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 Rv3327/-:

update plot	correlation	link to info on gene
Rv0797/-	(cc=0.6362)	info on Rv0797/-
Rv1360/-	(cc=0.5271)	info on Rv1360/-
Rv0577/TB27.3	(cc=0.4917)	info on Rv0577/TB27.3
Rv2701c/suhB	(cc=0.4872)	info on Rv2701c/suhB
Rv2285/-	(cc=0.4792)	info on Rv2285/-
Rv3309c/upp	(cc=0.4721)	info on Rv3309c/upp
Rv2406c/-	(cc=0.4589)	info on Rv2406c/-
Rv2615c/PE_PGRS45	(cc=0.4568)	info on Rv2615c/PE_PGRS45
Rv0747/PE_PGRS10	(cc=0.4456)	info on Rv0747/PE_PGRS10
Rv1046c/-	(cc=0.4343)	info on Rv1046c/-

Correlation of Rv3327/- with Rv1360/-

Normalized LFCs for Rv3327/-:
(description and provenance of datasets)

	Rv3327/-	Rv1360/-
Fe_supp_jason_reseq	-1.02	-0.175
low_pH_jason_reseq	0.432	-0.99
NO_jason_reseq	-0.118	-0.32
B6_jason_reseq	0.114	0.169
MHCII_jason_reseq	0.012	0.366
Isoniazid02	-0.765	-1.455
Rifampicin4	-0.799	-2.434
Ethambutol3	-0.218	-0.929
Meropenem3	1.569	1.791
Vancomycin16	-0.592	-1.937
Rv2680_day32	0.044	0.253
H37Rv_KO_MarP	0.134	0.368
hypoxia_3wks	0.49	0.235
hypoxia_6wks	0.217	0.28
glycerol	-0.307	0.281
cholesterol	1.415	2.114
AJ	0.407	0.2
Bibs02	0.163	0.268
Bibs02c	0.158	0.47
BL6	0.388	-0.114
BL6a	0.149	0.296
BXD01	-0.025	-0.543
BXD010	-0.247	-0.187
BXD011	-0.103	-0.125
BXD03	-0.261	0.031
BXD04	-0.16	-0.326
BXD05	0.437	0.183
BXD06	-0.346	-0.195
BXD07	0.147	0.0
BXD08	-0.32	-0.292
BXD09	-0.313	-0.234
CAST	0.672	0.32
CCcont	-0.288	0.109
DS01	0.123	0.445
DS02	0.02	0.093
DS04	0.274	0.072
DS0c	0.24	0.206
GP01	-0.214	-0.235
GP02	0.377	0.366
GP0c	0.555	-0.086
NOD	0.159	0.488
NZO	0.264	-0.208
PWK	0.344	0.408
H37Rv_KO_CtpC	0.069	-0.317
H37Rv_KO_CtpD	0.012	-0.061
H37Rv_KO_Rv1272	-0.168	-0.527
H37Rv_KO_SugABC	0.732	0.172
H37Rv_KO_MbtN	-0.327	-0.208
Trans05	-0.458	-0.07
macrophage_unactivated	-0.391	-0.035
IL1	-0.148	-0.033
Rapamycin	-0.132	0.064
Tcell	-0.74	-0.081
GMCSF	-0.23	0.576
IFNab	-0.738	-0.323
IFNg	-0.056	0.249
IFNg_GMCSF1	0.066	-0.496
Rv1432_day32	0.821	-0.064
Rv1565c_day32	0.193	0.114
secA2_input	-0.15	0.016
delta_Rv3594	-0.358	0.497
delta_Rv3717	0.019	-0.164
delta_Rv3811	-0.699	-0.065
delta_Rv0954	-0.2	0.516
PonA1	0.027	0.804
EccD1_KO	0.845	0.329
EspI_KO	0.519	0.034
PE35_KO	0.551	0.455
PPE68_KO	0.48	0.115
glycerol2	-0.025	0.034
lignocerate	-0.399	0.132
oleate	0.242	-0.106
phosphatidylcholine	-0.067	0.092
acetate	0.048	-0.366
glucAc	-0.294	-0.192
Rv0950ko	-0.157	0.121
Rv1096ko	0.781	-0.38
Rv3684ko	0.272	-0.033
delta_otsA_trehalose	0.987	-0.424