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 Rv2144c/-

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

	Rv1621c/cydD	Rv2144c/-
Fe_supp_jason_reseq	2.816	0.521
low_pH_jason_reseq	0.592	0.626
NO_jason_reseq	-1.864	-0.927
B6_jason_reseq	-0.941	-3.023
MHCII_jason_reseq	-0.829	0.455
Isoniazid02	0.0	0.029
Rifampicin4	0.0	-0.485
Ethambutol3	0.0	-1.29
Meropenem3	0.0	-0.875
Vancomycin16	0.0	-1.297
Rv2680_day32	2.016	-1.589
H37Rv_KO_MarP	-1.861	-2.815
hypoxia_3wks	0.0	1.156
hypoxia_6wks	0.0	0.764
glycerol	0.0	1.074
cholesterol	0.0	1.058
AJ	0.0	-0.698
Bibs02	0.0	-0.634
Bibs02c	0.209	-0.147
BL6	0.0	0.877
BL6a	0.973	-0.423
BXD01	0.248	0.361
BXD010	0.352	-0.09
BXD011	0.923	-0.71
BXD03	0.831	0.9
BXD04	0.124	3.075
BXD05	0.256	-0.095
BXD06	0.254	0.951
BXD07	0.138	0.906
BXD08	0.467	-0.015
BXD09	0.78	0.289
CAST	0.0	0.474
CCcont	1.231	-0.105
DS01	0.0	-0.782
DS02	0.0	0.922
DS04	0.37	-0.673
DS0c	0.0	-2.19
GP01	2.631	-0.107
GP02	1.891	1.782
GP0c	3.759	0.59
NOD	0.0	-0.641
NZO	0.0	-2.982
PWK	0.0	-1.377
H37Rv_KO_CtpC	1.556	0.918
H37Rv_KO_CtpD	1.991	0.097
H37Rv_KO_Rv1272	0.0	0.629
H37Rv_KO_SugABC	0.189	-1.308
H37Rv_KO_MbtN	4.932	3.1
Trans05	0.0	0.462
macrophage_unactivated	0.0	0.843
IL1	3.921	0.231
Rapamycin	0.0	-1.274
Tcell	0.0	-1.124
GMCSF	1.545	2.289
IFNab	0.0	0.157
IFNg	1.109	2.528
IFNg_GMCSF1	1.581	1.895
Rv1432_day32	1.106	0.0
Rv1565c_day32	1.579	-0.978
secA2_input	0.131	-2.481
delta_Rv3594	0.0	1.26
delta_Rv3717	1.443	2.162
delta_Rv3811	0.0	-0.431
delta_Rv0954	1.862	0.305
PonA1	2.86	-1.445
EccD1_KO	-0.559	0.408
EspI_KO	0.827	0.374
PE35_KO	-0.767	-0.744
PPE68_KO	0.25	-0.666
glycerol2	0.0	-1.24
lignocerate	0.0	-1.292
oleate	0.0	0.084
phosphatidylcholine	0.0	-1.769
acetate	0.0	-0.155
glucAc	0.143	-2.339
Rv0950ko	-3.278	-2.409
Rv1096ko	-1.396	-0.856
Rv3684ko	0.924	0.776
delta_otsA_trehalose	-2.12	-1.141