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 Rv1621c/cydD:

update plot	correlation	link to info on gene
Rv1623c/cydA	(cc=0.8676)	info on Rv1623c/cydA
Rv1622c/cydB	(cc=0.8409)	info on Rv1622c/cydB
Rv1620c/cydC	(cc=0.6593)	info on Rv1620c/cydC
Rv2190c/-	(cc=0.4788)	info on Rv2190c/-
Rv2553c/-	(cc=0.459)	info on Rv2553c/-
Rv1836c/-	(cc=0.4588)	info on Rv1836c/-
Rv3102c/ftsE	(cc=0.4566)	info on Rv3102c/ftsE
Rv3207c/-	(cc=0.4486)	info on Rv3207c/-
Rv0950c/-	(cc=0.4478)	info on Rv0950c/-
Rv2144c/-	(cc=0.4276)	info on Rv2144c/-

Correlation of Rv1621c/cydD with Rv0950c/-

Normalized LFCs for Rv1621c/cydD:
(description and provenance of datasets)

	Rv1621c/cydD	Rv0950c/-
Fe_supp_jason_reseq	2.816	2.366
low_pH_jason_reseq	0.592	-3.244
NO_jason_reseq	-1.864	-1.62
B6_jason_reseq	-0.941	-0.757
MHCII_jason_reseq	-0.829	0.645
Isoniazid02	0.0	-0.597
Rifampicin4	0.0	-1.522
Ethambutol3	0.0	0.056
Meropenem3	0.0	-0.135
Vancomycin16	0.0	-1.807
Rv2680_day32	2.016	0.511
H37Rv_KO_MarP	-1.861	-2.272
hypoxia_3wks	0.0	-1.196
hypoxia_6wks	0.0	-1.297
glycerol	0.0	-1.374
cholesterol	0.0	0.316
AJ	0.0	-0.64
Bibs02	0.0	0.784
Bibs02c	0.209	0.855
BL6	0.0	-1.005
BL6a	0.973	0.088
BXD01	0.248	-0.26
BXD010	0.352	-0.834
BXD011	0.923	-0.661
BXD03	0.831	-0.151
BXD04	0.124	-0.366
BXD05	0.256	-0.197
BXD06	0.254	-0.761
BXD07	0.138	-0.982
BXD08	0.467	0.171
BXD09	0.78	-0.415
CAST	0.0	-0.46
CCcont	1.231	0.361
DS01	0.0	0.238
DS02	0.0	0.336
DS04	0.37	1.875
DS0c	0.0	0.677
GP01	2.631	-0.127
GP02	1.891	-1.169
GP0c	3.759	0.406
NOD	0.0	-1.165
NZO	0.0	-1.475
PWK	0.0	-1.067
H37Rv_KO_CtpC	1.556	-0.354
H37Rv_KO_CtpD	1.991	-0.325
H37Rv_KO_Rv1272	0.0	0.181
H37Rv_KO_SugABC	0.189	-0.42
H37Rv_KO_MbtN	4.932	1.039
Trans05	0.0	0.393
macrophage_unactivated	0.0	1.597
IL1	3.921	0.062
Rapamycin	0.0	0.368
Tcell	0.0	-0.899
GMCSF	1.545	0.927
IFNab	0.0	1.747
IFNg	1.109	0.521
IFNg_GMCSF1	1.581	0.892
Rv1432_day32	1.106	0.98
Rv1565c_day32	1.579	-0.415
secA2_input	0.131	-2.534
delta_Rv3594	0.0	0.116
delta_Rv3717	1.443	-0.101
delta_Rv3811	0.0	0.14
delta_Rv0954	1.862	-0.712
PonA1	2.86	-0.058
EccD1_KO	-0.559	-0.46
EspI_KO	0.827	0.125
PE35_KO	-0.767	-0.863
PPE68_KO	0.25	-0.144
glycerol2	0.0	-0.412
lignocerate	0.0	-0.6
oleate	0.0	-0.169
phosphatidylcholine	0.0	-0.766
acetate	0.0	-1.004
glucAc	0.143	-0.685
Rv0950ko	-3.278	-6.0
Rv1096ko	-1.396	0.25
Rv3684ko	0.924	0.272
delta_otsA_trehalose	-2.12	-0.465