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 Rv3472/-:

update plot	correlation	link to info on gene
Rv0968/-	(cc=0.6354)	info on Rv0968/-
Rv2489c/-	(cc=0.5539)	info on Rv2489c/-
Rv3312c/-	(cc=0.5185)	info on Rv3312c/-
Rv3566c/nat	(cc=0.504)	info on Rv3566c/nat
Rv0547c/-	(cc=0.4982)	info on Rv0547c/-
Rv2306A/-	(cc=0.4944)	info on Rv2306A/-
Rv2645/-	(cc=0.4846)	info on Rv2645/-
Rv3299c/atsB	(cc=0.4827)	info on Rv3299c/atsB
Rv0849/-	(cc=0.4763)	info on Rv0849/-
Rv0421c/-	(cc=0.4722)	info on Rv0421c/-

Correlation of Rv3472/- with Rv0968/-

Normalized LFCs for Rv3472/-:
(description and provenance of datasets)

	Rv3472/-	Rv0968/-
Fe_supp_jason_reseq	-0.911	0.704
low_pH_jason_reseq	-0.85	-0.738
NO_jason_reseq	0.648	0.423
B6_jason_reseq	-0.49	0.01
MHCII_jason_reseq	0.305	0.27
Isoniazid02	-2.99	-3.296
Rifampicin4	0.912	0.831
Ethambutol3	-2.932	-2.914
Meropenem3	-2.462	-3.018
Vancomycin16	-1.053	-1.112
Rv2680_day32	0.55	0.91
H37Rv_KO_MarP	0.975	0.883
hypoxia_3wks	-0.945	-0.203
hypoxia_6wks	-0.443	-1.349
glycerol	-0.025	0.677
cholesterol	0.256	0.845
AJ	-0.234	0.528
Bibs02	-0.648	-0.278
Bibs02c	-1.084	0.671
BL6	-1.53	-0.789
BL6a	-0.702	-0.393
BXD01	0.203	-0.379
BXD010	-1.841	-0.019
BXD011	-1.331	-0.923
BXD03	-1.88	-0.794
BXD04	-1.214	-0.426
BXD05	-1.129	0.48
BXD06	-1.016	-0.954
BXD07	-0.954	-0.699
BXD08	-1.976	-0.379
BXD09	-1.296	-0.542
CAST	-1.061	0.265
CCcont	-1.77	-0.929
DS01	-0.029	-0.469
DS02	-1.126	0.635
DS04	0.178	0.093
DS0c	-0.493	-0.211
GP01	1.508	0.345
GP02	-0.448	-0.744
GP0c	0.926	-0.329
NOD	-0.138	0.885
NZO	-1.114	-0.27
PWK	0.264	-0.254
H37Rv_KO_CtpC	-0.418	-0.14
H37Rv_KO_CtpD	-0.179	1.622
H37Rv_KO_Rv1272	-1.183	1.062
H37Rv_KO_SugABC	0.478	0.86
H37Rv_KO_MbtN	-1.758	-1.047
Trans05	-0.463	-0.921
macrophage_unactivated	0.117	-0.843
IL1	-3.553	-0.946
Rapamycin	-1.97	-1.105
Tcell	0.0	-0.472
GMCSF	-1.402	-0.055
IFNab	-0.112	-0.13
IFNg	-0.885	-0.516
IFNg_GMCSF1	-2.394	-0.569
Rv1432_day32	-0.36	-0.215
Rv1565c_day32	0.028	0.445
secA2_input	-0.027	1.842
delta_Rv3594	-0.864	0.096
delta_Rv3717	0.283	-0.593
delta_Rv3811	0.256	-0.167
delta_Rv0954	-0.616	-0.105
PonA1	1.502	1.324
EccD1_KO	0.793	1.237
EspI_KO	-0.958	-0.074
PE35_KO	-0.055	0.111
PPE68_KO	0.061	-0.192
glycerol2	-0.834	0.146
lignocerate	-0.922	0.072
oleate	0.057	0.18
phosphatidylcholine	-0.668	0.326
acetate	-0.702	0.352
glucAc	-1.387	0.061
Rv0950ko	-0.443	0.458
Rv1096ko	1.321	1.2
Rv3684ko	0.0	0.652
delta_otsA_trehalose	0.029	1.843