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 Rv0797/-:

update plot	correlation	link to info on gene
Rv3327/-	(cc=0.6362)	info on Rv3327/-
Rv2701c/suhB	(cc=0.5058)	info on Rv2701c/suhB
Rv0039c/-	(cc=0.4582)	info on Rv0039c/-
Rv0095c/-	(cc=0.4567)	info on Rv0095c/-
Rv2859c/-	(cc=0.4407)	info on Rv2859c/-
Rv2715/-	(cc=0.4327)	info on Rv2715/-
Rv1935c/echA13	(cc=0.429)	info on Rv1935c/echA13
Rv2043c/pncA	(cc=0.4214)	info on Rv2043c/pncA
Rv2124c/metH	(cc=0.4191)	info on Rv2124c/metH
Rv1562c/treZ	(cc=0.3978)	info on Rv1562c/treZ

Correlation of Rv0797/- with Rv2715/-

Normalized LFCs for Rv0797/-:
(description and provenance of datasets)

	Rv0797/-	Rv2715/-
Fe_supp_jason_reseq	-0.488	-0.508
low_pH_jason_reseq	0.877	0.796
NO_jason_reseq	0.018	-0.646
B6_jason_reseq	0.073	-0.542
MHCII_jason_reseq	0.285	0.346
Isoniazid02	0.294	1.224
Rifampicin4	0.866	-0.504
Ethambutol3	0.522	2.932
Meropenem3	1.577	2.498
Vancomycin16	0.748	0.0
Rv2680_day32	0.23	-0.73
H37Rv_KO_MarP	-0.023	0.223
hypoxia_3wks	0.451	-0.116
hypoxia_6wks	-0.119	0.175
glycerol	-0.622	-0.471
cholesterol	1.999	4.799
AJ	-0.234	-0.024
Bibs02	-0.101	-0.223
Bibs02c	0.452	1.516
BL6	0.784	0.26
BL6a	0.367	1.24
BXD01	0.379	0.314
BXD010	-0.02	1.166
BXD011	-0.15	0.642
BXD03	0.007	0.349
BXD04	-0.047	0.809
BXD05	0.685	0.369
BXD06	0.174	0.366
BXD07	0.64	0.357
BXD08	0.102	0.448
BXD09	0.059	0.788
CAST	0.267	-0.28
CCcont	0.316	0.348
DS01	0.406	0.429
DS02	-0.107	0.132
DS04	0.611	0.682
DS0c	-0.156	0.046
GP01	-0.333	0.804
GP02	0.44	0.516
GP0c	-0.028	0.387
NOD	0.151	1.787
NZO	-0.189	-0.964
PWK	0.264	0.158
H37Rv_KO_CtpC	0.358	0.607
H37Rv_KO_CtpD	0.079	0.185
H37Rv_KO_Rv1272	-0.812	0.558
H37Rv_KO_SugABC	0.601	0.898
H37Rv_KO_MbtN	-0.459	1.101
Trans05	-0.365	1.278
macrophage_unactivated	-0.18	0.3
IL1	0.142	-0.065
Rapamycin	0.371	0.353
Tcell	-0.456	0.176
GMCSF	0.055	-0.148
IFNab	-0.444	-0.133
IFNg	0.219	0.644
IFNg_GMCSF1	0.258	-0.358
Rv1432_day32	0.482	-0.499
Rv1565c_day32	-0.161	-0.655
secA2_input	-0.441	-0.11
delta_Rv3594	-0.548	0.728
delta_Rv3717	0.522	0.151
delta_Rv3811	0.192	1.169
delta_Rv0954	0.132	0.783
PonA1	0.376	0.386
EccD1_KO	0.701	1.095
EspI_KO	1.001	0.95
PE35_KO	0.828	1.476
PPE68_KO	0.477	0.784
glycerol2	-0.071	-0.476
lignocerate	0.06	0.102
oleate	-0.391	-0.216
phosphatidylcholine	0.008	0.0
acetate	0.605	0.206
glucAc	0.172	0.481
Rv0950ko	0.178	-0.109
Rv1096ko	1.393	-0.145
Rv3684ko	0.871	-0.318
delta_otsA_trehalose	2.102	0.879