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 Rv1921c/lppF:

update plot	correlation	link to info on gene
Rv3538/-	(cc=0.489)	info on Rv3538/-
Rv1866/-	(cc=0.4783)	info on Rv1866/-
Rv1182/papA3	(cc=0.469)	info on Rv1182/papA3
Rv1676/-	(cc=0.4609)	info on Rv1676/-
Rv1632c/-	(cc=0.4435)	info on Rv1632c/-
Rv2105/-	(cc=0.4316)	info on Rv2105/-
Rv1115/-	(cc=0.4269)	info on Rv1115/-
Rv3335c/-	(cc=0.4265)	info on Rv3335c/-
Rv1394c/cyp132	(cc=0.4197)	info on Rv1394c/cyp132
Rv2015c/-	(cc=0.4174)	info on Rv2015c/-

Correlation of Rv1921c/lppF with Rv2015c/-

Normalized LFCs for Rv1921c/lppF:
(description and provenance of datasets)

	Rv1921c/lppF	Rv2015c/-
Fe_supp_jason_reseq	-0.055	0.18
low_pH_jason_reseq	1.548	-0.142
NO_jason_reseq	-0.11	-0.486
B6_jason_reseq	0.649	0.448
MHCII_jason_reseq	0.378	0.237
Isoniazid02	0.457	0.218
Rifampicin4	0.1	0.777
Ethambutol3	1.023	0.717
Meropenem3	0.158	0.328
Vancomycin16	-0.241	0.021
Rv2680_day32	0.438	-0.264
H37Rv_KO_MarP	0.298	-0.385
hypoxia_3wks	0.14	-0.235
hypoxia_6wks	0.459	-0.697
glycerol	0.086	-0.278
cholesterol	-0.269	-0.516
AJ	0.308	0.598
Bibs02	0.017	0.742
Bibs02c	0.303	0.579
BL6	0.036	-1.128
BL6a	-0.029	-0.423
BXD01	0.161	-0.68
BXD010	-0.363	-0.026
BXD011	-0.267	-0.594
BXD03	-0.291	-0.133
BXD04	-0.1	-0.177
BXD05	0.039	-0.577
BXD06	-0.019	-0.834
BXD07	0.281	-1.08
BXD08	-0.08	-0.957
BXD09	-0.159	-0.406
CAST	0.152	0.389
CCcont	-0.044	-0.744
DS01	0.332	-0.024
DS02	0.306	-0.203
DS04	0.028	0.048
DS0c	0.36	0.456
GP01	0.374	0.632
GP02	0.016	0.362
GP0c	0.289	0.536
NOD	0.278	0.472
NZO	0.23	0.705
PWK	0.571	1.238
H37Rv_KO_CtpC	-0.14	-0.074
H37Rv_KO_CtpD	0.886	0.704
H37Rv_KO_Rv1272	0.911	-0.124
H37Rv_KO_SugABC	-0.429	-0.763
H37Rv_KO_MbtN	1.082	0.258
Trans05	0.168	0.088
macrophage_unactivated	-0.543	-1.228
IL1	-0.383	-0.136
Rapamycin	-0.193	-0.678
Tcell	-0.339	-0.551
GMCSF	0.771	0.0
IFNab	-0.571	-0.998
IFNg	-0.529	-0.77
IFNg_GMCSF1	-0.999	-0.072
Rv1432_day32	0.289	0.173
Rv1565c_day32	-0.071	0.185
secA2_input	0.083	0.604
delta_Rv3594	0.17	-0.04
delta_Rv3717	0.624	0.394
delta_Rv3811	0.109	0.274
delta_Rv0954	-0.536	0.022
PonA1	-0.008	-0.155
EccD1_KO	0.155	0.691
EspI_KO	0.456	-0.083
PE35_KO	0.484	0.729
PPE68_KO	0.435	0.672
glycerol2	0.57	-0.304
lignocerate	0.609	0.093
oleate	0.586	-0.147
phosphatidylcholine	0.668	0.046
acetate	0.078	0.196
glucAc	0.163	0.164
Rv0950ko	0.0	-0.449
Rv1096ko	0.06	0.0
Rv3684ko	-0.023	-0.753
delta_otsA_trehalose	-0.038	0.418