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 Rv0273c/-:

update plot	correlation	link to info on gene
Rv1550/fadD11	(cc=0.5223)	info on Rv1550/fadD11
Rv1191/-	(cc=0.5107)	info on Rv1191/-
Rv3539/PPE63	(cc=0.4803)	info on Rv3539/PPE63
Rv2451/-	(cc=0.4653)	info on Rv2451/-
Rv2643/arsC	(cc=0.437)	info on Rv2643/arsC
Rv2769c/PE27	(cc=0.4351)	info on Rv2769c/PE27
Rv3761c/fadE36	(cc=0.4131)	info on Rv3761c/fadE36
Rv0687/-	(cc=0.4093)	info on Rv0687/-
Rv2311/-	(cc=0.4084)	info on Rv2311/-
Rv2405/-	(cc=0.4041)	info on Rv2405/-

Correlation of Rv0273c/- with Rv3539/PPE63

Normalized LFCs for Rv0273c/-:
(description and provenance of datasets)

	Rv0273c/-	Rv3539/PPE63
Fe_supp_jason_reseq	-0.497	-0.025
low_pH_jason_reseq	-0.465	0.867
NO_jason_reseq	-0.16	0.407
B6_jason_reseq	-0.25	-0.193
MHCII_jason_reseq	0.358	-0.049
Isoniazid02	0.24	0.07
Rifampicin4	0.0	0.612
Ethambutol3	0.338	-0.255
Meropenem3	3.393	2.53
Vancomycin16	0.738	0.544
Rv2680_day32	-0.305	-0.683
H37Rv_KO_MarP	0.941	0.337
hypoxia_3wks	0.203	0.347
hypoxia_6wks	0.0	0.986
glycerol	0.0	-0.225
cholesterol	-0.396	-0.162
AJ	-0.17	0.395
Bibs02	-0.827	1.08
Bibs02c	-0.459	0.471
BL6	0.42	-0.338
BL6a	-0.237	0.247
BXD01	0.896	0.348
BXD010	-1.253	-0.07
BXD011	0.427	0.545
BXD03	-0.099	-0.389
BXD04	0.427	0.529
BXD05	0.195	0.516
BXD06	0.786	-0.13
BXD07	0.361	-0.018
BXD08	-0.039	0.052
BXD09	0.204	0.108
CAST	0.063	0.177
CCcont	0.102	-0.188
DS01	-0.32	-0.481
DS02	-0.983	-0.058
DS04	0.305	-0.188
DS0c	-0.328	0.218
GP01	0.858	0.423
GP02	-0.452	1.274
GP0c	0.311	0.728
NOD	-0.13	0.254
NZO	0.669	0.906
PWK	-0.028	0.173
H37Rv_KO_CtpC	0.545	0.467
H37Rv_KO_CtpD	-0.112	0.629
H37Rv_KO_Rv1272	0.796	1.146
H37Rv_KO_SugABC	0.447	0.858
H37Rv_KO_MbtN	-0.636	0.494
Trans05	0.648	0.782
macrophage_unactivated	0.0	-0.211
IL1	-0.581	-0.409
Rapamycin	0.236	0.132
Tcell	0.411	-0.143
GMCSF	-1.31	-0.301
IFNab	-0.877	0.067
IFNg	-0.446	-0.633
IFNg_GMCSF1	0.082	0.201
Rv1432_day32	0.155	0.026
Rv1565c_day32	0.306	1.005
secA2_input	1.335	0.661
delta_Rv3594	0.067	0.684
delta_Rv3717	0.307	1.031
delta_Rv3811	0.745	0.805
delta_Rv0954	-0.028	0.0
PonA1	0.366	0.744
EccD1_KO	-0.977	-0.997
EspI_KO	-0.228	-0.642
PE35_KO	-0.201	-0.977
PPE68_KO	-0.413	-1.177
glycerol2	0.752	-0.092
lignocerate	0.444	0.188
oleate	0.669	0.197
phosphatidylcholine	0.776	0.132
acetate	0.106	-0.791
glucAc	-0.363	-0.068
Rv0950ko	0.443	0.0
Rv1096ko	0.115	0.368
Rv3684ko	-0.085	0.0
delta_otsA_trehalose	-2.517	-0.075