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 Rv1619/-:

update plot	correlation	link to info on gene
Rv2629/-	(cc=0.4767)	info on Rv2629/-
Rv1251c/-	(cc=0.4516)	info on Rv1251c/-
Rv0532/PE_PGRS6	(cc=0.4451)	info on Rv0532/PE_PGRS6
Rv1992c/ctpG	(cc=0.4375)	info on Rv1992c/ctpG
Rv0325/-	(cc=0.4338)	info on Rv0325/-
Rv3395A/-	(cc=0.4333)	info on Rv3395A/-
Rv3754/tyrA	(cc=0.4294)	info on Rv3754/tyrA
Rv3037c/-	(cc=0.4211)	info on Rv3037c/-
Rv1731/gabD2	(cc=0.419)	info on Rv1731/gabD2
Rv2769c/PE27	(cc=0.4176)	info on Rv2769c/PE27

Correlation of Rv1619/- with Rv2769c/PE27

Normalized LFCs for Rv1619/-:
(description and provenance of datasets)

	Rv1619/-	Rv2769c/PE27
Fe_supp_jason_reseq	-1.058	-0.159
low_pH_jason_reseq	-1.176	0.306
NO_jason_reseq	-0.055	0.48
B6_jason_reseq	0.571	-0.168
MHCII_jason_reseq	-0.899	0.118
Isoniazid02	3.339	0.7
Rifampicin4	0.341	0.739
Ethambutol3	0.392	0.258
Meropenem3	3.656	2.507
Vancomycin16	0.252	0.531
Rv2680_day32	-1.614	-0.134
H37Rv_KO_MarP	0.481	0.051
hypoxia_3wks	0.315	-0.136
hypoxia_6wks	0.165	-0.084
glycerol	0.097	0.019
cholesterol	0.26	-0.445
AJ	0.217	1.082
Bibs02	0.587	0.413
Bibs02c	1.164	0.049
BL6	-0.582	0.584
BL6a	1.231	-0.133
BXD01	-0.746	0.836
BXD010	0.081	0.387
BXD011	-0.439	0.193
BXD03	-1.273	-0.139
BXD04	-0.062	-0.326
BXD05	0.366	0.583
BXD06	-0.161	0.214
BXD07	-0.51	-0.052
BXD08	-0.236	0.368
BXD09	-1.113	0.312
CAST	0.284	0.225
CCcont	-0.355	0.021
DS01	0.113	0.378
DS02	-0.109	0.789
DS04	-0.583	0.364
DS0c	0.534	0.809
GP01	0.256	0.273
GP02	-0.75	0.288
GP0c	-0.605	0.419
NOD	-0.724	-0.926
NZO	0.386	0.637
PWK	0.0	0.183
H37Rv_KO_CtpC	-0.598	-0.201
H37Rv_KO_CtpD	-1.755	-0.312
H37Rv_KO_Rv1272	-0.25	0.711
H37Rv_KO_SugABC	-0.388	-1.33
H37Rv_KO_MbtN	-1.102	0.148
Trans05	0.727	0.448
macrophage_unactivated	-0.398	-0.354
IL1	-0.531	0.018
Rapamycin	0.868	-0.439
Tcell	-0.16	0.303
GMCSF	-0.401	-0.459
IFNab	-0.541	-0.281
IFNg	0.249	0.192
IFNg_GMCSF1	0.569	-0.924
Rv1432_day32	-0.795	-0.139
Rv1565c_day32	0.057	0.196
secA2_input	-0.258	-0.235
delta_Rv3594	0.843	0.493
delta_Rv3717	0.161	0.138
delta_Rv3811	0.642	-0.054
delta_Rv0954	0.39	0.581
PonA1	0.38	0.641
EccD1_KO	0.352	0.151
EspI_KO	-0.781	0.556
PE35_KO	0.236	0.198
PPE68_KO	0.0	0.147
glycerol2	-0.188	0.329
lignocerate	0.255	0.497
oleate	0.554	0.544
phosphatidylcholine	0.513	0.674
acetate	-0.342	0.053
glucAc	0.895	-0.105
Rv0950ko	-0.362	0.76
Rv1096ko	0.492	0.32
Rv3684ko	0.095	0.023
delta_otsA_trehalose	-0.468	-0.69