	-0.2
DS02	0.532	-0.852
DS04	0.252	-0.032
DS0c	1.279	-0.427
GP01	0.843	0.577
GP02	2.041	0.216
GP0c	1.277	0.369
NOD	0.944	1.185
NZO	-0.517	0.889
PWK	1.269	0.405
H37Rv_KO_CtpC	1.205	0.824
H37Rv_KO_CtpD	0.344	1.188
H37Rv_KO_Rv1272	1.093	1.044
H37Rv_KO_SugABC	0.768	0.293
H37Rv_KO_MbtN	0.08	0.491
Trans05	-0.126	0.701
macrophage_unactivated	0.9	0.268
IL1	-0.89	0.605
Rapamycin	-0.387	0.196
Tcell	1.388	0.538
GMCSF	-0.42	-0.058
IFNab	0.514	-0.417
IFNg	-0.249	-0.305
IFNg_GMCSF1	0.273	0.267
Rv1432_day32	1.073	0.121
Rv1565c_day32	0.444	0.065
secA2_input	0.402	-0.269
delta_Rv3594	-0.26	0.358
delta_Rv3717	0.191	-0.138
delta_Rv3811	-0.327	0.402
delta_Rv0954	0.213	0.326
PonA1	0.454	-0.353
EccD1_KO	0.342	0.122
EspI_KO	0.328	0.787
PE35_KO	0.732	0.939
PPE68_KO	-0.038	1.078
glycerol2	0.548	0.0
lignocerate	0.258	-0.069
oleate	0.525	0.2
phosphatidylcholine	0.978	0.126
acetate	-0.279	0.03
glucAc	-0.194	0.128
Rv0950ko	-1.933	-0.326
Rv1096ko	-0.799	-0.73
Rv3684ko	-2.512	-1.343
delta_otsA_trehalose	-1.08	0.031