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 Rv0077c/-:

update plot	correlation	link to info on gene
Rv0347/-	(cc=0.5037)	info on Rv0347/-
Rv3337/-	(cc=0.493)	info on Rv3337/-
Rv0372c/-	(cc=0.4813)	info on Rv0372c/-
Rv1262c/-	(cc=0.4677)	info on Rv1262c/-
Rv1761c/-	(cc=0.4593)	info on Rv1761c/-
Rv0276/-	(cc=0.4468)	info on Rv0276/-
Rv2994/-	(cc=0.4383)	info on Rv2994/-
Rv0633c/-	(cc=0.4357)	info on Rv0633c/-
Rv3714c/-	(cc=0.4247)	info on Rv3714c/-
Rv0858c/dapC	(cc=0.4236)	info on Rv0858c/dapC

Correlation of Rv0077c/- with Rv0633c/-

Normalized LFCs for Rv0077c/-:
(description and provenance of datasets)

	Rv0077c/-	Rv0633c/-
Fe_supp_jason_reseq	-0.221	0.415
low_pH_jason_reseq	-0.381	-0.738
NO_jason_reseq	0.029	-0.945
B6_jason_reseq	0.538	0.198
MHCII_jason_reseq	0.238	0.257
Isoniazid02	0.444	0.432
Rifampicin4	0.165	0.133
Ethambutol3	0.555	0.978
Meropenem3	0.528	0.68
Vancomycin16	0.239	0.186
Rv2680_day32	-1.331	-0.867
H37Rv_KO_MarP	0.349	0.222
hypoxia_3wks	0.546	0.128
hypoxia_6wks	0.37	-0.451
glycerol	0.098	-0.015
cholesterol	-0.208	0.486
AJ	0.555	-0.588
Bibs02	1.245	-0.007
Bibs02c	-0.045	-0.453
BL6	-0.449	0.361
BL6a	0.274	-0.014
BXD01	-0.404	-0.601
BXD010	0.349	-0.643
BXD011	0.035	-0.475
BXD03	0.338	-0.13
BXD04	0.068	-0.606
BXD05	0.639	0.458
BXD06	0.225	-0.478
BXD07	0.315	0.159
BXD08	-0.058	-0.92
BXD09	0.805	-0.298
CAST	0.375	0.265
CCcont	-0.551	-0.473
DS01	0.681	0.068
DS02	0.148	0.236
DS04	0.804	-0.073
DS0c	0.03	-0.132
GP01	1.734	0.26
GP02	0.194	-0.905
GP0c	0.235	-0.438
NOD	-0.216	-0.348
NZO	0.373	0.087
PWK	0.26	-0.126
H37Rv_KO_CtpC	-1.045	-0.435
H37Rv_KO_CtpD	-0.704	-0.528
H37Rv_KO_Rv1272	-0.411	-0.708
H37Rv_KO_SugABC	-0.952	0.421
H37Rv_KO_MbtN	-0.973	-0.998
Trans05	-0.057	-0.58
macrophage_unactivated	-0.12	-0.464
IL1	0.303	0.546
Rapamycin	0.046	0.89
Tcell	0.049	0.326
GMCSF	0.573	0.605
IFNab	0.308	0.771
IFNg	0.596	0.492
IFNg_GMCSF1	0.0	0.314
Rv1432_day32	-0.478	-1.269
Rv1565c_day32	-0.066	0.158
secA2_input	1.403	0.571
delta_Rv3594	-1.007	0.162
delta_Rv3717	-0.868	-0.259
delta_Rv3811	-1.152	-0.17
delta_Rv0954	0.523	0.393
PonA1	0.347	0.617
EccD1_KO	0.059	0.464
EspI_KO	-0.813	-0.445
PE35_KO	-0.426	0.432
PPE68_KO	-0.499	0.173
glycerol2	-0.289	-0.755
lignocerate	-0.399	-0.449
oleate	-0.425	-0.44
phosphatidylcholine	-0.459	-0.647
acetate	-0.195	-0.216
glucAc	-0.777	0.605
Rv0950ko	0.633	1.098
Rv1096ko	1.327	2.117
Rv3684ko	1.225	2.103
delta_otsA_trehalose	1.344	-0.801